Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 61 of 318
Found at i:17617040 original size:26 final size:24
Alignment explanation
Indices: 17616994--17617053 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
17616984 ATTTGTTTTA
*
17616994 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
17617018 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
17617044 TTTTTTATTT
1 ATATTTATTT
17617054 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:17620532 original size:16 final size:16
Alignment explanation
Indices: 17620511--17620542 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17620501 ACTAAATGCC
*
17620511 ACTAAATTATTAGTTA
1 ACTAAACTATTAGTTA
17620527 ACTAAACTATTAGTTA
1 ACTAAACTATTAGTTA
17620543 GTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
ACTAAACTATTAGTTA
Found at i:17621840 original size:28 final size:28
Alignment explanation
Indices: 17621800--17621853 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
17621790 GCGCTTTTCT
17621800 CACAAACGCCGCTAAAGGTCATGGCCAC
1 CACAAACGCCGCTAAAGGTCATGGCCAC
*
17621828 CACAAATGCCGCTAAAGGTCATGGCC
1 CACAAACGCCGCTAAAGGTCATGGCC
17621854 TTTAGCGGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.13
Consensus pattern (28 bp):
CACAAACGCCGCTAAAGGTCATGGCCAC
Found at i:17623189 original size:8 final size:8
Alignment explanation
Indices: 17623133--17623173 Score: 75
Period size: 8 Copynumber: 5.2 Consensus size: 8
17623123 CCAAAACTTC
17623133 AATTTTTT
1 AATTTTTT
17623141 AA-TTTTT
1 AATTTTTT
17623148 AATTTTTT
1 AATTTTTT
17623156 AATTTTTT
1 AATTTTTT
17623164 AATTTTTT
1 AATTTTTT
17623172 AA
1 AA
17623174 AGATTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
AATTTTTT
Found at i:17623195 original size:8 final size:8
Alignment explanation
Indices: 17623133--17623195 Score: 63
Period size: 8 Copynumber: 7.5 Consensus size: 8
17623123 CCAAAACTTC
*
17623133 AATTTTTT
1 AATTTTTA
17623141 AATTTTTA
1 AATTTTTA
*
17623149 ATTTTTTA
1 AATTTTTA
*
17623157 ATTTTTTA
1 AATTTTTA
*
17623165 ATTTTTTAA
1 AATTTTT-A
17623174 AGATTTTTA
1 A-ATTTTTA
17623183 TAATTTTTA
1 -AATTTTTA
17623192 AATT
1 AATT
17623196 AACATATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
8 33 0.67
9 10 0.20
10 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
AATTTTTA
Found at i:17624383 original size:40 final size:41
Alignment explanation
Indices: 17624333--17624471 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
17624323 TAAAAAAGCA
*
17624333 CCGCTAATGCTC-GATCTTTAGCGGTGCTTTCTTAAAAATG
1 CCGCTAATGCTCAGATCTTTAGCGGTGCTTTCTTAAAAACG
17624373 CCGCTAATGCTCAGATCTTTAGCGGTGCTTTCTTAAAAACG
1 CCGCTAATGCTCAGATCTTTAGCGGTGCTTTCTTAAAAACG
*
17624414 CCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAACG
1 CCGCTAATGCTCAGATCTTTAGCGGTGCTTTCTTAAAAACG
*
17624455 CCGCTAATACTCA-ATCT
1 CCGCTAATGCTCAGATCT
17624472 ATTCGATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 16 0.17
41 79 0.83
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (41 bp):
CCGCTAATGCTCAGATCTTTAGCGGTGCTTTCTTAAAAACG
Found at i:17626182 original size:20 final size:19
Alignment explanation
Indices: 17626134--17626191 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
17626124 TTTATAATTT
*
17626134 TTTAAAATATTATTAAA-AA
1 TTTAAAA-AATATTAAATAA
*
17626153 TTTTAAAAATATTAAATAA
1 TTTAAAAAATATTAAATAA
*
17626172 TGTTAAAAAATAATAAATAA
1 T-TTAAAAAATATTAAATAA
17626192 ATAATAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTAAAAAATATTAAATAA
Found at i:17627573 original size:11 final size:12
Alignment explanation
Indices: 17627557--17627586 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
17627547 TTGATTTCAA
17627557 TTTTCTTTTA-G
1 TTTTCTTTTATG
17627568 TTTTCTTTTATG
1 TTTTCTTTTATG
17627580 TTTTCTT
1 TTTTCTT
17627587 AATTGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTATG
Found at i:17631769 original size:43 final size:43
Alignment explanation
Indices: 17631647--17631795 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 43
17631637 ATGTGTTCTT
* *
17631647 GTGTAAGACCACATCTGGGAC-GTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGA-TATTTGATTT-C
* *
17631691 GTGTAAGACCATGTCTAGGACA-TCGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGACAGT-GGCATCGATATTTGATTTC
*
17631733 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTTC
*
17631776 ATGTAAGACCACGTCTGGGA
1 GTGTAAGACCACGTCTGGGA
17631796 TATTGACATT
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 26 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTTC
Found at i:17635211 original size:44 final size:43
Alignment explanation
Indices: 17635162--17635300 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
17635152 TTCGGGCCTC
* *
17635162 GGCCTAGCAAGCTTTAA-GCTGGTGA-ATAATATTATCGGGCTTTA
1 GGCCTAGCAAGCTATAATGCCGGTGAGAT-A-A-TATCGGGCTTTA
* *
17635206 GGCCTAGCAGGCTATAATGCCGGTGAGATAATATCGGGCTTTG
1 GGCCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTTA
* * * * *
17635249 GGCCTAGCAGGCTATAATGCCAGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTTA
*
17635292 AGCCTAGCA
1 GGCCTAGCA
17635301 GGGTATGTGA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 57 0.69
44 16 0.19
45 8 0.10
46 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GGCCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTTA
Found at i:17635241 original size:43 final size:43
Alignment explanation
Indices: 17635189--17635302 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
17635179 GCTGGTGAAT
* *
17635189 AATATTATCGGGCTTTAGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
* *
17635232 GATAATATCGGGCTTTGGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
* * *
17635275 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTTAGGCCTAGCAGG
17635303 GTATGTGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
Found at i:17639038 original size:37 final size:37
Alignment explanation
Indices: 17638988--17639061 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
17638978 AGTTGAATCA
17638988 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
1 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
17639025 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
1 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
17639062 AAGAACTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.08, C:0.22, G:0.27, T:0.43
Consensus pattern (37 bp):
GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
Found at i:17643106 original size:28 final size:27
Alignment explanation
Indices: 17643043--17643112 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17643033 ATAGTGAGTC
*
17643043 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
17643070 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
17643098 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17643113 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:17646332 original size:43 final size:42
Alignment explanation
Indices: 17646251--17646411 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
17646241 TGTGTTCTCG
* * ** *
17646251 TGTAAGACCACGTC-GGGACGTTGGCA-CCAACTTATGATTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATTTA-A
17646294 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTAA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTAA
* * *
17646336 TGTAAGACTC-TGTCCGGGACAGTGACATCGTTATTTGA-TTACA
1 TGTAAGAC-CATGTCTGGGACATTGGCATCG-TATTTGATTTA-A
* * *
17646379 TGTAAGACCATGTTTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
17646412 GTGCTTTCTG
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
42 32 0.33
43 51 0.52
44 13 0.13
45 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTAA
Found at i:17646355 original size:42 final size:44
Alignment explanation
Indices: 17646285--17646391 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 44
17646275 CACCAACTTA
** * * *
17646285 TGATTTATGTGTAAGACCATGTCTGGGACATTGGCATCG-TATT
1 TGATTTACATGTAAGACCATGTCCGGGACAGTGACATCGTTATT
17646328 TGATTTA-ATGTAAGACTC-TGTCCGGGACAGTGACATCGTTATT
1 TGATTTACATGTAAGAC-CATGTCCGGGACAGTGACATCGTTATT
17646371 TGA-TTACATGTAAGACCATGT
1 TGATTTACATGTAAGACCATGT
17646392 TTGGGACGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
42 29 0.52
43 27 0.48
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCCGGGACAGTGACATCGTTATT
Found at i:17649056 original size:28 final size:28
Alignment explanation
Indices: 17649025--17649103 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
17649015 GACATCAAAT
17649025 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
17649053 ATGGTACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
17649081 ATGACACTTAGTGTACGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
17649104 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:17653489 original size:27 final size:27
Alignment explanation
Indices: 17653449--17653699 Score: 265
Period size: 27 Copynumber: 9.4 Consensus size: 27
17653439 ATATATACAT
* * *
17653449 CACAT-AGGGAAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
17653475 CATATAAGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
17653502 C-TATAAGGGCAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
17653528 CTCATAAGGGCAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
17653555 CACGTAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* ** *
17653582 CACGTAAAAGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
17653609 CACATAAGGGCAAAACAATCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
17653636 CA-ATTAAGGGCAAAACAATCATTTTAC
1 CACA-TAAGGGCAAAACAGTCATTTTAC
* *
17653663 CACATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
17653690 CACATAAGGG
1 CACATAAGGG
17653700 GTCTAGGTAA
Statistics
Matches: 197, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
26 28 0.14
27 168 0.85
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:17654926 original size:13 final size:13
Alignment explanation
Indices: 17654908--17654932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17654898 GAGTAAGCAC
17654908 AGAAAACAAAAGT
1 AGAAAACAAAAGT
17654921 AGAAAACAAAAG
1 AGAAAACAAAAG
17654933 ACAGTAGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (13 bp):
AGAAAACAAAAGT
Found at i:17657499 original size:30 final size:30
Alignment explanation
Indices: 17657440--17657500 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
17657430 TTATTTAATT
17657440 AATTATCATCTTTTATTTTTTTCACTTTCC
1 AATTATCATCTTTTATTTTTTTCACTTTCC
* *
17657470 AATT-TCATCCTTTTCTTTATTTT-ATTTTCC
1 AATTATCAT-CTTTTATTT-TTTTCACTTTCC
17657500 A
1 A
17657501 TGGATGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 19 0.70
31 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (30 bp):
AATTATCATCTTTTATTTTTTTCACTTTCC
