Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 53 of 313
Found at i:17577388 original size:20 final size:20
Alignment explanation
Indices: 17577322--17577388 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17577312 ATTTTGATAA
*
17577322 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17577342 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17577362 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17577382 ACATGAT
1 ACATGAT
17577389 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17577473 original size:24 final size:24
Alignment explanation
Indices: 17577438--17577615 Score: 257
Period size: 24 Copynumber: 7.4 Consensus size: 24
17577428 GAGGAAGTGC
17577438 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
17577462 AAAAGGGTTTATGCCCAAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17577486 AAAAGGGCGTATGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17577510 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17577534 AAAAGGGCTTGTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17577558 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17577582 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17577606 AAAAGAGGCT
1 AAAAG-GGCT
17577616 AGGCCTCTAG
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 132 0.97
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17579440 original size:43 final size:43
Alignment explanation
Indices: 17579392--17579556 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 43
17579382 ATCGAGATAT
*
17579392 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGGATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGGATTAA
* * *
17579435 GATTACGTGTAAAACCATGTCTGGGACATTGGCA-T-CATTAA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGGATTAA
* * * * * * **
17579476 TCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGC-CTCGATTTTT
1 --GATTACATGTAAGACCATGTCTGGGACATTGGCATTGGA-TTAA
* * *
17579521 GATAACATGTAAGACCATATCTGGGATA-TGGCATTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG
17579557 TACAAGCTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.04
42 5 0.05
43 85 0.88
44 1 0.01
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGGATTAA
Found at i:17595291 original size:28 final size:29
Alignment explanation
Indices: 17595260--17595314 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
17595250 CTGAAATTCT
17595260 GATAT-CATGGCCCAAAGCCAAATCAGGC
1 GATATGCATGGCCCAAAGCCAAATCAGGC
*
17595288 GATATGCATGGCCCGAAGCCAAATCAG
1 GATATGCATGGCCCAAAGCCAAATCAG
17595315 TATATCTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.15
Consensus pattern (29 bp):
GATATGCATGGCCCAAAGCCAAATCAGGC
Found at i:17596698 original size:22 final size:23
Alignment explanation
Indices: 17596649--17596696 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17596639 CTTAACAGTG
17596649 TTTGAAAAATATTCTATGGCAAC
1 TTTGAAAAATATTCTATGGCAAC
17596672 TTTGAAAAATATTCTATGGCAAC
1 TTTGAAAAATATTCTATGGCAAC
17596695 TT
1 TT
17596697 GATCTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (23 bp):
TTTGAAAAATATTCTATGGCAAC
Found at i:17598081 original size:20 final size:20
Alignment explanation
Indices: 17598056--17598107 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
17598046 ATCAAAGTGC
*
17598056 AAATGATTTTAACCATGTCA
1 AAATGATTTTAACCAAGTCA
* *
17598076 AAATGATTTCAATCAAGTCA
1 AAATGATTTTAACCAAGTCA
* *
17598096 ACATCATTTTAA
1 AAATGATTTTAA
17598108 AATGATTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:17601346 original size:45 final size:45
Alignment explanation
Indices: 17601284--17601376 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
17601274 TAGGATCCTG
* * * *
17601284 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACATCTAGGACATAGGCATCGAT
17601329 ATATGTGTTTT-AGTGTAAGACCACATCTAGGACATAGGCATCGAT
1 ATATGTGTTTTCA-TGTAAGACCACATCTAGGACATAGGCATCGAT
17601374 ATA
1 ATA
17601377 CGTTATTTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACATCTAGGACATAGGCATCGAT
Found at i:17601407 original size:45 final size:45
Alignment explanation
Indices: 17601298--17601408 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 45
17601288 GTGTTTTCAT
* * * *
17601298 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTAGT
1 GTAAGACCACGTCTGGGACATAGGCATCGATATACGTGTTTTAGA
* * *
17601343 GTAAGACCACATCTAGGACATAGGCATCGATATACGT-TATTTCGA
1 GTAAGACCACGTCTGGGACATAGGCATCGATATACGTGT-TTTAGA
* *
17601388 GTAAGACCATGGCTGGGACAT
1 GTAAGACCACGTCTGGGACAT
17601409 CAGAATCGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
GTAAGACCACGTCTGGGACATAGGCATCGATATACGTGTTTTAGA
Found at i:17603823 original size:23 final size:21
Alignment explanation
Indices: 17603778--17603840 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
17603768 AGTGCTTAAA
17603778 ACGACACACGAAGTGCCT-GAT
1 ACGACACAC-AAGTGCCTGGAT
17603799 AC-AGCACACAAGGTGCCTGGAAT
1 ACGA-CACACAA-GTGCCTGG-AT
*
17603822 ACGACACATAAAGTGCCTG
1 ACGACACA-CAAGTGCCTG
17603841 ATCAGTAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 1 0.03
23 15 0.43
24 3 0.09
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (21 bp):
ACGACACACAAGTGCCTGGAT
Found at i:17604691 original size:23 final size:23
Alignment explanation
Indices: 17604664--17604720 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
17604654 AAGCTTTAAA
*
17604664 TTTTATTACAAGTGTA-C-ATAT
1 TTTTATTACAAATGTACCAATAT
17604685 CTATTTATTACAAATGTACCAATAT
1 -T-TTTATTACAAATGTACCAATAT
17604710 TTTTATTACAA
1 TTTTATTACAA
17604721 TTGTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 24 0.77
24 2 0.06
25 4 0.13
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTATTACAAATGTACCAATAT
Found at i:17604992 original size:27 final size:24
Alignment explanation
Indices: 17604937--17605000 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
17604927 TACCAATTAA
* *
17604937 ATAATTATAACTTAATATGAAACC
1 ATAATAATAACTTAATATAAAACC
*
17604961 ATAATAATAATTTAATATAAAACC
1 ATAATAATAACTTAATATAAAACC
* *
17604985 ACACTAATAA-TTAATA
1 ATAATAATAACTTAATA
17605001 ATAATAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAATAATAACTTAATATAAAACC
Found at i:17607874 original size:41 final size:41
Alignment explanation
Indices: 17607817--17607894 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
17607807 AGGGTTACAG
*
17607817 AGCATTACCAGACTTATAGCACAATAAACATACATTTCACA
1 AGCATTACCAAACTTATAGCACAATAAACATACATTTCACA
17607858 AGCATTACCAAACTTATAGCACAATAAACATACATTT
1 AGCATTACCAAACTTATAGCACAATAAACATACATTT
17607895 AACATACATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (41 bp):
AGCATTACCAAACTTATAGCACAATAAACATACATTTCACA
Found at i:17610271 original size:27 final size:27
Alignment explanation
Indices: 17610255--17610384 Score: 197
Period size: 27 Copynumber: 4.8 Consensus size: 27
17610245 CAATTTGTAG
* *
17610255 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
17610282 AATTACCATTTCACCATCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
**
17610309 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
17610336 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
17610363 AATTACCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
17610385 CTAAAATTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:17610446 original size:27 final size:27
Alignment explanation
Indices: 17610416--17610538 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
17610406 TGTAGGATAG
* *
17610416 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCACTAGTTTGTAA
* *
17610443 AATTACCGAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTGTAA
* * *
17610470 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCACTAGTTTGTAA
* *
17610497 AATTATCAAAATACC-CTCAATTTGTAA
1 AATTACCAAAATACCACT-AGTTTGTAA
17610524 AATTACCAAAATACC
1 AATTACCAAAATACC
17610539 CCTGATTTAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 80 0.98
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCACTAGTTTGTAA
Found at i:17610457 original size:54 final size:53
Alignment explanation
Indices: 17610396--17610567 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 53
17610386 TAAAATTATT
* *
17610396 GAAATACCCTTGTAGGATAGAATTACCAAAATACCACTGGTTTGTGAAATTACC
1 GAAATACCCTAGTAGG-TAAAATTACCAAAATACCACTGGTTTGTGAAATTACC
** * *
17610450 GAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATC
1 GAAATA-CCCTAGTAGGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACC
* * ** * * *** *
17610504 AAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACA
1 GAAATACCCT-AGTAGGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACC
17610558 GAAATACCCT
1 GAAATACCCT
17610568 TGACTTTCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
53 4 0.04
54 88 0.89
55 7 0.07
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (53 bp):
GAAATACCCTAGTAGGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACC
Found at i:17610501 original size:81 final size:81
Alignment explanation
Indices: 17610416--17610565 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
17610406 TGTAGGATAG
** * * ** *
17610416 AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCCT-AGTTTGTAAAATTACCGA
1 AATTACCAAAATACC-CTCAATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
17610479 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
*
17610497 AATTATCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
17610562 TACC
66 TACC
17610566 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.03
81 56 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:17610546 original size:27 final size:27
Alignment explanation
Indices: 17610416--17610580 Score: 147
Period size: 27 Copynumber: 6.1 Consensus size: 27
17610406 TGTAGGATAG
* * *
17610416 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
*
17610443 AATTACCGAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
17610470 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
17610497 AATTATCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
17610524 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
17610551 AATTA-CAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCTGA-TTTGTAA
