Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 50 of 253
Found at i:13427348 original size:26 final size:26
Alignment explanation
Indices: 13427319--13427370 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
13427309 AATAAAAGAA
*
13427319 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTCCAATTTAATTAG
*
13427345 AACATTCAATATTCCAGTTTAATTAG
1 AACATTCAATATTCCAATTTAATTAG
13427371 CATTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (26 bp):
AACATTCAATATTCCAATTTAATTAG
Found at i:13439634 original size:14 final size:14
Alignment explanation
Indices: 13439615--13439665 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
13439605 TTTGATAAAT
13439615 TAAAAATTAAGTAC
1 TAAAAATTAAGTAC
* *
13439629 TAAAAAATAAGTGC
1 TAAAAATTAAGTAC
* *
13439643 T-AAAATTAAATAT
1 TAAAAATTAAGTAC
*
13439656 TGAAAATTAA
1 TAAAAATTAA
13439666 TGCATTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (14 bp):
TAAAAATTAAGTAC
Found at i:13439814 original size:19 final size:18
Alignment explanation
Indices: 13439790--13439838 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
13439780 ATTTATACTT
*
13439790 AATTTTTAACTATTTCATA
1 AATTTTAAAC-ATTTCATA
13439809 AATTTTAAACATTTCATA
1 AATTTTAAACATTTCATA
*
13439827 TTATTTTAAACA
1 -AATTTTAAACA
13439839 AAATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTAAACATTTCATA
Found at i:13448728 original size:20 final size:20
Alignment explanation
Indices: 13448700--13448751 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
13448690 TGGGTGAGGG
* *
13448700 ACACAGGCGTGTTCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
13448720 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
*
13448740 ACACGGGTGTGT
1 ACACGGGCGTGT
13448752 GTTTTGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:13453758 original size:19 final size:19
Alignment explanation
Indices: 13453730--13453779 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
13453720 CTTATCGAGT
13453730 ATTATCATTTATTTC-TCGC
1 ATTATCATTTATTTCAT-GC
*
13453749 ATTTTCATTTATTTCATGC
1 ATTATCATTTATTTCATGC
13453768 ATTATCATTTAT
1 ATTATCATTTAT
13453780 CATGCTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTATCATTTATTTCATGC
Found at i:13458570 original size:46 final size:45
Alignment explanation
Indices: 13458462--13458630 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
13458452 ATTATGAGCT
* ** * *
13458462 AGTGTAAGACCATGTCTGGGACATGACATCGGCATTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATC-GCCTCGAGATGAG-GCC
13458510 AGTGTAAGA-CATGTCTGGGACATGCATCTGCCTCGAGATGTAGGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATG-AGGCC
* *
13458556 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGTGATGA-GCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGAGGCC
*
13458600 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
13458631 GCATCCTACC
Statistics
Matches: 108, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
44 12 0.11
45 17 0.16
46 53 0.49
47 17 0.16
48 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGAGGCC
Found at i:13466035 original size:46 final size:46
Alignment explanation
Indices: 13465916--13466096 Score: 183
Period size: 46 Copynumber: 3.9 Consensus size: 46
13465906 TATGGGTTAT
*
13465916 TGTAAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTGAGA
1 TGTAAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATTAAGA
* * *