Found at i:17659671 original size:40 final size:41
Alignment explanation
Indices: 17659626--17659792 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
17659616 CGGAATATAA
*
17659626 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
17659666 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
17659706 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
17659746 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
17659785 CCGGATAT
1 CCGGATAT
17659793 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:17660638 original size:17 final size:19
Alignment explanation
Indices: 17660615--17660660 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
17660605 AAGAAGCATG
17660615 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
17660633 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
17660651 AATCATGCTC
1 AATCATGCTC
17660661 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:17664608 original size:17 final size:19
Alignment explanation
Indices: 17664585--17664630 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
17664575 AAGAAGCATG
17664585 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
17664603 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
17664621 AATCATGCTC
1 AATCATGCTC
17664631 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:17666660 original size:40 final size:40
Alignment explanation
Indices: 17666532--17666662 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
17666522 TATGCTGGAA
* * * *
17666532 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
17666572 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
17666612 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
17666652 ATTATATCCGG
1 ATTATATCCGG
17666663 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:17672004 original size:47 final size:47
Alignment explanation
Indices: 17671884--17672176 Score: 280
Period size: 47 Copynumber: 6.6 Consensus size: 47
17671874 TACGTGTAAT
* * * *
17671884 GTGGCGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
* *
17671932 GTGGTGCTAAGTGGATATGCTACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
*
17671979 GTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17672017 GTGGTGCTAAGTGGATATGCCATGGTTACATATATTAATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17672064 ATGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG------TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * ** *
17672102 ATGGTGCTAAGTGGATATGCCAAAGTTACATATATTGATTTATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
*
17672149 GTGGTGCTAAGTGGATATACCATGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
17672177 AACATGTAAC
Statistics
Matches: 202, Mismatches: 25, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
38 59 0.29
39 2 0.01
40 4 0.02
41 3 0.01
44 3 0.01
45 4 0.02
46 2 0.01
47 88 0.44
48 37 0.18
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:17672017 original size:38 final size:38
Alignment explanation
Indices: 17671975--17672221 Score: 208
Period size: 38 Copynumber: 6.0 Consensus size: 38
17671965 ATTGATTCAT
*
17671975 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
*
17672013 TAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTAATTCAT-
1 TAACGTGGTGCTAAGTGGATATACCATGG-----T-TA--AA--CATG
*
17672060 TAACATGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
* * ** *
17672098 TAACATGGTGCTAAGTGGATATGCCAAAGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG
17672139 ATTTATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
* * * *
17672183 TAACGTGGTGCTAAGTTGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
17672221 T
1 T
17672222 TAATTTGAAA
Statistics
Matches: 172, Mismatches: 17, Indels: 40
0.75 0.07 0.17
Matches are distributed among these distances:
37 3 0.02
38 91 0.53
39 3 0.02
40 2 0.01
41 4 0.02
42 1 0.01
43 1 0.01
44 4 0.02
45 2 0.01
46 3 0.02
47 55 0.32
48 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
Found at i:17672028 original size:85 final size:85
Alignment explanation
Indices: 17671923--17672214 Score: 494
Period size: 85 Copynumber: 3.4 Consensus size: 85
17671913 ACATATTGAT
*
17671923 ACATGTAACGTGGTGCTAAGTGGATATGCTACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
17671988 AGTGGATATACCACGGTTAA
66 AGTGGATATACCATGGTTAA
* * *
17672008 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTAATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
17672073 AGTGGATATACCATGGTTAA
66 AGTGGATATACCATGGTTAA
* ** *
17672093 ACATGTAACATGGTGCTAAGTGGATATGCCAAAGTTACATATATTGATTTATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
17672158 AGTGGATATACCATGGTTAA
66 AGTGGATATACCATGGTTAA
*
17672178 ACATGTAACGTGGTGCTAAGTTGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
17672215 TACATGTTAA
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 192 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCATGGTTAA
Found at i:17673414 original size:29 final size:28
Alignment explanation
Indices: 17673380--17673440 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 28
17673370 GAGCTAATGA
17673380 TTATTTTCCATGCATGGTTGGTAATATG
1 TTATTTTCCATGCATGGTTGGTAATATG
17673408 CTTATTTTCCATGCATGGTTGGTAATATG
1 -TTATTTTCCATGCATGGTTGGTAATATG
17673437 TTAT
1 TTAT
17673441 GTGTTGCTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (28 bp):
TTATTTTCCATGCATGGTTGGTAATATG
Found at i:17677585 original size:29 final size:29
Alignment explanation
Indices: 17677553--17677684 Score: 120
Period size: 29 Copynumber: 4.6 Consensus size: 29
17677543 AGGCATATTG
*
17677553 TTAACAGATATTGCCACAAAGGCTTTCTT
1 TTAACAGAGATTGCCACAAAGGCTTTCTT
** * *
17677582 TTAATGGAGATTTCCACAAAAGCTTTCTT
1 TTAACAGAGATTGCCACAAAGGCTTTCTT
* * * * * *
17677611 TTGATATAGATAGCCACAACGGCTTCCTT
1 TTAACAGAGATTGCCACAAAGGCTTTCTT
* ** *
17677640 TTAACAGACATCACCACAAAGACTTTCTT
1 TTAACAGAGATTGCCACAAAGGCTTTCTT
*
17677669 TTAACAAAGATTGCCA
1 TTAACAGAGATTGCCA
17677685 TAAAAACTTC
Statistics
Matches: 77, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (29 bp):
TTAACAGAGATTGCCACAAAGGCTTTCTT
Found at i:17680132 original size:18 final size:18
Alignment explanation
Indices: 17680106--17680148 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
17680096 CCATTATAGT
*
17680106 AACAATAATCAGTGCAGA
1 AACAGTAATCAGTGCAGA
*
17680124 AACAGTAATCAGTGCAGT
1 AACAGTAATCAGTGCAGA
17680142 AACAGTA
1 AACAGTA
17680149 TACAAGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (18 bp):
AACAGTAATCAGTGCAGA
Found at i:17680477 original size:27 final size:27
Alignment explanation
Indices: 17680440--17680625 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
17680430 ATATATACAT
*
17680440 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * * *
17680466 CATATAAAGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
17680493 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
17680520 CACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * * *
17680547 CATATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
17680574 CAC-TTAGGGCAAAACAATCATTTTAG
1 CACATAAGGGCAAAACAATCATTTTAC
* *
17680600 CACATAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
17680626 TCAATTAGGG
Statistics
Matches: 135, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 25 0.19
27 110 0.81
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:17680505 original size:54 final size:54
Alignment explanation
Indices: 17680440--17680625 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 54
17680430 ATATATACAT
* * * * * *
17680440 CACAT-AGGGCAAAACAATCATCTTACCATATAAAGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* *
17680493 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* * *
17680547 CATATAAGGGTAAAATAGTCATTTTACCACT-T-AGGGCAAAACAATCATTTTAG
1 CACATAAGGGCAAAATAGTCATTTTACCA-TATAAGGGCAAAACAATCATTTTAC
17680600 CACATAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
17680626 TCAATTAGGG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.41
54 68 0.59
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (54 bp):
CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
Found at i:17682727 original size:18 final size:18
Alignment explanation
Indices: 17682684--17682730 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17682674 TGGCCCTTTA
* *
17682684 CAATAACAATAATTAGTG
1 CAATAACAGTAATCAGTG
*
17682702 CAAAAACAGTAATCAGTG
1 CAATAACAGTAATCAGTG
*
17682720 CAGTAACAGTA
1 CAATAACAGTA
17682731 TACAAGTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (18 bp):
CAATAACAGTAATCAGTG
Found at i:17683252 original size:27 final size:27
Alignment explanation
Indices: 17683050--17683262 Score: 221
Period size: 27 Copynumber: 7.9 Consensus size: 27
17683040 TATATACATT
* * *
17683050 ACAT-AGGGCAAAATAGTCATCTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* * * *
17683076 ATATAATGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
*
17683103 ATATAAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* * *
17683130 AAATAAGGGAAAAACAACCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
*
17683157 ACATAAGGGCAAAACAACCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* * * *
17683184 ACTTAGGGGCAAAACAGTTATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* * * *
17683211 ATATAAGGGCGAAACAGTTATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* *
17683238 ACATAAGGACAAAACAATAATTTTA
1 ACATAAGGGCAAAACAATCATTTTA
17683263 TCAATTAGGG
Statistics
Matches: 161, Mismatches: 25, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (27 bp):
ACATAAGGGCAAAACAATCATTTTACC
Found at i:17683992 original size:20 final size:20
Alignment explanation
Indices: 17683951--17683995 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17683941 AATGGGATTG
*
17683951 CACTTTGGTGCCTCTATTTA
1 CACTTTGGTGCCTCTATATA
* *
17683971 CACTTTGGTGCCTTTGTATA
1 CACTTTGGTGCCTCTATATA
17683991 CACTT
1 CACTT
17683996 CAGTGTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (20 bp):
CACTTTGGTGCCTCTATATA
Found at i:17696442 original size:29 final size:29
Alignment explanation
Indices: 17696417--17696510 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
17696407 TGAAGATCGT
*
17696417 CACAAAGGCTTACTTTTAACAGAGATAAT
1 CACAAAGGCTTACTTTTAACAGAGATAAC
* * * * *
17696446 CAGTAAA-GTTTCCTTTTAACAAAGATCAC
1 CA-CAAAGGCTTACTTTTAACAGAGATAAC
* * * *
17696475 CACAAAGACTTTCTTTTAGCAGAGATAGC
1 CACAAAGGCTTACTTTTAACAGAGATAAC
17696504 CACAAAG
1 CACAAAG
17696511 ACATCCTTTT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
28 3 0.06
29 43 0.88
30 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (29 bp):
CACAAAGGCTTACTTTTAACAGAGATAAC
Found at i:17703643 original size:2 final size:2
Alignment explanation