17610579 AA
1 AA
17610581 ATTATAGAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.04
27 96 0.86
28 11 0.10
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:17610629 original size:27 final size:27
Alignment explanation
Indices: 17610416--17610630 Score: 123
Period size: 27 Copynumber: 7.9 Consensus size: 27
17610406 TGTAGGATAG
* * **
17610416 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTAGTTTGCAA
* *
17610443 AATTACCGAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* **
17610470 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTAGTTTGCAA
* * * * *
17610497 AATTATCAAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* * *
17610524 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCGAAATACCCTTAG-TTTGCAA
* *
17610551 AATTACAGAAATACCCTTGACTTT-CTAAA
1 AATTACCGAAATACCCTT-AGTTTGC--AA
** * * *
17610580 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTAGTTTGCAA
*
17610607 AATTACTGAAATACCCTTAGTTTG
1 AATTACCGAAATACCCTTAGTTTG
17610631 TAGATTTACC
Statistics
Matches: 149, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.01
27 121 0.81
28 7 0.05
29 19 0.13
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTAGTTTGCAA
Found at i:17610740 original size:27 final size:27
Alignment explanation
Indices: 17610683--17610746 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
17610673 CCCCTAATAG
* *
17610683 GTAAAAAGATCGTAAAACCCCTGTAGA
1 GTAAAATGACCGTAAAACCCCTGTAGA
* * *
17610710 GTAAAGTGACCGTAATACCCTTGTATG-
1 GTAAAATGACCGTAAAACCCCTGTA-GA
17610737 GTAAAATGAC
1 GTAAAATGAC
17610747 AAATATGCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAAAACCCCTGTAGA
Found at i:17620963 original size:139 final size:143
Alignment explanation
Indices: 17620717--17620985 Score: 325
Period size: 139 Copynumber: 1.9 Consensus size: 143
17620707 TATTGAAATT
* ** *
17620717 GAGGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCACATATCTGTGCCGATACCATG
1 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCAATGCCAATACCATG
* *
17620782 TCCCATACATGGTCTTACACTGACACCTCTATACGTGCCGATGCATGTCCCAGACATGTTTTACA
65 TCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCGATGCATGTCCCAGACATGTCTTACA
17620847 TTGGCTTACATCTC
130 TTGGCTTACATCTC
* * *
17620861 GAGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTC-C-CTCAATGCCAATGCCATGT
1 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAATGCCAATACCATGT
* * * * * * *
17620922 CTCAGACATGGTCTTACATTGGC-TCTC-ATAATGTGGTCGATGCATGTCCCGGACATGTCTTAC
66 CCCAGACATGGTCTTACACTGACACCTCTAT-ACGT-GCCGATGCATGTCCCAGACATGTCTTAC
17620985 A
129 A
17620986 GTAGCAGACA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
137 2 0.02
138 6 0.06
139 59 0.55
141 1 0.01
142 16 0.15
143 13 0.12
144 10 0.09
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (143 bp):
GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAATGCCAATACCATGT
CCCAGACATGGTCTTACACTGACACCTCTATACGTGCCGATGCATGTCCCAGACATGTCTTACAT
TGGCTTACATCTC
Found at i:17647328 original size:3 final size:3
Alignment explanation
Indices: 17647320--17647365 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
17647310 TATGTTAACT
17647320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17647366 AGCATCTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17653716 original size:27 final size:26
Alignment explanation
Indices: 17653686--17653747 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
17653676 AGATAATTAA
17653686 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
17653713 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
17653740 AATAAAAT
1 AATAAAAT
17653748 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:17662649 original size:27 final size:27
Alignment explanation
Indices: 17662619--17662796 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
17662609 ATATTGAGCC
* *
17662619 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
17662646 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
17662673 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
17662701 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
17662728 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
17662755 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
17662782 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17662797 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17662758 original size:82 final size:81
Alignment explanation
Indices: 17662640--17662795 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17662630 TGCTATATAA
* * *
17662640 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
17662705 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17662722 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
17662786 CACTTAGTGC
65 CACTTAGTGC
17662796 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17668016 original size:23 final size:23
Alignment explanation
Indices: 17667951--17668031 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
17667941 AAGATTACTA
* **
17667951 TTCAGCTCAAAAGAGCTTGCCGT
1 TTCAGCTCAATAGAGCTTATCGT
*
17667974 TTTAGCTCAATAGAGCTTATCGT
1 TTCAGCTCAATAGAGCTTATCGT
*
17667997 TTCAGCTCAATAGAGCTTATTGT
1 TTCAGCTCAATAGAGCTTATCGT
17668020 TCATCAGCTCAA
1 T--TCAGCTCAA
17668032 GAAGAGGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 41 0.82
25 9 0.18
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (23 bp):
TTCAGCTCAATAGAGCTTATCGT
Found at i:17674141 original size:26 final size:26
Alignment explanation
Indices: 17674112--17674163 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17674102 AACCTACACA
*
17674112 TAAGCAACCAAAACTAATACAAGGCT
1 TAAGCAACCAAAACCAATACAAGGCT
17674138 TAAGCAACCAAAACCAATACAAGGCT
1 TAAGCAACCAAAACCAATACAAGGCT
17674164 ATCTTATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.13
Consensus pattern (26 bp):
TAAGCAACCAAAACCAATACAAGGCT
Found at i:17674919 original size:46 final size:45
Alignment explanation
Indices: 17674816--17675030 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 45
17674806 ATATCTTTAT
* * *
17674816 CGATGCCATGTCCCAAACATTGTCTTACACTGAC-ACATCTC-ATAGC
1 CGATG-CATGTCCCAAACA-TGTCTTACACTGGCTTCATCTCGA-GGC
** * *
17674862 CGACACATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTT-CATCTCGAGGC
* * * * * *
17674908 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGC-TTCATCTCGAGGC
* *
17674954 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCAT-CTCGAGGC
*
17675002 CGATGCATGTCTCAAACATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
17675031 AGGTCACACA
Statistics
Matches: 139, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 13 0.09
45 12 0.09
46 63 0.45
47 28 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTCATCTCGAGGC
Found at i:17674981 original size:94 final size:91
Alignment explanation
Indices: 17674816--17675032 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 91
17674806 ATATCTTTAT
*
17674816 CGATGCCATGTCCCAAACATTGTCTTACACT-GACACATCTCATAGCCGACACATGTCCCAGACA
1 CGATG-CATGTCCCAAACA-TGTCTTACACTAGACACATCTCATAGCCGACACATGTCCCAAACA
* *
17674880 TGTCTTACACTGGCT-TACGT-CTCGAGGC
64 TGTCTTACACTGGCTCT-CATAAT-GAGGC
* * *
17674908 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGC-CATGTCCCAAA
1 CGATGCATGTCCCAAACATGTCTTACACTAG-ACACATCTCATA-GCCGA--CACATGTCCCAAA
*
17674971 CATGGTCTTACACTGGCTCTCATAATGTGGC
62 CAT-GTCTTACACTGGCTCTCATAATGAGGC
*
17675002 CGATGCATGTCTCAAACATGTCTTACACTAG
1 CGATGCATGTCCCAAACATGTCTTACACTAG
17675033 GTCACACAAG
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
90 11 0.10
91 14 0.13
92 18 0.17
93 13 0.12
94 50 0.46
95 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (91 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGACACATCTCATAGCCGACACATGTCCCAAACATG
TCTTACACTGGCTCTCATAATGAGGC
Found at i:17679401 original size:44 final size:44
Alignment explanation
Indices: 17679353--17679469 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 44
17679343 GTGACATGTA
*
17679353 AGCCAGTGTAAGACCATGTTGGACATGGCATCGG-TGTGATTGTG
1 AGCCAGTGTAAGACCATGTTGGACATGGCATCGGAT-TGATTATG
17679397 AGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATTATG
1 AGCCAGTGTAAGACCATGTTGGACATGGCATCGG-ATTGATTATG
* * *
17679442 AACTAGTATAAGA-CATTGTTGGACATGG
1 AGCCAGTGTAAGACCA-TGTTGGACATGG
17679470 GACATGGCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
44 36 0.55
45 29 0.44
46 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
AGCCAGTGTAAGACCATGTTGGACATGGCATCGGATTGATTATG
Found at i:17689433 original size:44 final size:42
Alignment explanation
Indices: 17689289--17689447 Score: 169
Period size: 44 Copynumber: 3.7 Consensus size: 42
17689279 AACGTATACA
* * *
17689289 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAA-ATCG
* * * * *
17689332 ATGCC-ACTGTCCCAGACAGGGCCTTACACG-AAATAAGATACA
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACAAAAT-CG
*
17689374 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAAA-TCG
*
17689418 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
17689448 ATAACACATA
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 24 0.26
44 35 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAAATCG
Found at i:17689448 original size:86 final size:85
Alignment explanation
Indices: 17689284--17689448 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
17689274 TGGAAAACGT
* * *
17689284 ATACAATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
17689349 AGGGCCTTACACGAAATAAG
66 AGGGCCTTACACGAAATAAG
*
17689369 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAA-AGTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAACA-TCGATGCC-ACTGTCCCA
*
17689432 GAC-GTGGTCTTACACGA
63 GACAG-GGCCTTACACGA
17689449 TAACACATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
85 35 0.49
86 34 0.48
87 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
AGGGCCTTACACGAAATAAG
Found at i:17692588 original size:43 final size:42
Alignment explanation
Indices: 17692518--17692622 Score: 97
Period size: 43 Copynumber: 2.5 Consensus size: 42
17692508 CAATGCCAAC
***
17692518 GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATAC-CACT