13465964 CG-AGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTAAGA
1 TGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGA
* * *
13466010 TGTAAGCCAGTCTAAGACATGTCTGGGACATGTATCGGC--TACATGA
1 TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTA-A-GA
* *
13466056 TG--AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCAT
1 TGTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
13466097 CCTACCCCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
44 14 0.12
45 14 0.12
46 55 0.49
47 15 0.13
48 15 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGA
Found at i:13467035 original size:12 final size:13
Alignment explanation
Indices: 13467018--13467048 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
13467008 AGGTTTTTGC
13467018 ACACGGGCTA-GG
1 ACACGGGCTAGGG
13467030 ACACGGGCTAGGG
1 ACACGGGCTAGGG
13467043 ACACGG
1 ACACGG
13467049 ACATGTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.26, C:0.26, G:0.42, T:0.06
Consensus pattern (13 bp):
ACACGGGCTAGGG
Found at i:13470539 original size:27 final size:27
Alignment explanation
Indices: 13470501--13470555 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13470491 TGCAAACATG
13470501 ATTAGTTAAAAAAGTTGAAGTGTCAAT
1 ATTAGTTAAAAAAGTTGAAGTGTCAAT
13470528 ATTAGTTAAAAAAGTTGAAGTGTCAAT
1 ATTAGTTAAAAAAGTTGAAGTGTCAAT
13470555 A
1 A
13470556 GACGTAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (27 bp):
ATTAGTTAAAAAAGTTGAAGTGTCAAT
Found at i:13475388 original size:40 final size:40
Alignment explanation
Indices: 13475344--13475509 Score: 147
Period size: 40 Copynumber: 4.2 Consensus size: 40
13475334 AGATGTATAA
*
13475344 CAGGGGTACCAAAGTGCAATC-AGGACCAC-GAATGTGCAAT
1 CAGGGGTACCAAAGTGCAAACAAGG-CCACAG-ATGTGCAAT
* * *
13475384 CAGGGGCACCAAAGTGCAAACAAGGGCACAGATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGCCACAGATGTGCAAT
** ** * *
13475424 CAGGGGTACTGAAGTATAAACAAGGGCACAGATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGCCACAGATGTGCAAT
* * * * * * *
13475464 CAAGGGTACCGAAGTACAAACATGGGCACAAATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGCCACAGATGTGCAAT
13475504 CAGGGG
1 CAGGGG
13475510 CACTTTTTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 105 0.96
41 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.30, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCAAAGTGCAAACAAGGCCACAGATGTGCAAT
Found at i:13475400 original size:20 final size:20
Alignment explanation
Indices: 13475344--13475412 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
13475334 AGATGTATAA
*
13475344 CAGGGGTACCAAAGTGCAAT
1 CAGGGGCACCAAAGTGCAAT
** * *
13475364 CAGGACCACGAATGTGCAAT
1 CAGGGGCACCAAAGTGCAAT
*
13475384 CAGGGGCACCAAAGTGCAAA
1 CAGGGGCACCAAAGTGCAAT
*
13475404 CAAGGGCAC
1 CAGGGGCAC
13475413 AGATGTGCAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.29, T:0.10
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCAAT
Found at i:13475420 original size:20 final size:20
Alignment explanation
Indices: 13475375--13475501 Score: 67
Period size: 20 Copynumber: 6.3 Consensus size: 20
13475365 AGGACCACGA
* *
13475375 ATGTGCAATCAGGGGCACCA-
1 ATGTGCAAACAAGGGCA-CAG
*
13475395 AAGTGCAAACAAGGGCACAG
1 ATGTGCAAACAAGGGCACAG
** * * *
13475415 ATGTGCATTCAGGGGTACTG
1 ATGTGCAAACAAGGGCACAG
* **
13475435 AAGTATAAACAAGGGCACAG
1 ATGTGCAAACAAGGGCACAG
** * *
13475455 ATGTGCATTCAAGGGTACCG
1 ATGTGCAAACAAGGGCACAG
* * * *