Indices: 17703636--17703667 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17703626 CTATGTTGTT
17703636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17703668 AGGATTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17712824 original size:504 final size:505
Alignment explanation
Indices: 17711868--17712879 Score: 1724
Period size: 504 Copynumber: 2.0 Consensus size: 505
17711858 CCATAGCCGA
*
17711868 TTGCAATAAAAGCCGAAATCTCAAAAACTCACTTATTGTGCCGATTTCTCCAAGCAAAAATCCTT
1 TTGCAATAAAAGCCGAAATCTCAAAAACTCACTTATTGTGCCGATTTCTCCAAGCAAAAATCATT
*
17711933 TACTTTTTTTTGTTCTTTCTTATCAACTTTCATCTTCTCCAAACCCTTAGTATCTGTCGACAACA
66 TACTTTTTTTTGTTCTTTCTAATCAACTTTCATCTTCTCCAAACCCTTAGTATCTGTCG--AACA
17711998 TTACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCTTCATCACTTAAAAGTCGAAATACC
129 -TACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCTTCATCACTTAAAAGTCGAAATACC
*
17712063 ATAGATTTAGGGACTCATAGCCGAAACTTAAGATCTCTTGGATTCGAGTTCTACTATAATTTAGA
193 ATAGATTTAGGGACTCATAGCCGAAACTTAAGATCTCCTGGATTCGAGTTCTACTATAATTTAGA
* * *
17712128 GGATAGATCTGCATCATATCTATGTAGAAATCAAAGAGGCATAAGTGGTAAGTGCTCATCACCTC
258 GGATAGATCTGCATCAGATCTACGTAGAAATCAAAGAGGAATAAGTGGTAAGTGCTCATCACCTC
* *
17712193 AGATCTAGTTTTATTTTACAATTTAGAAAAGCCGAAGTCCTTAAACTCTAGGGAGGCTGTCGATT
323 AGATCTAGTCTTATTTTACAATTTAGAAAAGCCGAAGTCCTTAAAATCTAGGGAGGCTGTCGATT
*
17712258 TGGGCATAGAGCTTTAAGGGTCTTGAACCTACGATTTCTTTTGGTGATTAGTGTCTTCCAGAGGT
388 TGGGCATAGAGCTATAAGGGTCTTGAACCTACGATTTCTTTTGGTGATTAGTGTCTTCCAGAGGT
17712323 TTGATTGAAGGCTTGGATCTTTGGAACAACTAGACTTAGATCTAGTCATCGGT
453 TTGATTGAAGGCTTGGATCTTTGGAACAACTAGACTTAGATCTAGTCATCGGT
* * ** * *
17712376 TTGCCATAAAAGCCGAAATTTTGAAAACTCACTTCTTGTGCCGATTTCTCCAAGCGAAAATCATT
1 TTGCAATAAAAGCCGAAATCTCAAAAACTCACTTATTGTGCCGATTTCTCCAAGCAAAAATCATT
* *
17712441 TACTTTTTTTTGTTCTTTCTAATCAACTTTCATCTTCTCTAAACCCTTAGTATCTGTCG-GCA-A
66 TACTTTTTTTTGTTCTTTCTAATCAACTTTCATCTTCTCCAAACCCTTAGTATCTGTCGAACATA
17712504 CATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCTTCATCACTTAAAAAG-CTGAAATACCA
131 CATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCTTCATCACTT-AAAAGTC-GAAATACCA
* * *
17712568 TAGATTTAGGGACTCATAGCTGAAACTTCAGATCTCCTGGATTCGAGTTCTACTATCATTTAGAG
194 TAGATTTAGGGACTCATAGCCGAAACTTAAGATCTCCTGGATTCGAGTTCTACTATAATTTAGAG
* *
17712633 GATAGATCTGCATTAGATCTGCGTAGAAATCAAAGAGGAATAAGTGGTAAGTGCTCATCACCTCA
259 GATAGATCTGCATCAGATCTACGTAGAAATCAAAGAGGAATAAGTGGTAAGTGCTCATCACCTCA
*
17712698 GATCTAGTCTTATTTTACAATTTAGAAAAGTCGAAGTCCTTAAAATCTAGGGAGGCTGTCGATTT
324 GATCTAGTCTTATTTTACAATTTAGAAAAGCCGAAGTCCTTAAAATCTAGGGAGGCTGTCGATTT
* *
17712763 GGGCATAGGGCTATAAGGGTCTTTAACCTACGATTTCTTTTGGTGATTAGTGTCTTCCAGAGGTT
389 GGGCATAGAGCTATAAGGGTCTTGAACCTACGATTTCTTTTGGTGATTAGTGTCTTCCAGAGGTT
*
17712828 TGATTGAAGGCTTGGATCTTTGGAACAACTAGACTTAGATCTAGTCTTCGGT
454 TGATTGAAGGCTTGGATCTTTGGAACAACTAGACTTAGATCTAGTCATCGGT
17712880 GTTCGAAAAA
Statistics
Matches: 476, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
503 49 0.10
504 310 0.65
505 2 0.00
508 115 0.24
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (505 bp):
TTGCAATAAAAGCCGAAATCTCAAAAACTCACTTATTGTGCCGATTTCTCCAAGCAAAAATCATT
TACTTTTTTTTGTTCTTTCTAATCAACTTTCATCTTCTCCAAACCCTTAGTATCTGTCGAACATA
CATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCTTCATCACTTAAAAGTCGAAATACCATA
GATTTAGGGACTCATAGCCGAAACTTAAGATCTCCTGGATTCGAGTTCTACTATAATTTAGAGGA
TAGATCTGCATCAGATCTACGTAGAAATCAAAGAGGAATAAGTGGTAAGTGCTCATCACCTCAGA
TCTAGTCTTATTTTACAATTTAGAAAAGCCGAAGTCCTTAAAATCTAGGGAGGCTGTCGATTTGG
GCATAGAGCTATAAGGGTCTTGAACCTACGATTTCTTTTGGTGATTAGTGTCTTCCAGAGGTTTG
ATTGAAGGCTTGGATCTTTGGAACAACTAGACTTAGATCTAGTCATCGGT
Found at i:17723783 original size:38 final size:38
Alignment explanation
Indices: 17723719--17723831 Score: 127
Period size: 38 Copynumber: 2.9 Consensus size: 38
17723709 ATTTGATGTG
* *
17723719 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
* **
17723759 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
17723797 TATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
17723832 TTATATTCGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 50 0.79
39 5 0.08
40 8 0.13
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:17723832 original size:38 final size:38
Alignment explanation
Indices: 17723735--17723842 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
17723725 GGCTTAAAGA
* ** *
17723735 CCCGCAGGCTTCGTGTTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* *
17723773 CCTGCAGGCTTCGTGCTGGTATTATATCTGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
17723811 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
17723843 CCTTCGTGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:17724045 original size:43 final size:43
Alignment explanation
Indices: 17723835--17724032 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
17723825 GCTGGTATTA
**
17723835 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
17723878 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
17723921 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
17723964 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
17724007 TATTCTGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
17724033 GTAATGCCGG
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 147 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:17734124 original size:42 final size:42
Alignment explanation
Indices: 17734077--17734160 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
17734067 TATGTATACG
*
17734077 TCACAAAACATAATCCCACAACTTCTAGCCTATACATGCCAT
1 TCACAAAACATAATCCCACAACTTCTAGCCTAAACATGCCAT
17734119 TCACAAAACATAATCCCACAACTTCTAGCCTAAACATGCCAT
1 TCACAAAACATAATCCCACAACTTCTAGCCTAAACATGCCAT
17734161 ACTTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.33, G:0.05, T:0.23
Consensus pattern (42 bp):
TCACAAAACATAATCCCACAACTTCTAGCCTAAACATGCCAT
Found at i:17740598 original size:24 final size:24
Alignment explanation
Indices: 17740566--17740620 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
17740556 ACACCTTCAT
*
17740566 ATACATATACACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
17740590 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
17740614 ATACATA
1 ATACATA
17740621 CCTTTCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:17747161 original size:28 final size:28
Alignment explanation
Indices: 17747096--17747196 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
17747086 ATAGTGAATC
*
17747096 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
17747125 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17747153 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
17747183 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17747197 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17749484 original size:12 final size:12
Alignment explanation
Indices: 17749467--17749492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17749457 TTAAATGTAA
17749467 TTCATACTCAAT
1 TTCATACTCAAT
17749479 TTCATACTCAAT
1 TTCATACTCAAT
17749491 TT
1 TT
17749493 AGTCCAATTT
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:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCATACTCAAT
Found at i:17750595 original size:18 final size:19
Alignment explanation
Indices: 17750572--17750607 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17750562 TCCACCAATG
*
17750572 ATTAGATTCTCAA-AATCC
1 ATTAGATCCTCAATAATCC
17750590 ATTAGATCCTCAATAATC
1 ATTAGATCCTCAATAATC
17750608 ATAACATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (19 bp):
ATTAGATCCTCAATAATCC
Found at i:17755532 original size:47 final size:47
Alignment explanation
Indices: 17755467--17755732 Score: 247
Period size: 47 Copynumber: 5.7 Consensus size: 47
17755457 CAGATATTTG
17755467 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * * * * * *
17755514 GGCATTCGAGCTCATTGAGTTGAGTCCGGGTTCACT--TATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTA
* * *
17755561 -ACATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * * * *
17755607 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTA
* * * *
17755654 -ACGTTCGAACTCGTTGAGTTGAGTCCGGGTTCGTGAAATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
17755700 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
17755733 ACTTATGGAT
Statistics
Matches: 165, Mismatches: 44, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
45 2 0.01
46 64 0.39
47 97 0.59
48 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:17755628 original size:93 final size:93
Alignment explanation
Indices: 17755469--17755779 Score: 505
Period size: 93 Copynumber: 3.3 Consensus size: 93
17755459 GATATTTGGG
* *
17755469 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATTCGAGCTCATTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGT
*
17755534 TGAGTCCGGGTTCACTTATGGATGCGAA
66 TGAGTCCGAGTTCACTTATGGATGCGAA
* * *
17755562 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCAAACTCATTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGT
17755627 TGAGTCCGAGTTCACTTATGGATGCGAA
66 TGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
17755655 CGTTCGAACTCGTTGAGTTGAGTCCGGGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGT
17755720 TGAGTCCGAGTTCACTTATGGATGCGAA
66 TGAGTCCGAGTTCACTTATGGATGCGAA
** *
17755748 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
17755780 CTTATGGGCG
Statistics
Matches: 201, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 201 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGT
TGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:17755679 original size:46 final size:46
Alignment explanation
Indices: 17755528--17755786 Score: 224
Period size: 46 Copynumber: 5.6 Consensus size: 46
17755518 TTCGAGCTCA
* *
17755528 TTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCG
* * * * * *
17755574 TTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCAAACTCA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAACTCG
*
17755621 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCG
* * * * * * * *
17755667 TTGAGTTGAGTCCGGGTTC-GTGAAATGTA-ACTAGGCATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCGAACTCG
* *
17755714 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCG
*
17755760 TTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
17755787 GCGGGTTACA
Statistics
Matches: 164, Mismatches: 35, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
45 3 0.02
46 83 0.51
47 60 0.37
48 4 0.02
50 4 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCG
Found at i:17759232 original size:516 final size:520
Alignment explanation
Indices: 17758195--17759248 Score: 1478
Period size: 516 Copynumber: 2.0 Consensus size: 520
17758185 ATTCCAAATG
* * * ** *