1 GTCCCAGACAG-GGTCTTACACAAAATCAAACA-CGATACTCA-T
* * * *
17692561 GTCCCAGACAGGGTCTTACACAAAATCAGATACGATGCTGAT
1 GTCCCAGACAGGGTCTTACACAAAATCAAACACGATACTCAT
*
17692603 GTCCCAGACATGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
17692623 TGTAAAACAG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.48
43 26 0.50
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACAAAATCAAACACGATACTCAT
Found at i:17692618 original size:42 final size:43
Alignment explanation
Indices: 17692505--17692665 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 43
17692495 CAGAGAACAT
* * * * *
17692505 ATACAATGCCAACGTCCCAGACGTGGTCTTACATG-TAATCA-A
1 ATACGATGCCAATGTCCCAGACATGGTCTTACA-GCAAAACAGA
* * * *
17692547 ACATCGATACCACTGTCCCAGACAGGGTCTTACA-CAAAATCAG-
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACAGCAAAA-CAGA
** *
17692590 ATACGATGCTGATGTCCCAGACATGGTCTTACATGTAAAACAGA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACA-GCAAAACAGA
* *
17692634 ATTCGATGCCAACGTCCCAGACATGGTCTTAC
1 ATACGATGCCAATGTCCCAGACATGGTCTTAC
17692666 CTGAAATCAC
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 29 0.32
43 31 0.34
44 32 0.35
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACAGCAAAACAGA
Found at i:17694637 original size:43 final size:42
Alignment explanation
Indices: 17694568--17694718 Score: 110
Period size: 43 Copynumber: 3.5 Consensus size: 42
17694558 AGTGCCAACG
* * *
17694568 TCCCAGAC-GTGGTCTTACATGTAATCAAACATCGACT-CCACTA
1 TCCCAGACAG-GGTCTTACACGAAATCAAACA-CGA-TGCCAATA
* * *
17694611 TCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCAATG
1 TCCCAGACAGGGTCTTACACGAAATCAAACACGATGCCAATA
* * ** **
17694653 TCCCAGACATGGTCTTACACGCAAAACAGAAGTCGATGCCAACG
1 TCCCAGACAGGGTCTTACACG-AAATCA-AACACGATGCCAATA
*
17694697 TCTCAGAC-GTGGTCTTACACGA
1 TCCCAGACAG-GGTCTTACACGA
17694719 TAACACATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 31 0.35
44 30 0.34
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACGAAATCAAACACGATGCCAATA
Found at i:17694704 original size:44 final size:42
Alignment explanation
Indices: 17694611--17694723 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 42
17694601 GACTCCACTA
* * *
17694611 TCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAACG
17694653 TCCCAGACATGGTCTTACACGCAAAACAGA-AGTCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAAACAGATA--CGATGCCAACG
* * *
17694697 TCTCAGACGTGGTCTTACACGATAACA
1 TCCCAGACATGGTCTTACACGAAAACA
17694724 CATATCAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 21 0.34
43 12 0.19
44 29 0.47
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAACG
Found at i:17715130 original size:162 final size:162
Alignment explanation
Indices: 17714863--17715186 Score: 648
Period size: 162 Copynumber: 2.0 Consensus size: 162
17714853 CCCTATTTCA
17714863 TGGAGCTCGAGGACTCATAAAGACTGGAAGACGATTGGAGAGTCGACACACTATCAACTAGTCAA
1 TGGAGCTCGAGGACTCATAAAGACTGGAAGACGATTGGAGAGTCGACACACTATCAACTAGTCAA
17714928 GCTTTGGTATAAAGACATTCTTATTTTGTTCAATGGCATGTGTAGGATTTTTGTGTATTTTGTTA
66 GCTTTGGTATAAAGACATTCTTATTTTGTTCAATGGCATGTGTAGGATTTTTGTGTATTTTGTTA
17714993 TATGTGTCATTTGATTTGCCAAATGAAGGCAT
131 TATGTGTCATTTGATTTGCCAAATGAAGGCAT
17715025 TGGAGCTCGAGGACTCATAAAGACTGGAAGACGATTGGAGAGTCGACACACTATCAACTAGTCAA
1 TGGAGCTCGAGGACTCATAAAGACTGGAAGACGATTGGAGAGTCGACACACTATCAACTAGTCAA
17715090 GCTTTGGTATAAAGACATTCTTATTTTGTTCAATGGCATGTGTAGGATTTTTGTGTATTTTGTTA
66 GCTTTGGTATAAAGACATTCTTATTTTGTTCAATGGCATGTGTAGGATTTTTGTGTATTTTGTTA
17715155 TATGTGTCATTTGATTTGCCAAATGAAGGCAT
131 TATGTGTCATTTGATTTGCCAAATGAAGGCAT
17715187 GTAAAAATAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 162 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (162 bp):
TGGAGCTCGAGGACTCATAAAGACTGGAAGACGATTGGAGAGTCGACACACTATCAACTAGTCAA
GCTTTGGTATAAAGACATTCTTATTTTGTTCAATGGCATGTGTAGGATTTTTGTGTATTTTGTTA
TATGTGTCATTTGATTTGCCAAATGAAGGCAT
Found at i:17719755 original size:46 final size:46
Alignment explanation
Indices: 17719562--17719757 Score: 168
Period size: 46 Copynumber: 4.2 Consensus size: 46
17719552 GTTATTGTGG
* * * * *
17719562 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATA
* **
17719608 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAGACAAGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGA-TA
* * * *
17719656 GCTAGTGTAAGACATGTTTGGGATATGCATCGACCT-CGAGACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATGAT-A
*
17719702 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
*
17719748 GTTAGTGTAA
1 GCTAGTGTAA
17719758 TGAGATATGA
Statistics
Matches: 120, Mismatches: 19, Indels: 22
0.75 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 67 0.56
47 29 0.24
48 20 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
Found at i:17722777 original size:42 final size:42
Alignment explanation
Indices: 17722678--17722789 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 42
17722668 GCGTATATAG
*
17722678 TGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGA
1 TGCCAATGTCCCAGACAG-GGTCTTACATGTAA-CAAACATCGA
* *
17722721 TGCCACTGTCCCAGACAGGGTCTTACATG-AA-AAAGGATACGA
1 TGCCAATGTCCCAGACAGGGTCTTACATGTAACAAA-CAT-CGA
* *
17722763 TGCCAATGTCCCAGACATGTTCTTACA
1 TGCCAATGTCCCAGACAGGGTCTTACA
17722790 CGCACAATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
40 3 0.05
41 2 0.03
42 29 0.48
43 25 0.42
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
TGCCAATGTCCCAGACAGGGTCTTACATGTAACAAACATCGA
Found at i:17728178 original size:79 final size:81
Alignment explanation
Indices: 17728069--17728251 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
17728059 TACTCGTTCA
* *
17728069 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
17728132 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
17728149 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
17728212 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
17728228 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
17728252 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:17728251 original size:40 final size:40
Alignment explanation
Indices: 17728048--17728251 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
17728038 CGGAATTTAA
** *
17728048 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17728088 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17728128 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
17728167 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
17728207 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
17728247 CCGGA
1 CCGGA
17728252 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:17732174 original size:8 final size:8
Alignment explanation
Indices: 17732161--17732185 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17732151 AATATTTCTC
17732161 TTTTATAT
1 TTTTATAT
17732169 TTTTATAT
1 TTTTATAT
17732177 TTTTATAT
1 TTTTATAT
17732185 T
1 T
17732186 ATCACCTTGA
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:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATAT
Found at i:17733773 original size:14 final size:14
Alignment explanation
Indices: 17733741--17733774 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17733731 TCATAACTTA
17733741 TATTATATACATAT
1 TATTATATACATAT
* *
17733755 AATTATATACATTT
1 TATTATATACATAT
17733769 TATTAT
1 TATTAT
17733775 TATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATACATAT
Found at i:17735701 original size:29 final size:30
Alignment explanation
Indices: 17735650--17735713 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
17735640 CACTCTCGGG
* *
17735650 CATACCGACGGAGTCTCACAAATTTCAGCT
1 CATACCGACGAAGTCTCAAAAATTTCAGCT
*
17735680 CATACCGAC-AAGTCTCAAAAATTTCTGCT
1 CATACCGACGAAGTCTCAAAAATTTCAGCT
17735709 CATAC
1 CATAC
17735714 TCTGTCACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (30 bp):
CATACCGACGAAGTCTCAAAAATTTCAGCT
Found at i:17743711 original size:40 final size:40
Alignment explanation
Indices: 17743667--17743846 Score: 342
Period size: 40 Copynumber: 4.5 Consensus size: 40
17743657 AGCAAAAATT
* *
17743667 CCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17743707 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17743747 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17743787 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17743827 CCTTCGGGACTTAACCCGGT
1 CCTTCGGGACTTAACCCGGT
17743847 TATATATTAT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
Found at i:17744888 original size:61 final size:61
Alignment explanation
Indices: 17744813--17744933 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
17744803 GGACCAACTC
*
17744813 GTTCGGATATTTCATACGGCCCTATGAACCTCGGACTCAATTTTCCCTTATGGCCAAATCT
1 GTTCGGATATTTCATACGGCCCTATGAACCTCGGACTCAATTTTCCCTTACGGCCAAATCT
*
17744874 GTTCGGATATTTCATACGGCCTTATGAACCTCGGACTCAATTTTCCCTTACGGCCAAATC
1 GTTCGGATATTTCATACGGCCCTATGAACCTCGGACTCAATTTTCCCTTACGGCCAAATC
17744934 CGAGTATCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (61 bp):
GTTCGGATATTTCATACGGCCCTATGAACCTCGGACTCAATTTTCCCTTACGGCCAAATCT
Found at i:17750492 original size:40 final size:40
Alignment explanation
Indices: 17750448--17750627 Score: 342
Period size: 40 Copynumber: 4.5 Consensus size: 40
17750438 AGCAAAAATT
* *
17750448 CCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17750488 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17750528 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17750568 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
1 CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
17750608 CCTTCGGGACTTAACCCGGT
1 CCTTCGGGACTTAACCCGGT
17750628 TATATTTTTT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGTAATAATAACCCGTACGAATG
Found at i:17755273 original size:24 final size:23
Alignment explanation
Indices: 17755219--17755274 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
17755209 GGATAACTAA
* *
17755219 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
17755242 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
17755266 GAAATGGTA
1 GAAATGGTA
17755275 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:17756744 original size:43 final size:41