13475475 AAGTACAAACATGGGCACAA
1 ATGTGCAAACAAGGGCACAG
13475495 ATGTGCA
1 ATGTGCA
13475502 TTCAGGGGCA
Statistics
Matches: 72, Mismatches: 34, Indels: 2
0.67 0.31 0.02
Matches are distributed among these distances:
19 2 0.03
20 70 0.97
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (20 bp):
ATGTGCAAACAAGGGCACAG
Found at i:13485190 original size:34 final size:34
Alignment explanation
Indices: 13485124--13485190 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
13485114 ATACTTGAGA
**
13485124 GTTCCTCAATTGAAGCCAAGTAATTTGGGTTCAT
1 GTTCCTCAATTGAAGCCAAGTAATTTAAGTTCAT
*
13485158 GTTCCTCAATTGATA-TCAAGTAATTTAAGTTCA
1 GTTCCTCAATTGA-AGCCAAGTAATTTAAGTTCA
13485191 GTACAATCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (34 bp):
GTTCCTCAATTGAAGCCAAGTAATTTAAGTTCAT
Found at i:13495464 original size:11 final size:11
Alignment explanation
Indices: 13495448--13495473 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13495438 TAAAACTAAT
13495448 AAAACATAACG
1 AAAACATAACG
13495459 AAAACATAACG
1 AAAACATAACG
13495470 AAAA
1 AAAA
13495474 TGCTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.15, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACATAACG
Found at i:13496969 original size:5 final size:5
Alignment explanation
Indices: 13496959--13496988 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
13496949 TTAACATATC
13496959 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT
1 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT
13496989 GGGTCTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CCCCT
Found at i:13499097 original size:7 final size:7
Alignment explanation
Indices: 13499087--13499125 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
13499077 CCCTTCACCC
13499087 TTTTGCTT
1 TTTTGC-T
*
13499095 TTTTGCC
1 TTTTGCT
13499102 TTTTGCT
1 TTTTGCT
*
13499109 TTTTGCC
1 TTTTGCT
13499116 TTTTGCT
1 TTTTGCT
13499123 TTT
1 TTT
13499126 CCCTCTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.00, C:0.18, G:0.13, T:0.69
Consensus pattern (7 bp):
TTTTGCT
Found at i:13499105 original size:15 final size:15
Alignment explanation
Indices: 13499085--13499125 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
13499075 CACCCTTCAC
13499085 CCTTTTGCTTTTTTG
1 CCTTTTGCTTTTTTG
13499100 CCTTTTGC-TTTTTG
1 CCTTTTGCTTTTTTG
13499114 CCTTTTGCTTTT
1 CCTTTTGCTTTT
13499126 CCCTCTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.00, C:0.22, G:0.12, T:0.66
Consensus pattern (15 bp):
CCTTTTGCTTTTTTG
Found at i:13499193 original size:4 final size:4
Alignment explanation
Indices: 13499184--13499209 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13499174 CCCCCCTTCT
13499184 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
13499210 CATTCACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13503127 original size:28 final size:29
Alignment explanation
Indices: 13503082--13503136 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
13503072 CAAAAAGTAT
*
13503082 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
13503110 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
13503137 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:13503513 original size:7 final size:7
Alignment explanation
Indices: 13503496--13503591 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
13503486 AGGGATTAGT
13503496 GGTTAAAG
1 GGTT-AAG
13503504 GGTTAAG