17758195 GCCAAAGTCATTACCAAAACATAACCAACATGGTCAAAGTTTCTATACATGCCATATACTTAAAA
1 GCCAAAATCATTACCAAAACATAACCAACATGATCAAAATCCCTATACATGCCATATACTGAAAA
* *
17758260 TACTAAGGTTCATAGGTACCGAGTGATAGGTGGATAGTGTGAAGCGATCCCTGACGATCCCCGAA
66 TACCAAAGTTCATAGGTACCGAGTGATAGGTGGATAGTGTGAAGCGATCCCTGACGATCCCCGAA
*** *
17758325 TTTGATCTAGCTTGATAACACTATAAAACAAGGAAAAAAATAAACAAAGTAAACTATAAAGCTTA
131 TCCAAACTAGCTTGATAACACTATAAAACAAGG------A-AAACAAAGTAAAC--TAAAGC-T-
*
17758390 GAAAGCTCGTATGAAATAATCTTAATATAATCATATCCACAAACTCAACAATTGATTATAGATAC
185 -AAAGCTCGTATGAAATAATCTCAATATAATCATATCCACAAACTCAACAATTGATTATAGATAC
*
17758455 ATGAATTCACATCAACTAACAAACCTTTCAATTACTCATTCACAAAACTATATACTTTTTCAACA
249 ATAAATTCACATCAACTAACAAACCTTTCAATTACTCATTCACAAAACTATATACTTTTTCAACA
* * * *
17758520 TTTCTTTCGATTCAAAGCTAATATGGTTTATGCACATTCCTGTACCATCTCGTACCAATCTCATC
314 TTTCTTTCGATTCAAAGCTAATATAGTTTATGCACATACCTATACCATCTCATACCAATCTCATC
* * *
17758585 TCAACCATATCATTCATTTACCCGTTGAACCATTCGGAATAGAAGTCGGATACTCAGGAGTCTTG
379 TCAACCAAATCATTCATTTACCCATTGAACCATTCGGAATAGAAGTCAGATACTCAGGAGTCTTG
* * * * * *
17758650 CACACTAAGTACCTATACTATAGCCCGAAGCCAAATTAAGGTAACTTATTTTTGAAGTGCTGATA
444 CACACTAAGTACCTATACCATAGCCCGAAACCAAATCAAGGTAACTTATATTCGAAGTACTGATA
* *
17758715 TCATGGCTCGAA
509 TCATGGCCCAAA
*
17758727 GCCAAAATTATTACCAAAACATAACCAACATGATCAAAATCCCTATACATGCCATATACTGAAAA
1 GCCAAAATCATTACCAAAACATAACCAACATGATCAAAATCCCTATACATGCCATATACTGAAAA
*
17758792 TACCAAAGTTCATAGGTACCGAGTGATAGGTGGATAGTGTGAAGTGATCTCC-GACGAT-CCCGA
66 TACCAAAGTTCATAGGTACCGAGTGATAGGTGGATAGTGTGAAGCGATC-CCTGACGATCCCCGA
*
17758855 ATCCAAACTAGCTTGATAACACTGTAAAACATA-G-AAA-AAA-TAAAC-AAAG-T-AAGCTCGT
130 ATCCAAACTAGCTTGATAACACTATAAAACA-AGGAAAACAAAGTAAACTAAAGCTAAAGCTCGT
17758913 ATGAAATAATCTCAATATAATCATATCCACATAACTCAACAATTGATTATAGATACATAAATTCA
194 ATGAAATAATCTCAATATAATCATATCCACA-AACTCAACAATTGATTATAGATACATAAATTCA
* * * * * *
17758978 CATCAACTAACAAACCTTTCAATTAGTCATTCATAAAACTATATATTTTCTTTATCATTTCTTTT
258 CATCAACTAACAAACCTTTCAATTACTCATTCACAAAACTATATACTTT-TTCAACATTTCTTTC
* *
17759043 GTTTCAAAGCTAATATAGTTTATGCACATACCTATAGCATCTCATACCAATCTCATTCTCAACCA
322 GATTCAAAGCTAATATAGTTTATGCACATACCTATACCATCTCATACCAATCTCA-TCTCAACCA
* * *
17759108 AATCGTTCATTTACCTATTGAACCATTTGGAATAGAAGTCAGATACTCAGGAGTCTTGCACACTA
386 AATCATTCATTTACCCATTGAACCATTCGGAATAGAAGTCAGATACTCAGGAGTCTTGCACACTA
* * *
17759173 AGTACCTATACCATGGCCTGAAACCAAATCAAGGTAACTTATATTCGAAGTATTGATATCATGGC
451 AGTACCTATACCATAGCCCGAAACCAAATCAAGGTAACTTATATTCGAAGTACTGATATCATGGC
17759238 CCAAA
516 CCAAA
17759243 GCCAAA
1 GCCAAA
17759249 TTTTCCGATA
Statistics
Matches: 471, Mismatches: 46, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
513 38 0.08
514 78 0.17
515 61 0.13
516 134 0.28
518 4 0.01
521 5 0.01
522 3 0.01
523 3 0.01
531 32 0.07
532 111 0.24
533 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (520 bp):
GCCAAAATCATTACCAAAACATAACCAACATGATCAAAATCCCTATACATGCCATATACTGAAAA
TACCAAAGTTCATAGGTACCGAGTGATAGGTGGATAGTGTGAAGCGATCCCTGACGATCCCCGAA
TCCAAACTAGCTTGATAACACTATAAAACAAGGAAAACAAAGTAAACTAAAGCTAAAGCTCGTAT
GAAATAATCTCAATATAATCATATCCACAAACTCAACAATTGATTATAGATACATAAATTCACAT
CAACTAACAAACCTTTCAATTACTCATTCACAAAACTATATACTTTTTCAACATTTCTTTCGATT
CAAAGCTAATATAGTTTATGCACATACCTATACCATCTCATACCAATCTCATCTCAACCAAATCA
TTCATTTACCCATTGAACCATTCGGAATAGAAGTCAGATACTCAGGAGTCTTGCACACTAAGTAC
CTATACCATAGCCCGAAACCAAATCAAGGTAACTTATATTCGAAGTACTGATATCATGGCCCAAA
Found at i:17761639 original size:20 final size:20
Alignment explanation
Indices: 17761614--17761664 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
17761604 ACAATCATGT
*
17761614 AGGTATCGATACTGTAACAA
1 AGGTATCGATACTATAACAA
17761634 AGGTATCGATACTATAACAA
1 AGGTATCGATACTATAACAA
17761654 AGGTATCGATA
1 AGGTATCGATA
17761665 ATTCTCTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (20 bp):
AGGTATCGATACTATAACAA
Found at i:17765477 original size:46 final size:46
Alignment explanation
Indices: 17765427--17765597 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
17765417 TGGTTGAGCA
*
17765427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
17765473 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* ** *
17765520 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
17765566 CCCGAGCT-GTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17765598 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 7 0.07
44 11 0.10
45 15 0.14
46 37 0.35
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:17773029 original size:46 final size:48
Alignment explanation
Indices: 17772975--17773111 Score: 151
Period size: 47 Copynumber: 2.9 Consensus size: 48
17772965 GGATGGTTGA
* *
17772975 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAA-AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCAACAG
* * *
17773023 G-A-CCGAACTCGTTGAGTTGAGTCTGAG-T--TTGTGCGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATG-GATGCAAC-AG
17773068 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGC
17773112 GAACTCCCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
42 4 0.06
43 6 0.08
45 3 0.04
46 24 0.33
47 25 0.35
48 2 0.03
50 4 0.06
51 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (48 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCAACAG
Found at i:17773134 original size:93 final size:92
Alignment explanation
Indices: 17772975--17773144 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 92
17772965 GGATGGTTGA
* *
17772975 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGACCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAAT-ACCCAACTCGTCGAGT
17773040 TGAGTCTGAGTTTGTGCGATGTAACTAG
65 TGAGTCTGAGTTTGTGCGATGTAACTAG
* * *
17773068 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACT-CCCAAGCTCGTCGAG
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGC-AAATACCCAA-CTCGTCGAG
*
17773132 TTGAGTTTGAGTT
64 TTGAGTCTGAGTT
17773145 CACTTAGGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 4 0.06
93 62 0.90
94 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATACCCAACTCGTCGAGTT
GAGTCTGAGTTTGTGCGATGTAACTAG
Found at i:17780852 original size:40 final size:40
Alignment explanation
Indices: 17780797--17780984 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
17780787 ATAACCACAA
* * *
17780797 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
17780837 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
17780877 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
17780917 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* *
17780957 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
17780985 GTATCATTCA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:17780917 original size:80 final size:80
Alignment explanation
Indices: 17780784--17780984 Score: 314
Period size: 80 Copynumber: 2.5 Consensus size: 80
17780774 AATTTAGCCA
* * * *
17780784 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCT
1 GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCT
17780849 TCGGGTCTTAGCCCG
66 TCGGGTCTTAGCCCG
*
17780864 GATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
1 GATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
17780928 TTCGGGTCTTAGCCCG
65 TTCGGGTCTTAGCCCG
* * *
17780944 GATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
17780985 GTATCATTCA
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 109 0.98
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCT
TCGGGTCTTAGCCCG
Found at i:17785911 original size:28 final size:28
Alignment explanation
Indices: 17785865--17785953 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
17785855 GGAGAAAGCG
*
17785865 TTCTGGTGGCTCTGGCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
17785893 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* ** *
17785921 ATCTGGTGATTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
17785948 TT-TGGT
1 TTCTGGT
17785954 AGCCATGCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.08
27 9 0.18
28 38 0.75
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:17800092 original size:40 final size:40
Alignment explanation
Indices: 17800024--17800201 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
17800014 CCAAGGCCAA
* * * *
17800024 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
17800063 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
17800103 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
17800143 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
17800183 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
17800202 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:17803855 original size:5 final size:5
Alignment explanation
Indices: 17803845--17803921 Score: 77
Period size: 5 Copynumber: 14.6 Consensus size: 5
17803835 GTAATACTTA
*
17803845 TATAT TATAT TAT-T T-TAT GTATTAGT AATAGT TATAT ATTATAT TATAT
1 TATAT TATAT TATAT TATAT -TA-TA-T TATA-T TATAT --TATAT TATAT
17803894 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
17803922 CTTTGAAGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 43 0.68
6 7 0.11
7 8 0.13
8 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:17803872 original size:34 final size:33
Alignment explanation
Indices: 17803797--17803921 Score: 115
Period size: 34 Copynumber: 4.0 Consensus size: 33
17803787 TTTGTTATAA
*
17803797 TTTA-TATT-GTAATAATAATA-ATTATA-TAT
1 TTTATTATTAGTAATAATTATATATTATATTAT
* *
17803826 TATATT-TTAGTAATACTTATATATTATATTAT
1 TTTATTATTAGTAATAATTATATATTATATTAT
*
17803858 TTTATGTATTAGTAATAGTTATATATTATATTAT
1 TTTAT-TATTAGTAATAATTATATATTATATTAT
* *
17803892 ATTA-TATTA-T-ATTA-TATTATATTATATTAT
1 TTTATTATTAGTAATAATTA-TATATTATATTAT
17803922 CTTTGAAGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.09
30 26 0.32
31 7 0.09
32 12 0.15
33 1 0.01
34 28 0.35
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (33 bp):
TTTATTATTAGTAATAATTATATATTATATTAT
Found at i:17803894 original size:10 final size:10
Alignment explanation
Indices: 17803879--17803921 Score: 86
Period size: 10 Copynumber: 4.3 Consensus size: 10
17803869 GTAATAGTTA
17803879 TATATTATAT
1 TATATTATAT
17803889 TATATTATAT
1 TATATTATAT
17803899 TATATTATAT
1 TATATTATAT
17803909 TATATTATAT
1 TATATTATAT
17803919 TAT
1 TAT
17803922 CTTTGAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTATAT
Found at i:17803899 original size:15 final size:15
Alignment explanation
Indices: 17803879--17803921 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
17803869 GTAATAGTTA
17803879 TATATTATATTATAT
1 TATATTATATTATAT
17803894 TATATTATATTATAT
1 TATATTATATTATAT
17803909 TATATTATATTAT
1 TATATTATATTAT
17803922 CTTTGAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTATATTATAT
Found at i:17804014 original size:16 final size:17
Alignment explanation