Alignment explanation
Indices: 17756678--17756764 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 41
17756668 ATATCATACA
* *
17756678 ATGCCAACGTCCCAGATATGGTCTTACATGCTATCTCATGTCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGC-ATC-CATGTCG
* *
17756721 ATGCC-ACTGTCCCAGACAGGGTCTTATATGCATCGATGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACATGCATCCATGTCG
17756762 ATG
1 ATG
17756765 TCCCAGACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 9 0.23
42 5 0.13
43 25 0.64
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGCATCCATGTCG
Found at i:17757443 original size:15 final size:15
Alignment explanation
Indices: 17757423--17757453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17757413 TCAAAAACTC
*
17757423 CAATCCAAAATATAT
1 CAATCCAAAACATAT
17757438 CAATCCAAAACATAT
1 CAATCCAAAACATAT
17757453 C
1 C
17757454 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATCCAAAACATAT
Found at i:17760230 original size:27 final size:27
Alignment explanation
Indices: 17760200--17760322 Score: 201
Period size: 27 Copynumber: 4.6 Consensus size: 27
17760190 CCCTAAAATA
*
17760200 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
17760227 GGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
17760254 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
17760281 GGTAAATTGACAGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
17760308 GGTAAAATGACCGTA
1 GGTAAAATGACCGTA
17760323 GGGTAAAATG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:17760282 original size:54 final size:54
Alignment explanation
Indices: 17760200--17760548 Score: 350
Period size: 54 Copynumber: 6.7 Consensus size: 54
17760190 CCCTAAAATA
* * *
17760200 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCCTGTAG
* *
17760254 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAATTGA-CAGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCA-TAATGCCCCTGTAG
* *
17760308 GGTAAAAT----G----A--CC-GTAGGGTAAAATGA-CAGTAATTCCTCT-TAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCA-TAATGCCCCTGTAG
* * * * * *
17760350 GATAAAATGACCGTAATA-CCCTCATAAGGTAAAGTGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCT-GTAGGGTAAAATGACCATAATGCCCCTGTAG
* * *
17760404 GGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCCTGTAG
* * * ** * *
17760458 GGTAAAATGAGCATAATAACCCTGTAGGGTAAAATGACTGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCCTGTAG
*
17760512 GGTAAAATGACCGTAATACCCCTGTATGGTAAAATGA
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA
17760549 ATATTATGCC
Statistics
Matches: 249, Mismatches: 31, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
42 10 0.04
43 24 0.10
44 2 0.01
46 1 0.00
50 2 0.01
51 2 0.01
53 21 0.08
54 183 0.73
55 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCCTGTAG
Found at i:17760323 original size:16 final size:16
Alignment explanation
Indices: 17760304--17760334 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17760294 TAATGCCCCT
17760304 GTAGGGTAAAATGACC
1 GTAGGGTAAAATGACC
17760320 GTAGGGTAAAATGAC
1 GTAGGGTAAAATGAC
17760335 AGTAATTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (16 bp):
GTAGGGTAAAATGACC
Found at i:17760338 original size:43 final size:42
Alignment explanation
Indices: 17760277--17760364 Score: 131
Period size: 43 Copynumber: 2.1 Consensus size: 42
17760267 TAATGCCCCT
* *
17760277 GTAGGGTAAATTGACAGTAATGCCCCTGTAGGGTAAAATGACC
1 GTAGGGTAAAATGACAGTAATGCCCCT-TAGGATAAAATGACC
* *
17760320 GTAGGGTAAAATGACAGTAATTCCTCTTAGGATAAAATGACC
1 GTAGGGTAAAATGACAGTAATGCCCCTTAGGATAAAATGACC
17760362 GTA
1 GTA
17760365 ATACCCTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 17 0.41
43 24 0.59
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (42 bp):
GTAGGGTAAAATGACAGTAATGCCCCTTAGGATAAAATGACC
Found at i:17760382 original size:27 final size:27
Alignment explanation
Indices: 17760321--17760548 Score: 262
Period size: 27 Copynumber: 8.5 Consensus size: 27
17760311 AAAATGACCG
* * *
17760321 TAGGGTAAAATGACAGTAATTCCTCT-
1 TAGGGTAAAATGACCGTAATACCCCTA
*
17760347 TAGGATAAAATGACCGTAATA-CCCTCA
1 TAGGGTAAAATGACCGTAATACCCCT-A
* * *
17760374 TAAGGTAAAGTGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTA
*
17760401 TAGGGTAAAATAACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTA
* *
17760428 TAGGGTAAAATGACCGTAATGCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTA
* * * *
17760455 TAGGGTAAAATGAGCATAATAACCCTG
1 TAGGGTAAAATGACCGTAATACCCCTA
* *
17760482 TAGGGTAAAATGACTGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTA
* *
17760509 TAAGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTA
*
17760536 TATGGTAAAATGA
1 TAGGGTAAAATGA
17760549 ATATTATGCC
Statistics
Matches: 169, Mismatches: 30, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
25 3 0.02
26 18 0.11
27 144 0.85
28 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTA
Found at i:17760393 original size:96 final size:97
Alignment explanation
Indices: 17760223--17760418 Score: 263
Period size: 96 Copynumber: 2.0 Consensus size: 97
17760213 TAATGCCCTT
* * * * *
17760223 GTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAT
1 GTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATACCCCTATAAGGTAAAG
* *
17760288 TGACAGTAATGCCCCTGTAGGGTAAAATGACC
66 TGACAGTAATACCCCTGTAGGGTAAAATAACC
* *
17760320 GTAGGGTAAAATGA-CAGTAATTCCTCT-TAGGATAAAATGACCGTAATA-CCCTCATAAGGTAA
1 GTAGGGTAAAATGACCA-TAATACCCCTGTAGGATAAAATGACCGTAATACCCCT-ATAAGGTAA
*
17760382 AGTGACCGTAATACCCCTGTAGGGTAAAATAACC
64 AGTGACAGTAATACCCCTGTAGGGTAAAATAACC
17760416 GTA
1 GTA
17760419 ATACCCCTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.05
96 61 0.70
97 22 0.25
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (97 bp):
GTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATACCCCTATAAGGTAAAG
TGACAGTAATACCCCTGTAGGGTAAAATAACC
Found at i:17760956 original size:33 final size:33
Alignment explanation
Indices: 17760914--17760989 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
17760904 ATAATGTATT
* * *
17760914 AGGCTTAGACCACACTATTACTGTATAGGGCTA
1 AGGCCTAGACCACACTAATACTGAATAGGGCTA
*** *
17760947 AGGCCTAGACTGTACTAATACTGAATAGGGCTC
1 AGGCCTAGACCACACTAATACTGAATAGGGCTA
*
17760980 AGGCCCAGAC
1 AGGCCTAGAC
17760990 TGTTATTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (33 bp):
AGGCCTAGACCACACTAATACTGAATAGGGCTA
Found at i:17760990 original size:33 final size:33
Alignment explanation
Indices: 17760927--17760992 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
17760917 CTTAGACCAC
* * *
17760927 ACTATTACTGTATAGGGCTAAGGCCTAGACTGT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
*
17760960 ACTAATACTGAATAGGGCTCAGGCCCAGACTGT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
17760993 TATTGATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
Found at i:17766630 original size:48 final size:48
Alignment explanation
Indices: 17766559--17766833 Score: 259
Period size: 48 Copynumber: 5.7 Consensus size: 48
17766549 GAGTAAATTA
** * * *
17766559 CCGATGCCATGTCCCAGTCATGGTCTTACACTAGCTTTCGTCTTAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATG
* ** *
17766607 CCGATGCCATGTTCCAAACATGGTCTTACACCGGCTCTCATATT-GTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAAT-G
* * * * * * * *
17766655 CCGACGCCATATCCTAGACATGGTCTTACACTAGCACACATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATG
* * * *
17766703 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCATATTAATG
* * * *
17766751 TCGATGCCATGCCCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAAT-G
* *
17766799 TCGATGCCATGTTCCAAACATGGTCTTACACTAGC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC
17766834 AAACATATCA
Statistics
Matches: 186, Mismatches: 36, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
47 2 0.01
48 183 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATG
Found at i:17766820 original size:144 final size:144
Alignment explanation
Indices: 17766559--17766843 Score: 376
Period size: 144 Copynumber: 2.0 Consensus size: 144
17766549 GAGTAAATTA
* ** * * * * **
17766559 CCGATGCCATGTCCCAGTCATGGTCTTACACTAGCTTTCGTCTTAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGCCCCAA
* * *
17766624 ACATGGTCTTACACCGGCTCTCATATTGTGGCCGACGCCATATCCTAGACATGGTCTTACACTAG
66 ACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCATATCCTAAACATGGTCTTACACTAG
*
17766689 CACACATATCAACG
131 CAAACATATCAACG
*
17766703 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAACGTCGATGCCATGCCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAACGCCGATGCCATGCCCCA
* * * *
17766767 AACATGGTCTTACACTGGCTCTCATAATATGGTCGATGCCATGTTCC-AAACATGGTCTTACACT
65 AACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCAT-ATCCTAAACATGGTCTTACACT
17766831 AGCAAACATATCA
129 AGCAAACATATCA
17766844 TTCAATTCTC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
143 1 0.01
144 117 0.97
145 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGCCCCAA
ACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCATATCCTAAACATGGTCTTACACTAG
CAAACATATCAACG
Found at i:17782378 original size:25 final size:25
Alignment explanation
Indices: 17782350--17782415 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
17782340 GGCCTAGTCT
17782350 CTTTTAATAACTGGGGCAAAAAGCC
1 CTTTTAATAACTGGGGCAAAAAGCC
*
17782375 CTTTTAATAACTGGGGC-ATAAGCC
1 CTTTTAATAACTGGGGCAAAAAGCC
17782399 C-TTTAATAACTGGGGCA
1 CTTTTAATAACTGGGGCA
17782416 TAAGCCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 15 0.38
24 7 0.18
25 17 0.44
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (25 bp):
CTTTTAATAACTGGGGCAAAAAGCC
Found at i:17782407 original size:23 final size:24
Alignment explanation
Indices: 17782350--17782426 Score: 120
Period size: 23 Copynumber: 3.2 Consensus size: 24
17782340 GGCCTAGTCT
*
17782350 CTTTTAATAACTGGGGCAAAAAGCC
1 CTTTTAATAACTGGGGC-ATAAGCC
17782375 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
17782399 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
17782422 TTTTT
1 CTTTT
17782427 TCACTTCCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