1 GGTTAAG
*
13503511 GGTTATG
1 GGTTAAG
* *
13503518 GATTATG
1 GGTTAAG
13503525 GGTTTAAG
1 GG-TTAAG
*
13503533 GATTAAG
1 GGTTAAG
*
13503540 GGTTATG
1 GGTTAAG
*
13503547 GGTTACG
1 GGTTAAG
* *
13503554 GGTTTAT
1 GGTTAAG
13503561 GGTTAAAG
1 GGTT-AAG
* *
13503569 GGATAGG
1 GGTTAAG
*
13503576 GGTTAGG
1 GGTTAAG
13503583 GGTTAAG
1 GGTTAAG
13503590 GG
1 GG
13503592 CCGGTTTAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
7 56 0.81
8 13 0.19
ACGTcount: A:0.25, C:0.01, G:0.42, T:0.32
Consensus pattern (7 bp):
GGTTAAG
Found at i:13503521 original size:29 final size:29
Alignment explanation
Indices: 13503488--13503557 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
13503478 TAAAGTAAAG
*
13503488 GGATTA-GTGGTTAAAGGGTTAAGGGTTAT
1 GGATTATG-GGTTAAAGGATTAAGGGTTAT
*
13503517 GGATTATGGGTTTAAGGATTAAGGGTTAT
1 GGATTATGGGTTAAAGGATTAAGGGTTAT
* *
13503546 GGGTTACGGGTT
1 GGATTATGGGTT
13503558 TATGGTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.36
Consensus pattern (29 bp):
GGATTATGGGTTAAAGGATTAAGGGTTAT
Found at i:13503532 original size:22 final size:22
Alignment explanation
Indices: 13503506--13503550 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13503496 GGTTAAAGGG
* *
13503506 TTAAGGGTTATGGATTATGGGT
1 TTAAGGATTAAGGATTATGGGT
*
13503528 TTAAGGATTAAGGGTTATGGGT
1 TTAAGGATTAAGGATTATGGGT
13503550 T
1 T
13503551 ACGGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (22 bp):
TTAAGGATTAAGGATTATGGGT
Found at i:13503558 original size:29 final size:27
Alignment explanation
Indices: 13503504--13503590 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 27
13503494 GTGGTTAAAG
*
13503504 GGTTAAGGGTTATGGATTATGGGTTTAA
1 GGTTAAGGGTTATGGGTTA-GGGTTTAA
*
13503532 GGATTAAGGGTTATGGGTTACGGGTTTAT
1 GG-TTAAGGGTTATGGGTTA-GGGTTTAA
* * *
13503561 GGTTAAAGGGATAGGGGTTAGGGGTTAA
1 GGTT-AAGGGTTATGGGTTAGGGTTTAA
13503589 GG
1 GG
13503591 GCCGGTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.24
29 38 0.76
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.33
Consensus pattern (27 bp):
GGTTAAGGGTTATGGGTTAGGGTTTAA
Found at i:13503638 original size:7 final size:7
Alignment explanation
Indices: 13503628--13503758 Score: 59
Period size: 7 Copynumber: 17.7 Consensus size: 7
13503618 ATGGGAAAGG
13503628 GGTTTAT
1 GGTTTAT
13503635 GGTTTAT
1 GGTTTAT
*
13503642 GAGTTAAT
1 G-GTTTAT
* *
13503650 GTTTTAA
1 GGTTTAT
*
13503657 GGTTTAG
1 GGTTTAT
13503664 GGATTT-T
1 GG-TTTAT
13503671 GGTTTAT
1 GGTTTAT
*
13503678 GGTTTAA
1 GGTTTAT
* *
13503685 GGGTT-G
1 GGTTTAT
*
13503691 GGCTTTAA
1 GG-TTTAT
*
13503699 GGTTTAGA
1 GGTTTA-T
*
13503707 GGTTAAT
1 GGTTTAT
13503714 GGTTATTCAT
1 GG-T-TT-AT
*
13503724 GGTTTAA
1 GGTTTAT
13503731 GGTTTCAT
1 GGTTT-AT
*
13503739 GGTTTAGG
1 GGTTTA-T
13503747 GGTTTAT
1 GGTTTAT
13503754 GGTTT
1 GGTTT
13503759 GGGGTTTAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
6 5 0.05
7 51 0.54
8 32 0.34
9 2 0.02
10 4 0.04
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:13503739 original size:15 final size:16
Alignment explanation
Indices: 13503719--13503758 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
13503709 TTAATGGTTA
13503719 TTCATGGTTTA-AGGT
1 TTCATGGTTTAGAGGT
*
13503734 TTCATGGTTTAGGGGT
1 TTCATGGTTTAGAGGT
13503750 TT-ATGGTTT
1 TTCATGGTTT
13503759 GGGGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (16 bp):
TTCATGGTTTAGAGGT