Indices: 17803993--17804025 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17803983 ATAATTATAG
17803993 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
17804009 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
17804026 TAAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:17804791 original size:8 final size:8
Alignment explanation
Indices: 17804780--17804891 Score: 66
Period size: 9 Copynumber: 12.9 Consensus size: 8
17804770 AGAAAAATGT
17804780 TAAAAATA
1 TAAAAATA
17804788 TAAAATATTA
1 TAAAA-A-TA
17804798 TAAAAATTA
1 TAAAAA-TA
*
17804807 TAAAAAAAA
1 T-AAAAATA
*
17804816 CTAAAAA-C
1 -TAAAAATA
*
17804824 TAAAAATT
1 TAAAAATA
*
17804832 TAAATATA
1 TAAAAATA
17804840 T-AAAATA
1 TAAAAATA
17804847 TAAAAAATTA
1 T-AAAAA-TA
*
17804857 TATGAAATTA
1 TA--AAAATA
17804867 TATAAAATGA
1 TA-AAAAT-A
17804877 TAAAAATA
1 TAAAAATA
17804885 TAAAAAT
1 TAAAAAT
17804892 TATCACAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
7 12 0.14
8 20 0.24
9 26 0.31
10 23 0.27
11 3 0.04
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (8 bp):
TAAAAATA
Found at i:17804808 original size:9 final size:9
Alignment explanation
Indices: 17804780--17804939 Score: 93
Period size: 10 Copynumber: 17.8 Consensus size: 9
17804770 AGAAAAATGT
17804780 TAAAAA-TA
1 TAAAAATTA
17804788 TAAAATATTA
1 TAAAA-ATTA
17804798 TAAAAATTA
1 TAAAAATTA
**
17804807 TAAAAAAAA
1 TAAAAATTA
*
17804816 CTAAAAA--C
1 -TAAAAATTA
17804824 TAAAAATT-
1 TAAAAATTA
*
17804832 TAAATA-TA
1 TAAAAATTA
17804840 T-AAAA-TA
1 TAAAAATTA
17804847 TAAAAAATTA
1 T-AAAAATTA
*
17804857 TATGAAATTA
1 TA-AAAATTA
*
17804867 TATAAAATGA
1 TA-AAAATTA
17804877 TAAAAA-TA
1 TAAAAATTA
17804885 TAAAAATTA
1 TAAAAATTA
** *
17804894 TCACAATTTTT
1 T-A-AAAATTA
*
17804905 TAAAAAATA
1 TAAAAATTA
*
17804914 TAAAAGTTA
1 TAAAAATTA
17804923 TTAAAAATTA
1 -TAAAAATTA
17804933 TAAAAAT
1 TAAAAAT
17804940 AATTCTTTTG
Statistics
Matches: 119, Mismatches: 19, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
7 13 0.11
8 18 0.15
9 41 0.34
10 42 0.35
11 5 0.04
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17804814 original size:38 final size:38
Alignment explanation
Indices: 17804714--17804814 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 38
17804704 ACAAATTTAG
*
17804714 AAATTTATAAAATTTATAAAGAAAACTATAGAAAAATTA
1 AAATTTATAAAAATTATAAA-AAAACTATAGAAAAATTA
* * * * * *
17804753 AAATTGAAAAAAATAATAGAAAAA-TGT-TAAAAATATA
1 AAATTTATAAAAATTATAAAAAAACTATAGAAAAAT-TA
17804790 AAATATTATAAAAATTATAAAAAAA
1 AAAT-TTATAAAAATTATAAAAAAA
17804815 ACTAAAAACT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
36 6 0.12
37 8 0.16
38 20 0.41
39 15 0.31
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (38 bp):
AAATTTATAAAAATTATAAAAAAACTATAGAAAAATTA
Found at i:17804821 original size:37 final size:36
Alignment explanation
Indices: 17804714--17804833 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 36
17804704 ACAAATTTAG
* * *
17804714 AAATTTATAAAATTTATAAAGAAAACTATAGAAAAATTA
1 AAATTTATAAAAATTATAAAAAAAACTA-A-AAATA-TA
* * * ***
17804753 AAATTGAAAAAAATAATAGAAAAATGTTAAAAATATA
1 AAATTTATAAAAATTATA-AAAAAAACTAAAAATATA
17804790 AAATATTATAAAAATTATAAAAAAAACTAAAAACTA-A
1 AAAT-TTATAAAAATTATAAAAAAAACTAAAAA-TATA
17804827 AAATTTA
1 AAATTTA
17804834 AATATATAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
36 3 0.05
37 22 0.35
38 17 0.27
39 15 0.24
40 6 0.10
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (36 bp):
AAATTTATAAAAATTATAAAAAAAACTAAAAATATA
Found at i:17804938 original size:29 final size:29
Alignment explanation
Indices: 17804841--17804938 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 29
17804831 TTAAATATAT
* *
17804841 AAAA-TATAAAAAATTATATGAAATTAT-A
1 AAAATTATAAAAAAATATA-AAAATTATCA
*
17804869 TAAAATGAT--AAAAATATAAAAATTATCA
1 -AAAATTATAAAAAAATATAAAAATTATCA
* * * * * *
17804897 CAATTTTTTAAAAAATATAAAAGTTATTA
1 AAAATTATAAAAAAATATAAAAATTATCA
17804926 AAAATTATAAAAA
1 AAAATTATAAAAA
17804939 TAATTCTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
27 11 0.21
28 9 0.17
29 30 0.58
30 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAAAATATAAAAATTATCA
Found at i:17808737 original size:27 final size:27
Alignment explanation
Indices: 17808696--17808813 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
17808686 GGATAAGTTG
17808696 TAGAATTACCGAAATA-CCTCTGTAGGA
1 TAGAATTACCGAAATACCCT-TGTAGGA
* *
17808723 TAGAATTACCAAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGA
*
17808750 TAGAAATACCGAAATACCCTTGTAAGG-
1 TAGAATTACCGAAATACCCTTGT-AGGA
* * * *
17808777 TAGAATCACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCTTGTAGGA
*
17808804 TAAAATTACC
1 TAGAATTACC
17808814 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.03
27 70 0.90
28 6 0.08
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCTTGTAGGA
Found at i:17808781 original size:54 final size:54
Alignment explanation
Indices: 17808695--17808809 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
17808685 TGGATAAGTT
* *
17808695 GTAGAATTACCGAAATACCTCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCTCTGTAGGATAGAATCACCAAAATACCCTTGTAGG
* * *
17808749 GTAGAAATACCGAAATACC-CTTGTAAGG-TAGAATCACCGAGATACCCTTGTGGG
1 GTAGAAATACCGAAATACCTC-TGT-AGGATAGAATCACCAAAATACCCTTGTAGG
17808803 GTA-AAAT
1 GTAGAAAT
17808810 TACCATTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 5 0.09
54 46 0.85
55 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCTCTGTAGGATAGAATCACCAAAATACCCTTGTAGG
Found at i:17808860 original size:27 final size:27
Alignment explanation
Indices: 17808803--17808867 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17808793 CCCTTGTGGG
* * *
17808803 GTAAAATTACCATTTTGCCCCTAGGGT
1 GTAAAATGACTATTTTGCCCCTAGGGC
* *
17808830 GTAAAATGACTATTTTGCCCCTCGTGC
1 GTAAAATGACTATTTTGCCCCTAGGGC
17808857 GT-AAATGACTA
1 GTAAAATGACTA
17808868 ACTTGTGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (27 bp):
GTAAAATGACTATTTTGCCCCTAGGGC
Found at i:17809591 original size:27 final size:28
Alignment explanation
Indices: 17809547--17809609 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
17809537 TATATATATA
*
17809547 AATATCTCTATTCTGGTGACCTAGCCAC
1 AATATCTGTATTCTGGTGACCTAGCCAC
* * *
17809575 AATATCTGTA-TCTGGTGACTTTGTCAC
1 AATATCTGTATTCTGGTGACCTAGCCAC
17809602 AATATCTG
1 AATATCTG
17809610 GCAGCCTCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (28 bp):
AATATCTGTATTCTGGTGACCTAGCCAC
Found at i:17809766 original size:31 final size:31
Alignment explanation
Indices: 17809731--17809806 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
17809721 CATTCACATT
*
17809731 CTGATTTTGATTCTGTTACCTGATACTGATA
1 CTGATTTTGATTCTGTCACCTGATACTGATA
* * * *
17809762 CTGATTCTGATTCTGTCACTTGATTCTGATT
1 CTGATTTTGATTCTGTCACCTGATACTGATA
17809793 CTGATTTTGATTCT
1 CTGATTTTGATTCT
17809807 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (31 bp):
CTGATTTTGATTCTGTCACCTGATACTGATA
Found at i:17809773 original size:6 final size:6
Alignment explanation
Indices: 17809728--17809815 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
17809718 TTACATTCAC
* * *
17809728 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
17809777 -TCACTTG ATTCTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
17809816 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17811868 original size:58 final size:53
Alignment explanation
Indices: 17811755--17812024 Score: 287
Period size: 53 Copynumber: 4.9 Consensus size: 53
17811745 GAATACTGTA
* *
17811755 GTTTACCAAATTACCAAAATA-CCCTAGTTTGT-AAATTA-CTAAATACCTTTG
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-TTG
* *
17811806 GTTTATAAAATCACCAAAATACCCTAGTCCTAGTTTGTAAAATTACCAAAATACCTTG
1 GTTTACAAAATTACCAAAATA-CC----CCTAGTTTGTAAAATTACCAAAATACCTTG
*
17811864 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTA
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTTG
** *** ***
17811918 AATT-GTGAATTATTGAAATACCCGTCGACTAGTTTGTAAAATTACCAAAATACCTTG
1 GTTTACAAAATTACCAAAATA-CC--C--CTAGTTTGTAAAATTACCAAAATACCTTG
17811975 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
17812025 CTTAAATTGT
Statistics
Matches: 180, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
51 18 0.10
53 62 0.34
54 8 0.04
55 1 0.01
56 1 0.01
57 20 0.11
58 62 0.34
59 8 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTG
Found at i:17811958 original size:111 final size:111
Alignment explanation
Indices: 17811835--17812058 Score: 448
Period size: 111 Copynumber: 2.0 Consensus size: 111
17811825 TACCCTAGTC
17811835 CTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAA
1 CTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAA
17811900 ATTACCAAAATACCCTTAAATTGTGAATTATTGAAATACCCGTCGA
66 ATTACCAAAATACCCTTAAATTGTGAATTATTGAAATACCCGTCGA
17811946 CTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAA
1 CTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAA
17812011 ATTACCAAAATACCCTTAAATTGTGAATTATTGAAATACCCGTCGA
66 ATTACCAAAATACCCTTAAATTGTGAATTATTGAAATACCCGTCGA
17812057 CT
1 CT
17812059 TATAAATTAC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (111 bp):
CTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAA
ATTACCAAAATACCCTTAAATTGTGAATTATTGAAATACCCGTCGA
Found at i:17812022 original size:85 final size:81
Alignment explanation
Indices: 17811762--17812026 Score: 238
Period size: 85 Copynumber: 3.2 Consensus size: 81
17811752 GTAGTTTACC
* *
17811762 AAATTACCAAAATA-CC-CTAGTTTGT-AAATTA-CTAAATACCTTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACC-TTGGTTTATAAAATTACCAA
17811823 AATACCCTAGTCCTAGTTTGTA
65 AATA-CC----CCTAGTTTGTA
* ** * * *
17811845 AAATTACCAAAATA-CCT-TGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATA-CCTTGGTTTATAAAATTACCAA
* **
17811908 AATACCCTTAAATTGT-
65 AATACCCCTAGTTTGTA
* *** *
17811924 GAATTATTGAAATACCCGTCGACTAGTTTGTAAAATTACCAAAATACCTTGGTTTACAAAATTAC
1 AAATTACCAAAATACCC-T---CTAGTTTGTAAAATTACCAAAATACCTTGGTTTATAAAATTAC
17811989 CAAAATACCCCTAGTTTGTA
62 CAAAATACCCCTAGTTTGTA
17812009 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
17812027 TAAATTGTGA
Statistics
Matches: 142, Mismatches: 29, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
79 10 0.07
80 9 0.06
81 1 0.01
83 21 0.15
84 40 0.28
85 59 0.42
86 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCTTGGTTTATAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:17812034 original size:27 final size:27
Alignment explanation
Indices: 17811762--17812028 Score: 231
Period size: 27 Copynumber: 9.7 Consensus size: 27
17811752 GTAGTTTACC
17811762 AAATTACCAAAATACCC-TAGTTTGT-
1 AAATTACCAAAATACCCTTAGTTTGTA
* * * *
17811787 AAATTA-CTAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
17811813 AAATCACCAAAATACCCTAGTCCTAGTTTGTA