23 22 0.45
24 10 0.20
25 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:17782495 original size:18 final size:19
Alignment explanation
Indices: 17782472--17782511 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
17782462 GCATTTATAA
17782472 ATACA-TCATGTGCATATC
1 ATACATTCATGTGCATATC
17782490 ATACATTTCATGTGCATATC
1 ATACA-TTCATGTGCATATC
17782510 AT
1 AT
17782512 CCATACAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
20 15 0.75
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (19 bp):
ATACATTCATGTGCATATC
Found at i:17783695 original size:27 final size:27
Alignment explanation
Indices: 17783655--17783795 Score: 219
Period size: 27 Copynumber: 5.2 Consensus size: 27
17783645 NNNNNNNNNN
*
17783655 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
17783682 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
17783709 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * *
17783736 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
*
17783763 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
17783790 GTAATT
1 GTAATT
17783796 CTAGTAAACT
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:17783812 original size:27 final size:26
Alignment explanation
Indices: 17783655--17783813 Score: 156
Period size: 27 Copynumber: 5.9 Consensus size: 26
17783645 NNNNNNNNNN
* * *
17783655 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTATAAACCA-AGGTATTTTG
17783682 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTATAAACCAA-GGTATTTTG
* *
17783709 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTATAAACCA-AGGTATTTTG
*
17783736 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTATAAACCAA-GGTATTTTG
* * *
17783763 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTATAAACCA-AGGTATTTTG
* * *
17783790 GTAATTCTAGTAAACTAAAGTATT
1 GTAATTTTA-TAAACCAAGGTATT
17783814 CTAAATAGGG
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
27 105 0.95
28 6 0.05
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTATAAACCAAGGTATTTTG
Found at i:17783813 original size:54 final size:54
Alignment explanation
Indices: 17783655--17783804 Score: 264
Period size: 54 Copynumber: 2.8 Consensus size: 54
17783645 NNNNNNNNNN
*
17783655 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
*
17783709 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
*
17783763 GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAGTAAAC
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA-TAAAC
17783805 TAAAGTATTC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
54 86 0.95
55 5 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
Found at i:17786190 original size:47 final size:45
Alignment explanation
Indices: 17785955--17786216 Score: 183
Period size: 47 Copynumber: 5.6 Consensus size: 45
17785945 AGTGTAGGCT
*
17785955 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-ACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-TAT--GAGCC
* * * * * *
17786001 AGAGTAAGACCATGTCTAGTACATGGCATCGGCATCGAGACGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGA-TATGAGCC
* * * ** *
17786049 AGTGTAATACAT-TCTGGGACATGCATCGACTTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TCGAGATATGAGCC
* * *
17786094 AGTGTAAGATATGTCTGGGACATGCATCGGCTACGAAATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGAT-ATGAGCC
* *
17786140 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGATATGAGCC
* *
17786187 AGTGTAAGACCATTTCTGGGATATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
17786217 TGCACCCTAC
Statistics
Matches: 169, Mismatches: 35, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
45 25 0.15
46 50 0.30
47 64 0.38
48 26 0.15
50 1 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATATGAGCC
Found at i:17788820 original size:23 final size:22
Alignment explanation
Indices: 17788768--17788820 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17788758 TCCACGTCTT
*
17788768 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17788790 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17788813 TTTCTTTT
1 TTTCTTTT
17788821 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17792658 original size:21 final size:22
Alignment explanation
Indices: 17792619--17792659 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17792609 TCGATTTTGT
17792619 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
17792641 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
17792660 GTGTTAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:17793603 original size:143 final size:143
Alignment explanation
Indices: 17793441--17793728 Score: 576
Period size: 143 Copynumber: 2.0 Consensus size: 143
17793431 ATGTCCAGAT
17793441 TAAGACACATTAAAAATGCAACTTTATTTATTTGACCTGAATAAACTAATTTAACTAAAACTAAA
1 TAAGACACATTAAAAATGCAACTTTATTTATTTGACCTGAATAAACTAATTTAACTAAAACTAAA
17793506 TTAAATGCTTATTCCAACAATGAAATAACATTAAGTTAAAATGAGTTGGAAATTGAACTCAATGA
66 TTAAATGCTTATTCCAACAATGAAATAACATTAAGTTAAAATGAGTTGGAAATTGAACTCAATGA
17793571 GCTAGATATGAGC
131 GCTAGATATGAGC
17793584 TAAGACACATTAAAAATGCAACTTTATTTATTTGACCTGAATAAACTAATTTAACTAAAACTAAA
1 TAAGACACATTAAAAATGCAACTTTATTTATTTGACCTGAATAAACTAATTTAACTAAAACTAAA
17793649 TTAAATGCTTATTCCAACAATGAAATAACATTAAGTTAAAATGAGTTGGAAATTGAACTCAATGA
66 TTAAATGCTTATTCCAACAATGAAATAACATTAAGTTAAAATGAGTTGGAAATTGAACTCAATGA
17793714 GCTAGATATGAGC
131 GCTAGATATGAGC
17793727 TA
1 TA
17793729 GATTAGCTCG
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 145 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (143 bp):
TAAGACACATTAAAAATGCAACTTTATTTATTTGACCTGAATAAACTAATTTAACTAAAACTAAA
TTAAATGCTTATTCCAACAATGAAATAACATTAAGTTAAAATGAGTTGGAAATTGAACTCAATGA
GCTAGATATGAGC
Found at i:17795168 original size:20 final size:20
Alignment explanation
Indices: 17795140--17795181 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
17795130 TACACTTTGC
17795140 ACCTACCAATCAACCACCAA
1 ACCTACCAATCAACCACCAA
*
17795160 ACCTGCCAATCAACCACCAA
1 ACCTACCAATCAACCACCAA
17795180 AC
1 AC
17795182 AAGTCCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.45, G:0.02, T:0.10
Consensus pattern (20 bp):
ACCTACCAATCAACCACCAA
Found at i:17797193 original size:16 final size:17
Alignment explanation
Indices: 17797169--17797208 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17797159 TGCCCAAAAT
* *
17797169 ATTATTTATTT-AATCA
1 ATTAATTATTTAAATAA
17797185 ATTAATTATTTAAATAA
1 ATTAATTATTTAAATAA
17797202 ATTAATT
1 ATTAATT
17797209 TCTCAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATTATTTAAATAA
Found at i:17800385 original size:40 final size:40
Alignment explanation
Indices: 17800330--17800677 Score: 633
Period size: 40 Copynumber: 8.7 Consensus size: 40
17800320 GAGCATTGGA
17800330 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
*
17800370 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
17800410 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
* * *
17800450 ATATATCCTGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
17800490 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
17800530 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
17800570 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
* *
17800610 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
*
17800650 ATATATCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
17800678 ATGTGTTTGC
Statistics
Matches: 297, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 297 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
Found at i:17804020 original size:18 final size:18
Alignment explanation
Indices: 17803997--17804031 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17803987 TGTTTAAGTA
17803997 TGAATTGTGATAAATGTT
1 TGAATTGTGATAAATGTT
17804015 TGAATTGTGATAAATGT
1 TGAATTGTGATAAATGT
17804032 CTCGGTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (18 bp):
TGAATTGTGATAAATGTT
Found at i:17807618 original size:10 final size:10
Alignment explanation
Indices: 17807605--17807642 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17807595 AAGAAGCTAA
17807605 ATTGAGCTCG
1 ATTGAGCTCG
17807615 ATTGAGCT-G
1 ATTGAGCTCG
17807624 ACTTGAGCTCG
1 A-TTGAGCTCG
*
17807635 AGTGAGCT
1 ATTGAGCT
17807643 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:17807629 original size:20 final size:20
Alignment explanation
Indices: 17807606--17807643 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17807596 AGAAGCTAAA
*
17807606 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
17807626 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
17807644 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:17808288 original size:30 final size:30
Alignment explanation
Indices: 17808252--17808336 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
17808242 TTTTCTCTCG
**
17808252 TTTTTTTTTCAA-CATCTTTTTCTTTTTCAA
1 TTTTTTTTTCAATC-TCAATTTCTTTTTCAA
*
17808282 TTTTTTTCTCAATCTCAATTTCTTTTTCAA
1 TTTTTTTTTCAATCTCAATTTCTTTTTCAA
* *
17808312 TTTTCTTTTC--T-TCATTTTCTTTTTC
1 TTTTTTTTTCAATCTCAATTTCTTTTTC
17808337 TCTCACTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
27 13 0.27
28 1 0.02
30 33 0.69
31 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTTTTTTCAATCTCAATTTCTTTTTCAA
Found at i:17808299 original size:18 final size:18
Alignment explanation
Indices: 17808278--17808312 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17808268 TTTTTCTTTT
17808278 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
17808296 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
17808313 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:17808309 original size:6 final size:6
Alignment explanation
Indices: 17808300--17808404 Score: 52
Period size: 6 Copynumber: 17.2 Consensus size: 6
17808290 TCAATCTCAA
* * * ** **
17808300 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTAT TTTGAT
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCT-T TTTCTT
* ** * *
17808352 TT-CTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
17808398 TTTCTT T
1 TTTCTT T
17808405 CAATTTCTTT
Statistics