Found at i:13504073 original size:26 final size:27
Alignment explanation
Indices: 13504002--13504074 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
13503992 TAATTTCAAA
*
13504002 ATTTAAAGATTTCGAA-TTTAGAATAAT
1 ATTT-AAGATTTCAAATTTTAGAATAAT
13504029 ATTTAAGATTTCAAATTTTA-AATAAT
1 ATTTAAGATTTCAAATTTTAGAATAAT
*
13504055 -TTTCAATATTTCAAATTTTA
1 ATTT-AAGATTTCAAATTTTA
13504075 TCTAATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 3 0.07
26 31 0.74
27 8 0.19
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (27 bp):
ATTTAAGATTTCAAATTTTAGAATAAT
Found at i:13505950 original size:19 final size:17
Alignment explanation
Indices: 13505917--13505964 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
13505907 GGAAGATATG
*
13505917 ATTTTTAATATATTTAT
1 ATTTTTAATACATTTAT
13505934 ACTTTTTAATAGCATTTAT
1 A-TTTTTAATA-CATTTAT
13505953 ATTGTTTAATAC
1 ATT-TTTAATAC
13505965 TTTTTATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 12 0.44
19 14 0.52
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTTTAATACATTTAT
Found at i:13507801 original size:33 final size:33
Alignment explanation
Indices: 13507764--13507832 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
13507754 TATATCATAT
* **
13507764 TATAATTTACAAAACTTACATAATTTATAAATA
1 TATAACTTACAAAACTTACATAATAAATAAATA
* *
13507797 TATAACTTACATAACTTACGTAATAAATAAATA
1 TATAACTTACAAAACTTACATAATAAATAAATA
13507830 TAT
1 TAT
13507833 TTGATATCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (33 bp):
TATAACTTACAAAACTTACATAATAAATAAATA
Found at i:13507899 original size:9 final size:9
Alignment explanation
Indices: 13507885--13508199 Score: 95
Period size: 9 Copynumber: 36.1 Consensus size: 9
13507875 TATATCATAT
*
13507885 CATAACTCA
1 CATAACTTA
13507894 CATAACTTA
1 CATAACTTA
*
13507903 CAAAACTTA
1 CATAACTTA
13507912 CATAA--TA
1 CATAACTTA
* *
13507919 TATAA-ATA
1 CATAACTTA
*
13507927 TATAACTTA
1 CATAACTTA
13507936 CATAACTTA
1 CATAACTTA
*
13507945 CGTAA--TA
1 CATAACTTA
* *
13507952 AATAA-ATA
1 CATAACTTA
* **
13507960 TATTTCATATA
1 CATAAC-T-TA
*
13507971 -ATAATTTA
1 CATAACTTA
13507979 CATAACTTA
1 CATAACTTA
**
13507988 CATTCCTTA
1 CATAACTTA
*
13507997 CATAAATT-
1 CATAACTTA
* * *
13508005 TATATCATA
1 CATAACTTA
13508014 TCATAACTTA
1 -CATAACTTA
13508024 CATAACTTA
1 CATAACTTA
*
13508033 CAAAACTTA
1 CATAACTTA
13508042 CATAA--TA
1 CATAACTTA
*
13508049 CATAA-ATA
1 CATAACTTA
*
13508057 TATAACTTA
1 CATAACTTA
*
13508066 CGTAA--TA
1 CATAACTTA
* *
13508073 AATAA-ATA
1 CATAACTTA
* **
13508081 TATTTCATATA
1 CATAAC-T-TA
*
13508092 -ATAATTTA
1 CATAACTTA
13508100 CATAACTTA
1 CATAACTTA
* *
13508109 CACACCTTA
1 CATAACTTA
*
13508118 CATAAGTT-
1 CATAACTTA
* * *
13508126 TATATCATA
1 CATAACTTA
*
13508135 TTATAACTTA
1 -CATAACTTA
13508145 CATAACTTA
1 CATAACTTA
*
13508154 CAAAACTTA
1 CATAACTTA
*
13508163 CAAAACTTA
1 CATAACTTA
* *
13508172 CAAAAGTTA
1 CATAACTTA
*
13508181 CAAAACTTA
1 CATAACTTA
*
13508190 CTTAACTTA
1 CATAACTTA
13508199 C
1 C
13508200 GTAATACATA
Statistics
Matches: 226, Mismatches: 62, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
7 23 0.10
8 33 0.15
9 149 0.66
10 17 0.08
11 4 0.02
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:13507917 original size:130 final size:130
Alignment explanation
Indices: 13507765--13508215 Score: 641
Period size: 130 Copynumber: 3.5 Consensus size: 130
13507755 ATATCATATT
*