1 AAATTACCAAAATACCC---T--TAGTTTGTA
* **
17811845 AAATTACCAAAATA-CCTTGGTTTACA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
17811871 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
**
17811898 AAATTACCAAAATACCCTTAAATTGT-
1 AAATTACCAAAATACCCTTAGTTTGTA
* ***
17811924 GAATTATTGAAATACCCGTCGACTAGTTTGTA
1 AAATTACCAAAATACCC-T----TAGTTTGTA
* **
17811956 AAATTACCAAAATA-CCTTGGTTTACA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
17811982 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
17812009 AAATTACCAAAATACCCTTA
1 AAATTACCAAAATACCCTTA
17812029 AATTGTGAAT
Statistics
Matches: 188, Mismatches: 38, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
24 8 0.04
25 12 0.06
26 58 0.31
27 67 0.36
28 1 0.01
30 2 0.01
31 10 0.05
32 30 0.16
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:17812040 original size:53 final size:53
Alignment explanation
Indices: 17811757--17812032 Score: 236
Period size: 58 Copynumber: 5.0 Consensus size: 53
17811747 ATACTGTAGT
* * ***
17811757 TTACCAAATTACCAAAATA-CCCTAGTTTGT-AAATTA-CTAAATACCTTTGGT
1 TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-TTAAA
* * ***
17811808 TTATAAAATCACCAAAATACCCTAGTCCTAGTTTGTAAAATTACCAAAATACCTTGGT
1 TTACAAAATTACCAAAATA-CC----CCTAGTTTGTAAAATTACCAAAATACCTTAAA
17811866 TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAA
1 TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTTAAA
*** *** ***
17811920 TT-GTGAATTATTGAAATACCCGTCGACTAGTTTGTAAAATTACCAAAATACCTTGGT
1 TTACAAAATTACCAAAATA-CC--C--CTAGTTTGTAAAATTACCAAAATACCTTAAA
17811977 TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAA
1 TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTTAAA
17812031 TT
1 TT
17812033 GTGAATTATT
Statistics
Matches: 182, Mismatches: 27, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
51 16 0.09
53 60 0.33
54 14 0.08
55 1 0.01
56 1 0.01
57 20 0.11
58 62 0.34
59 8 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTAAA
Found at i:17812048 original size:53 final size:53
Alignment explanation
Indices: 17811880--17812079 Score: 206
Period size: 53 Copynumber: 3.7 Consensus size: 53
17811870 AAAATTACCA
17811880 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAATTGTGAATTATTG
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAATTGTGAATTATTG
*** *** ***
17811933 AAATACCCGTCGACTAGTTTGTAAAATTACCAAAATA-CCTTGGTTTACAAAATTACCA
1 AAATA-CC--C--CTAGTTTGTAAAATTACCAAAATACCCTTAAATT-GTGAATTATTG
17811991 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAATTGTGAATTATTG
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAATTGTGAATTATTG
* * **
17812044 AAATACCCGTCGACT-TATAAATTACCAAAATACCCT
1 AAATACCCCTAGTTTGTA-AAATTACCAAAATACCCT
17812080 GATTTATAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
52 2 0.02
53 63 0.54
54 8 0.07
55 1 0.01
56 1 0.01
57 8 0.07
58 34 0.29
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAAATTGTGAATTATTG
Found at i:17812074 original size:27 final size:26
Alignment explanation
Indices: 17811957--17812096 Score: 79
Period size: 27 Copynumber: 5.3 Consensus size: 26
17811947 TAGTTTGTAA
* ** * *
17811957 AATTACCAAAATACCTTGGTTTACAA
1 AATTACCAAAATACCCTGACTTATAG
* * *
17811983 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGA-CTTATAG
* * *
17812010 AATTACCAAAATACCCTTAAATTGT-G
1 AATTACCAAAATACCC-TGACTTATAG
***
17812036 AATTATTGAAATACCCGTCGACTTATA-
1 AATTACCAAAATACCC-T-GACTTATAG
*
17812063 AATTACCAAAATACCCTGATTTATAG
1 AATTACCAAAATACCCTGACTTATAG
17812089 AATTACCA
1 AATTACCA
17812097 TTTTACCTTC
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
25 7 0.08
26 39 0.43
27 43 0.48
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTGACTTATAG
Found at i:17812096 original size:26 final size:26
Alignment explanation
Indices: 17811762--17812096 Score: 155
Period size: 26 Copynumber: 12.3 Consensus size: 26
17811752 GTAGTTTACC
17811762 AAATTACCAAAATACCCT-AGTTTGT-
1 AAATTACCAAAATACCCTGA-TTTGTA
* * * *
17811787 AAATTA-CTAAATACCTTTGGTTTATA
1 AAATTACCAAAATACC-CTGATTTGTA
*
17811813 AAATCACCAAAATACCCTAGTCCTAGTTTGTA
1 AAATTACCAAAATACCCT-G----A-TTTGTA
* * **
17811845 AAATTACCAAAATACCTTGGTTTACA
1 AAATTACCAAAATACCCTGATTTGTA
17811871 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
* *
17811898 AAATTACCAAAATACCCTTAAATTGT-
1 AAATTACCAAAATACCC-TGATTTGTA
* ***
17811924 GAATTATTGAAATACCCGTCGACTAGTTTGTA
1 AAATTACCAAAATACCC-T-G---A-TTTGTA
* * **
17811956 AAATTACCAAAATACCTTGGTTTACA
1 AAATTACCAAAATACCCTGATTTGTA
17811982 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
* *
17812009 AAATTACCAAAATACCCTTAAATTGT-
1 AAATTACCAAAATACCC-TGATTTGTA
* *** * *
17812035 GAATTATTGAAATACCCGTCGACTTAT-
1 AAATTACCAAAATACCC-T-GATTTGTA
*
17812062 AAATTACCAAAATACCCTGATTTATA
1 AAATTACCAAAATACCCTGATTTGTA
*
17812088 GAATTACCA
1 AAATTACCA
17812097 TTTTACCTTC
Statistics
Matches: 231, Mismatches: 53, Indels: 51
0.69 0.16 0.15
Matches are distributed among these distances:
24 8 0.03
25 17 0.07
26 85 0.37
27 78 0.34
28 2 0.01
30 2 0.01
31 6 0.03
32 33 0.14
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGATTTGTA
Found at i:17812119 original size:27 final size:27
Alignment explanation
Indices: 17812074--17812315 Score: 253
Period size: 27 Copynumber: 9.2 Consensus size: 27
17812064 ATTACCAAAA
* *
17812074 TACCCT-GATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
17812100 TACCTTCTATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
17812127 TACCCTCGATTTAAAAAATT---A-TT
1 TACCCTCGATTTACAAAATTACCATTT
* *
17812150 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
**
17812177 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
17812204 TATCCTTGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
17812231 T-CCCTCGATTTACAGAATAACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
17812257 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
17812284 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
17812311 TACCC
1 TACCC
17812316 CTAGGGTGTT
Statistics
Matches: 177, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
23 20 0.11
26 26 0.15
27 131 0.74
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:17812269 original size:80 final size:79
Alignment explanation
Indices: 17812076--17812311 Score: 300
Period size: 80 Copynumber: 3.0 Consensus size: 79
17812066 TACCAAAATA
* *
17812076 CCCT-GATTTATAGAATTACCATTTTACCTTCTATTTACAAAATTA-TCGTTTTACCCTCGATTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTT
* *
17812139 AAAAA--ATTATTTA
65 AAAAATTATCATTTT
* *
17812152 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTATCCTTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
17812217 CAAAATTATCATTTT
66 -AAAATTATCATTTT
* * * * * *
17812232 CCCTCGATTTACAGAATAACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
*
17812297 TAAAATTACCATTTT
66 -AAAATTATCATTTT
17812312 ACCCCTAGGG
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
76 4 0.03
77 54 0.39
78 5 0.04
80 76 0.55
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.42
Consensus pattern (79 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
AAAATTATCATTTT
Found at i:17812595 original size:27 final size:26
Alignment explanation
Indices: 17812551--17812602 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17812541 CTCGCTGCAA
*
17812551 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
17812578 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
17812603 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:17812856 original size:6 final size:6
Alignment explanation
Indices: 17812825--17812912 Score: 78
Period size: 6 Copynumber: 14.8 Consensus size: 6
17812815 TTGCATTCAC
* *
17812825 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
17812873 A-T-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCT
17812913 ATCACCTGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 6 0.09
6 50 0.75
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17812857 original size:19 final size:19
Alignment explanation
Indices: 17812835--17812901 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
17812825 ATTCTGATTT
17812835 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
17812854 TGATTCTGATT--CTGATTCTAT
1 TGATTCTG-TTACCTGA---TAC
17812875 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
17812894 TGATTCTG
1 TGATTCTG
17812902 ATTCTGATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.10
19 18 0.45
20 4 0.10
21 10 0.25
22 4 0.10
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.46
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:17812860 original size:31 final size:31
Alignment explanation
Indices: 17812825--17812931 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 31
17812815 TTGCATTCAC
17812825 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTG--A-T-A--CTG
17812862 ATTCTGATTCTATTGATTCTGTTACCTGATACTG
1 ATTCTGA-T-T-TTGATTCTGTTACCTGATACTG
* * * **
17812896 ATTCTGATTCTGATTCTATCACCTGATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
17812927 ATTCT
1 ATTCT
17812932 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
31 22 0.35
32 1 0.02
33 1 0.02
34 10 0.16
36 1 0.02
37 8 0.13
38 2 0.03
39 1 0.02
40 16 0.26
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:17812882 original size:40 final size:40
Alignment explanation
Indices: 17812834--17812914 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
17812824 CATTCTGATT
17812834 TTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTA
1 TTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTA
17812874 TTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTA
1 TTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTA
17812914 T
1 T
17812915 CACCTGATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (40 bp):
TTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTA
Found at i:17814948 original size:27 final size:27
Alignment explanation
Indices: 17814918--17814978 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
17814908 CTAATTTGTG
*
17814918 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATAACCTCGACCTGTA
* *
17814945 AAATTATTGAAATAACCTCGACTTGTA
1 AAATTACTGAAATAACCTCGACCTGTA
17814972 AAATTAC
1 AAATTAC
17814979 CAAAGTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATAACCTCGACCTGTA
Found at i:17815003 original size:27 final size:27
Alignment explanation
Indices: 17814973--17815233 Score: 172
Period size: 27 Copynumber: 9.7 Consensus size: 27
17814963 CGACTTGTAA
**
17814973 AATTACCAAAGTACCCCTGATTTATAG
1 AATTACCAATTTACCCCTGATTTATAG
* * * *
17815000 AATTACCGATTTACCCTTGATTTACAA
1 AATTACCAATTTACCCCTGATTTATAG
**
17815027 AATTACCGTTTTA-CCCTCGATTTATAG
1 AATTACCAATTTACCCCT-GATTTATAG