Matches: 69, Mismatches: 25, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
5 7 0.10
6 49 0.71
7 10 0.14
8 3 0.04
ACGTcount: A:0.08, C:0.17, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:17808417 original size:6 final size:6
Alignment explanation
Indices: 17808351--17808404 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
17808341 ACTATTTTGA
* ** * *
17808351 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
17808398 TTTCTT T
1 TTTCTT T
17808405 CAATTTCTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.04, C:0.15, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:17809481 original size:14 final size:14
Alignment explanation
Indices: 17809464--17809491 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17809454 TTTTTTTCGA
17809464 TTTTTTTTGAATTT
1 TTTTTTTTGAATTT
17809478 TTTTTTTTGAATTT
1 TTTTTTTTGAATTT
17809492 CTTCTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTTTTGAATTT
Found at i:17810735 original size:10 final size:10
Alignment explanation
Indices: 17810722--17810759 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17810712 AAGAAGCTAA
17810722 ATTGAGCTCG
1 ATTGAGCTCG
17810732 ATTGAGCT-G
1 ATTGAGCTCG
17810741 ACTTGAGCTCG
1 A-TTGAGCTCG
*
17810752 AGTGAGCT
1 ATTGAGCT
17810760 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:17810746 original size:20 final size:20
Alignment explanation
Indices: 17810723--17810760 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17810713 AGAAGCTAAA
*
17810723 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
17810743 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
17810761 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:17817365 original size:27 final size:26
Alignment explanation
Indices: 17817292--17817406 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
17817282 TGGAGGAAGC
*
17817292 GTTCTGGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* * *
17817319 GTTTTTGATGGCTACGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
* *
17817347 ATTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
17817373 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
17817400 GTTCTGG
1 GTTCTGG
17817407 CAGTCATACT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
26 13 0.18
27 38 0.52
28 22 0.30
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:17826727 original size:27 final size:26
Alignment explanation
Indices: 17826697--17826757 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
17826687 ATTTACTAGA
*
17826697 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAG-ATGAAAATGACCATT
* *
17826724 ATACCCCT-AGGTGAAAATGACCGTT
1 ATACCCCTAAGATGAAAATGACCATT
17826749 ATACCCCTA
1 ATACCCCTA
17826758 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGATGAAAATGACCATT
Found at i:17826750 original size:25 final size:25
Alignment explanation
Indices: 17826710--17826759 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
17826700 CCCCTAAGTA
*
17826710 TGAAAATTACCATTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
*
17826735 TGAAAATGACCGTTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
17826760 GTTAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TGAAAATGACCATTATACCCCTAGG
Found at i:17829602 original size:28 final size:27
Alignment explanation
Indices: 17829569--17829643 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
17829559 GGAGGAAGCG
*
17829569 TTCTGGTGGTTATGCCACAAACATCTA
1 TTCTGGTGGCTATGCCACAAACATCTA
* *
17829596 TTTCTGGTGGCTACGCCACAAATATCTA
1 -TTCTGGTGGCTATGCCACAAACATCTA
*
17829624 TTCTGGTGGCTCTGCCACAA
1 TTCTGGTGGCTATGCCACAA
17829644 TATCTGTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAAACATCTA
Found at i:17829640 original size:27 final size:26
Alignment explanation
Indices: 17829569--17829682 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 26
17829559 GGAGGAAGCG
* * *
17829569 TTCTGGTGGTTATGCCACAAACATCTA
1 TTCTGGTGGCTCTGCCAC-AATATCTA
17829596 TTTCTGGTGGCTAC-GCCACAAATATCTA
1 -TTCTGGTGGCT-CTGCCAC-AATATCTA
*
17829624 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTA
** * *
17829650 TATCTGGTGAATCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTA
17829677 TTCTGG
1 TTCTGG
17829683 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 14 0.18
27 39 0.51
28 23 0.30
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTA
Found at i:17831681 original size:47 final size:47
Alignment explanation
Indices: 17831630--17831758 Score: 240
Period size: 47 Copynumber: 2.7 Consensus size: 47
17831620 CATAACGTGC
17831630 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
17831677 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
* *
17831724 CATTTGGTAAGATAAGGATATCATGTAAGACCATG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATG
17831759 CCAAGGCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 80 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
Found at i:17831801 original size:54 final size:53
Alignment explanation
Indices: 17831737--17831890 Score: 191
Period size: 53 Copynumber: 2.9 Consensus size: 53
17831727 TTGGTAAGAT
*
17831737 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGC
* * * *
17831791 AAGGAAATCATATAAGACCATGCCAAGGCATGGTATTGGTGAGTTCATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * * * * * *
17831844 AATGATACCACGTAAGACTATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCA
17831891 AAAAGGAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 43 0.51
54 41 0.49
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:17833797 original size:43 final size:43
Alignment explanation
Indices: 17833749--17833834 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
17833739 ATCACATGTA
* *
17833749 TCGCATCCATTATGAACTCAGACCACTCAACGAGCTCTGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
*
17833792 TCGCATCCATAATGACCTCAGACCACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
17833835 CAAATATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:17848927 original size:21 final size:22
Alignment explanation
Indices: 17848887--17848928 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17848877 GCCTAAATGG
17848887 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCGTGTTGCCCCTC
17848909 TCACACGGGCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
17848929 ATGTTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTC
Found at i:17854466 original size:21 final size:20
Alignment explanation
Indices: 17854438--17854477 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17854428 ATCTATATAA
17854438 ATGAATTTAATAATCAATTT
1 ATGAATTTAATAATCAATTT
* *
17854458 ATGACATTTCATATTCAATT
1 ATGA-ATTTAATAATCAATT
17854478 GGATTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
ATGAATTTAATAATCAATTT
Found at i:17859775 original size:16 final size:16
Alignment explanation
Indices: 17859751--17859793 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
17859741 TAAAAATAAT
* *
17859751 TTAAAATATAATTTTA
1 TTAATATATAAATTTA
17859767 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
17859785 TTAATATAT
1 TTAATATAT
17859794 GTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:17859779 original size:18 final size:18
Alignment explanation
Indices: 17859756--17859798 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
17859746 ATAATTTAAA
*
17859756 ATATAATTTTATTAATAT
1 ATATAAATTTATTAATAT
17859774 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
17859792 ATGTAAA
1 ATATAAA
17859799 AATAATTTTT
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:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:17866155 original size:22 final size:23
Alignment explanation
Indices: 17866116--17866160 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
17866106 AAAGCTCAGG
** *
17866116 AGAAAGGAGAGACTGAAAGGAAA
1 AGAAAGGAGAGAAAGAAAAGAAA
17866139 AGAAA-GAGAGAAAGAAAAGAAA
1 AGAAAGGAGAGAAAGAAAAGAAA
17866161 TGTGCTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (23 bp):
AGAAAGGAGAGAAAGAAAAGAAA
Found at i:17870349 original size:20 final size:20
Alignment explanation
Indices: 17870326--17870371 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
17870316 TACCAAAATA
*
17870326 TCTAAGGATTTAACAATATT
1 TCTAAAGATTTAACAATATT
* *
17870346 TCTAAAGTTTTATCAATATT
1 TCTAAAGATTTAACAATATT
*
17870366 TATAAA
1 TCTAAA
17870372 CCTTAAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (20 bp):
TCTAAAGATTTAACAATATT
Found at i:17870771 original size:50 final size:50
Alignment explanation
Indices: 17870687--17870781 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
17870677 ATCTTATCCT
* * *
17870687 AATCAATGTCAAATAGAATGAGAGAATTTCTATACGAATTCTACTCGTAC
1 AATCAATATCAAATAGAATGAGAGAAGTTATATACGAATTCTACTCGTAC
*
17870737 AATCAATATCAAATAGAA-GAAGAGTAGTTATATACGAATTCTACT
1 AATCAATATCAAATAGAATG-AGAGAAGTTATATACGAATTCTACT
17870782 TGTATTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (50 bp):
AATCAATATCAAATAGAATGAGAGAAGTTATATACGAATTCTACTCGTAC
Found at i:17872921 original size:5 final size:5
Alignment explanation
Indices: 17872911--17872935 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17872901 ATTGTGTGTA
17872911 TTGTT TTGTT TTGTT TTGTT TTGTT
1 TTGTT TTGTT TTGTT TTGTT TTGTT
17872936 GTGATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTGTT
Found at i:17872972 original size:28 final size:28
Alignment explanation
Indices: 17872941--17873019 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
17872931 TTGTTGTGAT
*
17872941 GTATTGTTATATTATTATTTTTGTTTTG
1 GTATTGTTATATTATTATTTTCGTTTTG
17872969 GTATTGTTATATTATTATTTTCGTTTTG
1 GTATTGTTATATTATTATTTTCGTTTTG
*
17872997 GTATTGTTATATCAATTATTTTC
1 GTATTGTTATAT-TATTATTTTC
17873020 CATGCATGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 39 0.81
29 9 0.19
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (28 bp):
GTATTGTTATATTATTATTTTCGTTTTG
Found at i:17873451 original size:131 final size:131
Alignment explanation
Indices: 17873215--17873461 Score: 404
Period size: 131 Copynumber: 1.9 Consensus size: 131
17873205 AAAATTCTTT
* **
17873215 AAAATGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATTGTGCCCTATCGTGTTGGGTTGCAA