13507765 ATAATTTACAAAACTTACATAATTTATAAATATATAACTTACATAACTTACGTAATAAATAAATA
1 ATAACTTACAAAACTTACATAATTTATAAATATATAACTTACATAACTTACGTAATAAATAAATA
* * * *
13507830 TATTTGATATCATAATTTACAGAACTTACATTCCTTACATAAATTTATATCATATCATAACTCAC
66 TATTTCATATAATAATTTACATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
*
13507895 ATAACTTACAAAACTTACATAATATATAAATATATAACTTACATAACTTACGTAATAAATAAATA
1 ATAACTTACAAAACTTACATAATTTATAAATATATAACTTACATAACTTACGTAATAAATAAATA
13507960 TATTTCATATAATAATTTACATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
66 TATTTCATATAATAATTTACATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
* *
13508025 ATAACTTACAAAACTTACAT-A---AT--ACATA-AA--TATATAACTTACGTAATAAATAAATA
1 ATAACTTACAAAACTTACATAATTTATAAATATATAACTTACATAACTTACGTAATAAATAAATA
** * *
13508081 TATTTCATATAATAATTTACATAACTTACACACCTTACATAAGTTTATATCATATTATAACTTAC
66 TATTTCATATAATAATTTACATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
* * * * * * *
13508146 ATAACTTACAAAACTTACAAAACTTACAAAAGTTACAAAACTTACTTAACTTACGTAATACATAA
1 ATAACTTACAAAACTTACATAATTTA-TAAA--TATATAACTTACATAACTTACGTAATAAATAA
13508211 ATATA
63 ATATA
13508216 CACTTGAAAA
Statistics
Matches: 290, Mismatches: 19, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
121 105 0.36
122 1 0.00
123 2 0.01
124 4 0.01
125 1 0.00
126 2 0.01
128 1 0.00
129 1 0.00
130 146 0.50
131 2 0.01
133 25 0.09
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (130 bp):
ATAACTTACAAAACTTACATAATTTATAAATATATAACTTACATAACTTACGTAATAAATAAATA
TATTTCATATAATAATTTACATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
Found at i:13507968 original size:29 final size:31
Alignment explanation
Indices: 13507900--13507962 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
13507890 CTCACATAAC
* *
13507900 TTACAAAACTTACATAATATATAAATATATAA
1 TTACATAACTTACATAATAAATAAATATAT-A
*
13507932 CTTACATAACTTACGTAATAAATAAATATAT
1 -TTACATAACTTACATAATAAATAAATATAT
13507963 TTCATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (31 bp):
TTACATAACTTACATAATAAATAAATATATA
Found at i:13508042 original size:45 final size:45
Alignment explanation
Indices: 13507765--13508066 Score: 270
Period size: 45 Copynumber: 7.0 Consensus size: 45
13507755 ATATCATATT
* * * *
13507765 ATAATTTACAAAACTTACAT-AATTTATA-AATAT-ATAACTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
* * * * *
13507807 ATAACTTACGTAA--TAAATAAATATATTTGATATCATAATTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
* ** * *
13507850 AGAACTTACATTCCTTACATAAATTTATATCATATCATAACTCAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
* *
13507895 ATAACTTACAAAACTTACAT-AATATATA-AATAT-ATAACTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
* * * * *
13507937 ATAACTTACGTAA--TAAATAAATATATTTCATATAATAATTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
** *
13507980 ATAACTTACATTCCTTACATAAATTTATATCATATCATAACTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
* * *
13508025 ATAACTTACAAAACTTACAT-AATACATA-AATAT-ATAACTTAC
1 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
13508067 GTAATAAATA
Statistics
Matches: 205, Mismatches: 45, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
40 8 0.04
41 13 0.06
42 46 0.22
43 43 0.21
44 13 0.06
45 82 0.40
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (45 bp):
ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
Found at i:13508066 original size:24 final size:24
Alignment explanation