** * *
17815054 AATTATTATTTTACCCTTGATTTATAG
1 AATTACCAATTTACCCCTGATTTATAG
* * * *
17815081 AATTACCATTTTA-CCCTCAATTTACAA
1 AATTACCAATTTACCCCT-GATTTATAG
* * *
17815108 AATTACTATTTTACCCTTGATTTATAG
1 AATTACCAATTTACCCCTGATTTATAG
* *
17815135 AATTATCATTTTA-CCCTCGATTTATAG
1 AATTACCAATTTACCCCT-GATTTATAG
* * *
17815162 AATTACTATTTTA-CCCTCGATTTACAG
1 AATTACCAATTTACCCCT-GATTTATAG
*** *
17815189 AATTACTGTTTTA-CCCTCGATTTATAA
1 AATTACCAATTTACCCCT-GATTTATAG
* *
17815216 AATTACTATTTTACCCCT
1 AATTACCAATTTACCCCT
17815234 AGGGTGTTAA
Statistics
Matches: 193, Mismatches: 35, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
26 9 0.05
27 174 0.90
28 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
AATTACCAATTTACCCCTGATTTATAG
Found at i:17815029 original size:54 final size:54
Alignment explanation
Indices: 17814987--17815231 Score: 341
Period size: 54 Copynumber: 4.6 Consensus size: 54
17814977 ACCAAAGTAC
* * *
17814987 CCCT-GATTTATAGAATTACCGA-TTTACCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTA-CTATTTTACCCTTGATTTACAGAATTACCATTTTA
* *
17815040 CCCTCGATTTATAGAATTATTATTTTACCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
* * * * *
17815094 CCCTCAATTTACAAAATTACTATTTTACCCTTGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
* **
17815148 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
*
17815202 CCCTCGATTTATAAAATTACTATTTTACCC
1 CCCTCGATTTATAGAATTACTATTTTACCC
17815232 CTAGGGTGTT
Statistics
Matches: 171, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
53 5 0.03
54 166 0.97
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (54 bp):
CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
Found at i:17815045 original size:81 final size:81
Alignment explanation
Indices: 17814960--17815233 Score: 345
Period size: 81 Copynumber: 3.4 Consensus size: 81
17814950 ATTGAAATAA
* * *** *
17814960 CCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATAGAATTACCGA-TTTACCCTTGATTTA
1 CCTCGATTTATAAAATTACCATTTTACCCCTGATTTATAGAATTACC-ATTTTACCCTCGATTTA
*
17815024 CAAAATTACCGTTTTAC
65 CAAAATTACTGTTTTAC
* ** * *
17815041 CCTCGATTTATAGAATTATTATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCCTGATTTATAGAATTACCATTTTACCCTCGATTTAC
*
17815106 AAAATTACTATTTTAC
66 AAAATTACTGTTTTAC
* * * *
17815122 CCTTGATTTATAGAATTATCATTTTA-CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTA
1 CCTCGATTTATAAAATTACCATTTTACCCCT-GATTTATAGAATTACCATTTTACCCTCGATTTA
*
17815186 CAGAATTACTGTTTTAC
65 CAAAATTACTGTTTTAC
*
17815203 CCTCGATTTATAAAATTACTATTTTACCCCT
1 CCTCGATTTATAAAATTACCATTTTACCCCT
17815234 AGGGTGTTAA
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.02
81 158 0.95
82 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (81 bp):
CCTCGATTTATAAAATTACCATTTTACCCCTGATTTATAGAATTACCATTTTACCCTCGATTTAC
AAAATTACTGTTTTAC
Found at i:17815772 original size:6 final size:6
Alignment explanation
Indices: 17815741--17815834 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
17815731 TTGCATTCAC
* *
17815741 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
17815790 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
17815835 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:17815776 original size:31 final size:31
Alignment explanation
Indices: 17815741--17815820 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
17815731 TTGCATTCAC
* *
17815741 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
17815772 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
17815803 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
17815821 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:17817773 original size:27 final size:27
Alignment explanation
Indices: 17817743--17817966 Score: 184
Period size: 27 Copynumber: 8.3 Consensus size: 27
17817733 TTAGTTTACC
*
17817743 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
17817770 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
17817797 AAATCACCATAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
17817824 AAATTACCAAAATA-CCCTCGGTTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* *
17817851 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
17817878 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
17817905 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
17817932 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
17817959 GAATTACC
1 AAATTACC
17817967 GATTTACCCT
Statistics
Matches: 161, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 8 0.05
27 145 0.90
28 8 0.05
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:17817892 original size:81 final size:81
Alignment explanation
Indices: 17817743--17817958 Score: 211
Period size: 81 Copynumber: 2.7 Consensus size: 81
17817733 TTAGTTTACC
* * * * *
17817743 AAATTACAAAAATACCC-CTGGTTTGTAAAATTACTAAAATACTCTTGGTTTATAAAATCACCAT
1 AAATTACAAAAATACCCTC-GGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAA
***
17817807 AATACCC-CTGGTTTGTA
65 AATACCCTC-GACCTGTA
* ** * * * *
17817824 AAATTACCAAAATACCCTCGGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAA
1 AAATTACAAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAAA
17817889 ATACCCTCGACCTGTA
66 ATACCCTCGACCTGTA
*** ** *
17817905 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATA
1 AAATTACAAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTATA
17817959 GAATTACCGA
Statistics
Matches: 108, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
81 106 0.98
82 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACAAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAAA
ATACCCTCGACCTGTA
Found at i:17817910 original size:54 final size:54
Alignment explanation
Indices: 17817743--17817897 Score: 229
Period size: 54 Copynumber: 2.9 Consensus size: 54
17817733 TTAGTTTACC
* * *
17817743 AAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTATA
* * * *
17817797 AAATCACCATAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTATA
* *
17817851 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCG
17817898 ACCTGTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTATA
Found at i:17817974 original size:27 final size:27
Alignment explanation
Indices: 17817947--17818118 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
17817937 ACCAAAGTAC
* *
17817947 CCCT-GATTTATAGAATTACCGATTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
17817973 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
17818000 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
17818027 CCCTCGACTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * **
17818054 CCCTCAATTTATAGAATTATTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
17818081 CCCTTGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
17818108 ACCTCGATTTA
1 CCCTCGATTTA
17818119 TAAAACTTCC
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.03
27 125 0.97
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:17818002 original size:81 final size:81
Alignment explanation
Indices: 17817917--17818099 Score: 201
Period size: 81 Copynumber: 2.3 Consensus size: 81
17817907 ATTATTGAAA
* * *
17817917 TACCCTCGACTTGTA-A-AATTACCAAAGTACCC-CTGATTTATAGAATTACCGATTTACCCTCG
1 TACCCTCGA-TT-TACAGAATTACCAAAGTACCCTC-GACTTACAGAATTACCGATTTACCCTCA
17817979 ATTTATAAAATTACCGTTT
63 ATTTATAAAATTACCGTTT
**** * *
17817998 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCAAAGTACCCTCGACTTACAGAATTACCGATTTACCCTCAATT
* **
17818063 TATAGAATTATTGTTT
66 TATAAAATTACCGTTT
*
17818079 TACCCTTGATTTACAGAATTA
1 TACCCTCGATTTACAGAATTA
17818100 TCGTTTTAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.02
80 3 0.03
81 80 0.93
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCAAAGTACCCTCGACTTACAGAATTACCGATTTACCCTCAATT
TATAAAATTACCGTTT
Found at i:17818134 original size:81 final size:81
Alignment explanation
Indices: 17817960--17818137 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
17817950 TGATTTATAG
*
17817960 AATTACCGA-TTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTT
1 AATTACC-ATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTT
* *
17818024 TTACCCTCGACTTACAG
65 TTAACCTCGACTTACAA
** * ** * *
17818041 AATTACTGTTTTACCCTCAATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTATCGTTT
1 AATTACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
17818106 TAACCTCGATTTATAA
66 TAACCTCGACTTACAA
17818122 AACTT-CCATTTTACCC
1 AA-TTACCATTTTACCC
17818138 CTAGGATGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 79 0.98
82 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
TAACCTCGACTTACAA
Found at i:17818157 original size:81 final size:81
Alignment explanation
Indices: 17817994--17818167 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 81
17817984 TAAAATTACC
* * * **
17817994 GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTC
1 GTTTTACCCTTGATTTACAGAATTACCGTTTTAACCTCGACTTACAAAATTACCATTTTACCCTC
* *
17818059 AATTTATAGAATTATT
66 AATGTATAGAATGATT
* * *
17818075 GTTTTACCCTTGATTTACAGAATTATCGTTTTAACCTCGATTTATAAAACTT-CCATTTTACCC-
1 GTTTTACCCTTGATTTACAGAATTACCGTTTTAACCTCGACTTACAAAA-TTACCATTTTACCCT
17818138 CTAGGATGT-TA-AATGATT
65 C-A--ATGTATAGAATGATT
*
17818156 GTTTTGCCCTTG
1 GTTTTACCCTTG
17818168 TGCGCAAGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
80 1 0.01
81 70 0.90
82 4 0.05
83 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (81 bp):
GTTTTACCCTTGATTTACAGAATTACCGTTTTAACCTCGACTTACAAAATTACCATTTTACCCTC
AATGTATAGAATGATT
Found at i:17818523 original size:27 final size:26
Alignment explanation
Indices: 17818471--17818530 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
17818461 ATATATAAAT
*
17818471 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
17818497 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
17818524 ATATCTG
1 ATATCTG
17818531 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:17818684 original size:31 final size:31
Alignment explanation
Indices: 17818649--17818724 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
17818639 TTGCATTCAC
* * *
17818649 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* *
17818680 ATTCTTATTCTGATTCTATCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
17818711 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
17818725 AATGTTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:17818689 original size:6 final size:6
Alignment explanation
Indices: 17818649--17818724 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
17818639 TTGCATTCAC
* * *
17818649 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTT ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
17818697 ATCACCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG A-TTCTG AT
17818725 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 5 0.09