1 AAAATGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGGGTTGCAA
* * *
17873280 TTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACGCATGTCGTTAAAGATGCTT
66 TTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACGCATGTCGTTAAAGATGCTT
17873345 C
131 C
* * *
17873346 AAAATGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTACTGGGTTGCAA
1 AAAATGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGGGTTGCAA
*
17873411 TTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
66 TTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACGCATGT
17873462 TCTCTAAATT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 106 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (131 bp):
AAAATGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGGGTTGCAA
TTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACGCATGTCGTTAAAGATGCTT
C
Found at i:17876836 original size:20 final size:20
Alignment explanation
Indices: 17876811--17876852 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17876801 TGATGCCTCC
*
17876811 TTTGCATT-CATGCATTTGCA
1 TTTGCATTACAT-CATATGCA
17876831 TTTGCATTACATCATATGCA
1 TTTGCATTACATCATATGCA
17876851 TT
1 TT
17876853 AAAGGTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTGCATTACATCATATGCA
Found at i:17896485 original size:47 final size:47
Alignment explanation
Indices: 17896420--17896560 Score: 196
Period size: 47 Copynumber: 3.0 Consensus size: 47
17896410 GTTGAATTTA
*
17896420 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTATTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
*
17896467 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGACAAGTTAC--AGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
* * * * * *
17896512 AAGCTTGTTAAATTTTCCCTTATTATTTTCGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
17896559 AA
1 AA
17896561 AGAAAATTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
45 37 0.45
47 46 0.55
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
Found at i:17901375 original size:89 final size:90
Alignment explanation
Indices: 17901223--17901773 Score: 599
Period size: 89 Copynumber: 6.2 Consensus size: 90
17901213 CGACATTGGC
* * * * * *
17901223 GAAGATTG-CAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCGGACCGAAGAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
17901287 CCCCTAAGTAGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* ** ** *
17901312 GAAGATTGA-AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCATTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
17901376 CCCCTAAGTAGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * * *
17901401 G-A-ATTG-CAGATCTTATTTCCCTGAAGTTGCAGTGGAACAGATCAAACAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
*
17901463 CCCCTAAGTGGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * * **
17901488 GAAGA-TCATAGAAT-TTGTCTTCCTGAAGTTGCAGTGGAACAGAT-AGAAGATAGTGAGCCTTA
1 GAAGATTGATAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCA-AAGAAAGCAAGCCTTA
* *
17901550 ACCCTCTAAGTAGTAGGGTAACATGCT
64 ACCCCCTAAGTAGTAGGGTAACAGGCT
* * *
17901577 G-A-ATT-ACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
* * * **
17901639 CTCTTAAGTGGTAGGGTAACAGTAT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * ** *
17901664 GAAGA-TCATAGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAA-CCTTAA
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAG-CAAGCCTTAA
* *
17901727 CCCCCTAAGCAGTAGGGTAATAGGCT
65 CCCCCTAAGTAGTAGGGTAACAGGCT
* * *
17901753 -AAAAATCATAGATCTTGTCTC
1 GAAGATTGATAGATCTTGTCTC
17901774 TCTAAGCAGT
Statistics
Matches: 387, Mismatches: 60, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.01
87 140 0.36
88 12 0.03
89 229 0.59
90 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (90 bp):
GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
CCCCTAAGTAGTAGGGTAACAGGCT
Found at i:17901521 original size:176 final size:176
Alignment explanation
Indices: 17901227--17901752 Score: 768
Period size: 176 Copynumber: 3.0 Consensus size: 176
17901217 ATTGGCGAAG
** * * * *
17901227 ATTGCAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCGGACCGAAGAAAGCAAGCCTTAACCCCCT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
* *
17901292 AAGTAGTAGGGTAACAGGCTGAAGATTGA-AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
66 AAGTGGTAGGGTAACAGGCTGAAGA-TCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
*
17901356 CGAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
130 CGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
* *
17901403 ATTGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAGATCAAACAAAGCAAGCCTTAACCCCCT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
*
17901468 AAGTGGTAGGGTAACAGGCTGAAGATCATAGAAT-TTGTCTTCCTGAAGTTGCAGTGGAACAGAT
66 AAGTGGTAGGGTAACAGGCTGAAGATCATAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* ** * *
17901532 AGAAGATAGTGAGCCTTAACCCTCTAAGTAGTAGGGTAACATGCTGA
130 CGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
* * * *
17901579 ATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCTCTT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
** *
17901644 AAGTGGTAGGGTAACAGTATGAAGATCATAGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATC
66 AAGTGGTAGGGTAACAGGCTGAAGATCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
* * * *
17901709 AAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAATAGGCT
131 GAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT
17901753 AAAAATCATA
Statistics
Matches: 311, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
175 4 0.01
176 305 0.98
177 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (176 bp):
ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
AAGTGGTAGGGTAACAGGCTGAAGATCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
GAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
Found at i:17903321 original size:19 final size:19
Alignment explanation
Indices: 17903299--17903369 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 19
17903289 TTGTTTATAT
17903299 GATTCATTATTTTTTAGGA
1 GATTCATTATTTTTTAGGA
*
17903318 GATTCATTTAATGCCTTTTTTAGGT
1 GATTCA-TT-A----TTTTTTAGGA
*
17903343 GATTCATTATTTTTGAGGA
1 GATTCATTATTTTTTAGGA
17903362 GATTCATT
1 GATTCATT
17903370 TAATGCCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 22 0.51
20 2 0.05
21 1 0.02
23 1 0.02
24 2 0.05
25 15 0.35
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (19 bp):
GATTCATTATTTTTTAGGA
Found at i:17903346 original size:25 final size:25
Alignment explanation
Indices: 17903308--17903385 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 25
17903298 TGATTCATTA
17903308 TTTTTTAGGAGATTCATTTAATGCC
1 TTTTTTAGGAGATTCATTTAATGCC
*
17903333 TTTTTTAGGTGATTCA-TT-A----
1 TTTTTTAGGAGATTCATTTAATGCC
*
17903352 TTTTTGAGGAGATTCATTTAATGCC
1 TTTTTTAGGAGATTCATTTAATGCC
17903377 TTTTTTAGG
1 TTTTTTAGG
17903386 TGTCAAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 14 0.33
20 2 0.05
21 1 0.02
23 1 0.02
24 2 0.05
25 23 0.53
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (25 bp):
TTTTTTAGGAGATTCATTTAATGCC
Found at i:17903346 original size:44 final size:44
Alignment explanation
Indices: 17903298--17903387 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
17903288 TTTGTTTATA
*
17903298 TGATTCATTATTTTTTAGGAGATTCATTTAATGCCTTTTTTAGG
1 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
17903342 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
1 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
17903386 TG
1 TG
17903388 TCAAAACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (44 bp):
TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
Found at i:17904693 original size:131 final size:131
Alignment explanation
Indices: 17904478--17904718 Score: 383
Period size: 131 Copynumber: 1.8 Consensus size: 131
17904468 TTTTAAAACG
*
17904478 AAGGCAATGTTTGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
1 AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
* * *
17904543 GTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTATGTCTTTAAAGATTCTTCATAAC
66 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTTAAAGATTCTTCATAAC
17904608 A
131 A
* * * * * * *
17904609 AAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTTCT
1 AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
17904674 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
66 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
17904719 ACTGTAAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 99 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (131 bp):
AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTTAAAGATTCTTCATAAC
A
Found at i:17904738 original size:131 final size:131
Alignment explanation
Indices: 17904478--17904778 Score: 373
Period size: 131 Copynumber: 2.3 Consensus size: 131
17904468 TTTTAAAACG
*
17904478 AAGGCAATGTTTGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
1 AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
* * * * **
17904543 GTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTATGTCTTTAAAGATTCTTCATAAC
66 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTGTAAAGATTCTAAATAAC
17904608 A
131 A
* * * * * * *
17904609 AAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTTCT
1 AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
17904674 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTACTGT-AA-ATTCTAAAATA
66 GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT-CTGTAAAGATTCT-AAATA
17904737 AC-
129 ACA
* * *
17904739 ---GCAATGTTGGATGTCTAGAAATTCGAGG-AATCGTGCCCTA
1 AAGGCAATGTTCGATGTTTGGAAATTC-AGGAAATCGTGCCCTA
17904779 CTGTGATGGG
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
127 31 0.21
128 2 0.01
130 5 0.03
131 106 0.72
132 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (131 bp):
AAGGCAATGTTCGATGTTTGGAAATTCAGGAAATCGTGCCCTATCGTGCTGGGTAGCAATTTCCC
GTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTGTAAAGATTCTAAATAAC
A
Found at i:17907187 original size:48 final size:48
Alignment explanation
Indices: 17907116--17907211 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
17907106 AGCAATGAAT
17907116 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
1 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
17907164 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
1 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
17907212 ACAAAACCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (48 bp):
GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
Found at i:17908747 original size:156 final size:156
Alignment explanation
Indices: 17908463--17908774 Score: 624
Period size: 156 Copynumber: 2.0 Consensus size: 156
17908453 TAGTCCATCA
17908463 GAGATAGAAATTCAGTCTGATTTGAGTTATGAAGAGGAACCGGTTCGTATTTTGGCTCTCGAAGT
1 GAGATAGAAATTCAGTCTGATTTGAGTTATGAAGAGGAACCGGTTCGTATTTTGGCTCTCGAAGT
17908528 GAAAGAATTACGGAATAAGACAATTTCATTAGTGAAAGTGTTGTGGGTCAAACACGGGGTTGAAG
66 GAAAGAATTACGGAATAAGACAATTTCATTAGTGAAAGTGTTGTGGGTCAAACACGGGGTTGAAG
17908593 AAGCTACTTGGGAACTTGAAGACTTC
131 AAGCTACTTGGGAACTTGAAGACTTC
17908619 GAGATAGAAATTCAGTCTGATTTGAGTTATGAAGAGGAACCGGTTCGTATTTTGGCTCTCGAAGT
1 GAGATAGAAATTCAGTCTGATTTGAGTTATGAAGAGGAACCGGTTCGTATTTTGGCTCTCGAAGT
17908684 GAAAGAATTACGGAATAAGACAATTTCATTAGTGAAAGTGTTGTGGGTCAAACACGGGGTTGAAG
66 GAAAGAATTACGGAATAAGACAATTTCATTAGTGAAAGTGTTGTGGGTCAAACACGGGGTTGAAG
17908749 AAGCTACTTGGGAACTTGAAGACTTC
131 AAGCTACTTGGGAACTTGAAGACTTC
17908775 ATGAAAGAAC
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (156 bp):
GAGATAGAAATTCAGTCTGATTTGAGTTATGAAGAGGAACCGGTTCGTATTTTGGCTCTCGAAGT
GAAAGAATTACGGAATAAGACAATTTCATTAGTGAAAGTGTTGTGGGTCAAACACGGGGTTGAAG
AAGCTACTTGGGAACTTGAAGACTTC
Found at i:17914281 original size:26 final size:26
Alignment explanation
Indices: 17914244--17914295 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17914234 TGCAATTTTG
17914244 AAAGAGTATTATGACTATAAATGTGA
1 AAAGAGTATTATGACTATAAATGTGA
*
17914270 AAAGAGTGTTATGACTATAAATGTGA
1 AAAGAGTATTATGACTATAAATGTGA
17914296 CCTTTGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAGAGTATTATGACTATAAATGTGA
Found at i:17914487 original size:40 final size:40
Alignment explanation
Indices: 17914426--17915343 Score: 1712
Period size: 40 Copynumber: 22.9 Consensus size: 40
17914416 TGAGAGTTAG
* **
17914426 ATATCCGGGCTAAGTATCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914466 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* *
17914506 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914546 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914586 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914626 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914666 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914706 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914746 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914786 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914826 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914866 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914906 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914946 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17914986 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17915026 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17915066 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17915106 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17915146 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
17915186 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* *
17915226 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* *
17915266 ATATAC-AGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATAT-CTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* * *
17915306 ATATCTGGGCTAGGTCTCGAAGAGCATTCATGCTGGTG
1 ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
17915344 ATGTGTATTC
Statistics
Matches: 863, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 1 0.00
40 861 1.00
41 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (40 bp):
ATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
Found at i:17916889 original size:248 final size:248
Alignment explanation
Indices: 17916451--17916922 Score: 908
Period size: 248 Copynumber: 1.9 Consensus size: 248
17916441 AGAGTTGTGA
* *
17916451 CAGCCCTAAATTGCCCCTAGTCGAAAAGTGGTTTCGAGACCATGAAAGCGAGTATTATAAGTAAT
1 CAGCCCTAAATTGACCCTAGTCGAAAAGTGGTTTCGAGACCACGAAAGCGAGTATTATAAGTAAT
17916516 TAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCATGCATTAATTT
66 TAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCATGCATTAATTT
17916581 GATCATTTTTATGTGAATTTATTAAAATGGACTTATATGAAACATTGTTGGAAAGTGATAGGTTA
131 GATCATTTTTATGTGAATTTATTAAAATGGACTTATATGAAACATTGTTGGAAAGTGATAGGTTA
17916646 ATCTTACAATGGTCTATTAGTACATGCATAAAGTGGTTTCGAGACCATGAAAG
196 ATCTTACAATGGTCTATTAGTACATGCATAAAGTGGTTTCGAGACCATGAAAG
* *
17916699 CAGCCCTAAATTGACCCTAGTCGAAAAGTGGTTTCGGGACCACGAAATCGAGTATTATAAGTAAT
1 CAGCCCTAAATTGACCCTAGTCGAAAAGTGGTTTCGAGACCACGAAAGCGAGTATTATAAGTAAT
17916764 TAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCATGCATTAATTT
66 TAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCATGCATTAATTT
17916829 GATCATTTTTATGTGAATTTATTAAAATGGACTTATATGAAACATTGTTGGAAAGTGATAGGTTA
131 GATCATTTTTATGTGAATTTATTAAAATGGACTTATATGAAACATTGTTGGAAAGTGATAGGTTA
17916894 ATCTTACAATGGTCTATTAGTACATGCAT
196 ATCTTACAATGGTCTATTAGTACATGCAT
17916923 TGAAAAGAGT
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
248 220 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (248 bp):
CAGCCCTAAATTGACCCTAGTCGAAAAGTGGTTTCGAGACCACGAAAGCGAGTATTATAAGTAAT
TAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCATGCATTAATTT
GATCATTTTTATGTGAATTTATTAAAATGGACTTATATGAAACATTGTTGGAAAGTGATAGGTTA
ATCTTACAATGGTCTATTAGTACATGCATAAAGTGGTTTCGAGACCATGAAAG
Found at i:17918825 original size:47 final size:45
Alignment explanation
Indices: 17918772--17918892 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 45
17918762 TGGCCATGAT
17918772 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
17918819 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
*
17918864 ATGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
17918893 AAAGTGTGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 20 0.32
46 7 0.11
47 35 0.56
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:17919028 original size:39 final size:40
Alignment explanation
Indices: 17918969--17919053 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
17918959 AAATGAATTG
* * * * *
17918969 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
17919008 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
17919048 TGCTGG
1 TGCTGG
17919054 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:17920379 original size:63 final size:63
Alignment explanation
Indices: 17920291--17920409 Score: 211
Period size: 63 Copynumber: 1.9 Consensus size: 63
17920281 ATATACACAC
* *
17920291 ATCTCCTACATATTACACAGTAGCCATTCGGCTTTACCACATATACATATCTCATATGTGAAA
1 ATCTCATACATATTACACACTAGCCATTCGGCTTTACCACATATACATATCTCATATGTGAAA
*
17920354 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 ATCTCATACATATTACACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
17920410 CATATTTCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (63 bp):
ATCTCATACATATTACACACTAGCCATTCGGCTTTACCACATATACATATCTCATATGTGAAA
Found at i:17920416 original size:48 final size:48
Alignment explanation
Indices: 17920354--17920473 Score: 213
Period size: 48 Copynumber: 2.5 Consensus size: 48
17920344 ATATGTGAAA
17920354 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
17920402 ATCTCATACATATTTCACACCAGCCGTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17920450 ATCTCATACATATTTCACACTAGC
1 ATCTCATACATATTTCACACTAGC
17920474 TTATAAGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:17921990 original size:24 final size:24
Alignment explanation
Indices: 17921949--17921994 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17921939 TCCATAGCTA
17921949 CAATGACCGAAAGATCTAGACATCT
1 CAATGACCGAAAGATCTA-ACATCT
**
17921974 CAAT-ACCGAAATTTCTAACAT
1 CAATGACCGAAAGATCTAACAT
17921995 GGGTTGCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (24 bp):
CAATGACCGAAAGATCTAACATCT
Found at i:17923859 original size:40 final size:40
Alignment explanation
Indices: 17923813--17924644 Score: 1549
Period size: 40 Copynumber: 20.8 Consensus size: 40
17923803 GAATGCACAT
* * * * *
17923813 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
* * *
17923853 CACCAGCACGAATGCTCTTAGGGACTTAGCCC-GATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
* * *
17923892 CACCAACACGAATGCTCTTCGGGAATTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17923932 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17923972 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924012 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924052 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924092 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924132 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924172 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924212 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924252 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924292 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924332 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924372 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924412 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924452 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924492 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924532 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
17924572 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
*
17924612 CACCAGCACGAATGCTCTTCGGGACTTAGCCCG
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCG
17924645 ACTATATAAC
Statistics
Matches: 779, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
39 36 0.05
40 743 0.95
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAA
Done.