6 40 0.74
7 6 0.11
8 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17835466 original size:33 final size:33
Alignment explanation
Indices: 17835424--17835500 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
17835414 TAAGCCCATG
17835424 CAGGATGTCATATCATGGTAACATACCTGAATA
1 CAGGATGTCATATCATGGTAACATACCTGAATA
* *
17835457 CAGGATGTCATATCATGGTAACATACGTGAATG
1 CAGGATGTCATATCATGGTAACATACCTGAATA
17835490 CAGGATGTCAT
1 CAGGATGTCAT
17835501 GCTCAGTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (33 bp):
CAGGATGTCATATCATGGTAACATACCTGAATA
Found at i:17839394 original size:43 final size:43
Alignment explanation
Indices: 17839345--17839502 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
17839335 TATCCCAAAT
*
17839345 ATGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCATATATCGATGCCAATGTCCCAGAC
** * *
17839388 CGGGTCTTACATGAAATCGAT-TAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-ATATATCGATGCCAATGTCCCAGAC
* **
17839431 ATGGTCTTACACGTAATC-TCA-ATAAAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCAT-ATAT-CGATGCCAATGTCCCAGAC
* *
17839474 ATGGTCTTACATGTAATCACATCTCGATG
1 ATGGTCTTACATGTAATCATATATCGATG
17839503 AACCTAATGT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 87 0.95
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATATATCGATGCCAATGTCCCAGAC
Found at i:17843305 original size:40 final size:39
Alignment explanation
Indices: 17843232--17843383 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
17843222 CAATTGAATG
* * * *
17843232 ATATCCGGGCTAAGTCCCAAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTAATT
* * * **
17843272 ATACCCGGGTTAAGACCCGAAGGCCATTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTGTGCTAGTAATT
* * **
17843312 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTAATT
*
17843352 CTATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGC
17843384 ATGTGGTTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 4 0.04
40 84 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCTAGTAATT
Found at i:17843368 original size:80 final size:80
Alignment explanation
Indices: 17843234--17843383 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
17843224 ATTGAATGAT
* * *
17843234 ATCCGGGCTAAGTCCCAAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCAAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGG-CAT
17843299 T-GTGCTAGTGACCAC
65 TCGTGCTAGTGACCAC
* * * ** * *
17843314 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCAAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGGCATT
17843379 CGTGC
66 CGTGC
17843384 ATGTGGTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 4 0.07
80 55 0.93
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCAAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGGCATT
CGTGCTAGTGACCAC
Found at i:17843397 original size:40 final size:39
Alignment explanation
Indices: 17843270--17843397 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
17843260 ATGCTAGTAA
* * *
17843270 TTATACCCGGGTTAAGACCCGAAGGCCATTGTGC-TAGTGA
1 TTATATCCGGGCTAAGACCCGAAGG-CATTGTGCAT-GTGG
** * * *
17843310 CCACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCA-TTGTGCATGTGG
*
17843350 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATT-GTGCATGTGG
17843390 TTATATCC
1 TTATATCC
17843398 AGTTGTATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
39 4 0.06
40 66 0.94
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTGTGCATGTGG
Found at i:17846302 original size:42 final size:45
Alignment explanation
Indices: 17846200--17846372 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 45
17846190 AGCTCGTACA
**
17846200 ATGCCAATGTCCCA-A-ATGTGGTCTTACACGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGTGGTCTTACACAAAATCAAATATCG
* * *
17846243 ATGCCATTGTCCTAGACA-G-GGTTTTACACAAAATCAAATAT-G
1 ATGCCAATGTCCCAGACATGTGGTCTTACACAAAATCAAATATCG
* ** *
17846285 ATGCCAATGTCCCAGACA--TGGTCTTATATGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACATGTGGTCTTACA-CAAAATCA-AATATCG
* * * * *
17846329 ATTCCAACGTCCCAGAC--GTGGTCTTACACGAAAGCACATATCG
1 ATGCCAATGTCCCAGACATGTGGTCTTACACAAAATCAAATATCG
17846372 A
1 A
17846373 ATCCTATGTC
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.25
43 47 0.46
44 29 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGTGGTCTTACACAAAATCAAATATCG
Found at i:17846750 original size:8 final size:8
Alignment explanation
Indices: 17846737--17846761 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17846727 AAATTAACCC
17846737 TCACATTT
1 TCACATTT
17846745 TCACATTT
1 TCACATTT
17846753 TCACATTT
1 TCACATTT
17846761 T
1 T
17846762 AGTCCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:17853944 original size:43 final size:42
Alignment explanation
Indices: 17853826--17853980 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
17853816 CTCGTACAAC
**
17853826 GCCAATGTCCCAAATGTGGTCTTACACGT-AATCAAATATTGAT
1 GCCAATGTCCCAAACATGGTCTTACA-GTAAATCAAATA-TGAT
* * * * * **
17853869 GCCATTGTCCTAGACAGGGTTTTACACAAAATCAAATATGAT
1 GCCAATGTCCCAAACATGGTCTTACAGTAAATCAAATATGAT
*
17853911 GCCAATGTCCCAAACATGGTCTTACATGTAAATCATAAGT-CGAT
1 GCCAATGTCCCAAACATGGTCTTACA-GTAAATCA-AA-TATGAT
* * *
17853955 TCCAATGTCCCAGACAAGGTCTTACA
1 GCCAATGTCCCAAACATGGTCTTACA
17853981 CGAAAGCACA
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.28
43 34 0.39
44 28 0.32
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCAATGTCCCAAACATGGTCTTACAGTAAATCAAATATGAT
Found at i:17855961 original size:39 final size:40
Alignment explanation
Indices: 17855859--17856121 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
17855849 TCGAATGATG
* *
17855859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
17855898 ATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
17855939 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
17855978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
17856018 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
17856057 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
17856096 AACCGGG-TATGTCCCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17856122 AACGAGTAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
39 89 0.44
40 101 0.50
41 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:17856135 original size:39 final size:40
Alignment explanation
Indices: 17855893--17856144 Score: 155
Period size: 39 Copynumber: 6.4 Consensus size: 40
17855883 GTGCTAAGTG
* * * **
17855893 ACTATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTT
1 ACTATAACCGGGTTAAG-TCCCAAAGGCATTTGAACGAGTT
* * * * **
17855933 ACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTT
1 ACTATA-ACCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
* **
17855972 ACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTATAA-CCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
* * * * **
17856012 ACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTT
1 ACTATA-ACCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
* **
17856051 ACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTATAA-CCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
*
17856091 ACTATAACCGGG-TATGTCCCAAAGGCATTTGAACGAG-T
1 ACTATAACCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
*
17856129 AGCTATATCC-GGTTAA
1 A-CTATAACCGGGTTAA
17856145 ATTTCGAAGG
Statistics
Matches: 186, Mismatches: 16, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
38 4 0.02
39 100 0.54
40 80 0.43
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ACTATAACCGGGTTAAGTCCCAAAGGCATTTGAACGAGTT
Found at i:17856140 original size:79 final size:79
Alignment explanation
Indices: 17855859--17856094 Score: 386
Period size: 79 Copynumber: 3.0 Consensus size: 79
17855849 TCGAATGATG
* * * * *
17855859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGGCTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
17855922 TTGTGCGAGTTACTAAT
63 TTGTGCGAGTTACTAAT
17855939 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
17856004 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
17856018 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
17856083 TGCGAGTTACTA
66 TGCGAGTTACTA
17856095 TAACCGGGTA
Statistics
Matches: 149, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
78 1 0.01
79 131 0.88
80 17 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:17857813 original size:27 final size:27
Alignment explanation
Indices: 17857745--17857815 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
17857735 CGACTTGTAA
* *
17857745 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
17857772 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
17857799 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
17857816 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:17857822 original size:27 final size:27
Alignment explanation
Indices: 17857799--17857922 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
17857789 CAATTTACAG
17857799 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
17857826 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
17857853 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
***
17857880 AATTACCAAAATACTAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
17857907 AATTACTAAAATACCC
1 AATTACCAAAATACCC
17857923 CTGTAGGGTA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:17857841 original size:54 final size:53
Alignment explanation
Indices: 17857783--17857893 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
17857773 ATTACCGTTT
17857783 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
17857837 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
17857891 TAC
1 TAC
17857894 TAATGGTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.02
54 39 0.80
55 7 0.14
56 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:17857901 original size:54 final size:54
Alignment explanation
Indices: 17857799--17857922 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
17857789 CAATTTACAG
* ** *
17857799 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* * *
17857853 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACTAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
17857907 AATTACTAAAATACCC
1 AATTACTAAAATACCC
17857923 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:17857935 original size:27 final size:27
Alignment explanation
Indices: 17857905--17857966 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
17857895 AATGGTTTGA
17857905 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
17857932 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
17857959 AAAATTAC
1 AAAATTAC
17857967 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Done.