Indices: 13508036--13508083 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13508026 TAACTTACAA
*
13508036 AACTTACATAATACATAAATATAT
1 AACTTACATAATAAATAAATATAT
*
13508060 AACTTACGTAATAAATAAATATAT
1 AACTTACATAATAAATAAATATAT
13508084 TTCATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AACTTACATAATAAATAAATATAT
Found at i:13513811 original size:21 final size:20
Alignment explanation
Indices: 13513740--13513836 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 20
13513730 ACAACTTAGA
* *
13513740 GCAGAGGCGGCAGAGAGGGAG
1 GCAGAGGCAGCAG-GAAGGAG
*
13513761 GCAGCA-GCAGCAGCGAGGGAG
1 GCAG-AGGCAGCAG-GAAGGAG
*
13513782 GCAGCGGCAGCAGTGAAGGAG
1 GCAGAGGCAGCAG-GAAGGAG
*
13513803 GCAGAGGCA-CGAGCAAGGGAG
1 GCAGAGGCAGC-AGGAA-GGAG
13513824 GCAGAGGCAGCAG
1 GCAGAGGCAGCAG
13513837 CGATGGTAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.05
21 59 0.92
22 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.49, T:0.01
Consensus pattern (20 bp):
GCAGAGGCAGCAGGAAGGAG
Found at i:13513849 original size:42 final size:40
Alignment explanation
Indices: 13513740--13513858 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 40
13513730 ACAACTTAGA
* * * *
13513740 GCAGAGGCGGCAGAGAGGGAGGCAGCAGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAAGGAGGCAG-AGCAG-AGCAAGGGAG
* *
13513782 GCAGCGGCAGCAGTGAAGGAGGCAGAGGCACGAGCAAGGGAG
1 GCAGAGGCAGCAGCGAAGGAGGCAGA-GCA-GAGCAAGGGAG
*
13513824 GCAGAGGCAGCAGCGATGGTA-GCAGAGCAGAGCAA
1 GCAGAGGCAGCAGCGAAGG-AGGCAGAGCAGAGCAA
13513859 AAAGTACGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 6 0.09
41 4 0.06
42 54 0.82
43 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.47, T:0.03
Consensus pattern (40 bp):
GCAGAGGCAGCAGCGAAGGAGGCAGAGCAGAGCAAGGGAG
Found at i:13514107 original size:32 final size:32
Alignment explanation
Indices: 13514071--13514156 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
13514061 TTAGAATTAA
*
13514071 TGTTTTTGGTTGTATTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
* * *
13514103 TGTTTTTGGTTGCA-TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
* * *
13514134 TGTATTTGGTTGGATTTTAATGC
1 TGTTTTTGGTTGCATTTTTATGC
13514157 AGGAAGGGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 26 0.58
32 19 0.42
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.58
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
Found at i:13515779 original size:17 final size:17
Alignment explanation
Indices: 13515754--13515786 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13515744 ATAGGGAATA
13515754 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
13515771 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
13515787 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:13515816 original size:24 final size:22
Alignment explanation
Indices: 13515782--13515829 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
13515772 TATGTAATAA
13515782 AATATATAAATGAA-ATATAAAT
1 AATATATAAAT-AACATATAAAT
*
13515804 AATATGATAAAATAACATTTAAAT
1 AATAT-AT-AAATAACATATAAAT
13515828 AA
1 AA
13515830 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.23
23 4 0.18
24 13 0.59
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
AATATATAAATAACATATAAAT
Found at i:13518206 original size:44 final size:44
Alignment explanation
Indices: 13517484--13518198 Score: 991
Period size: 44 Copynumber: 16.2 Consensus size: 44
13517474 GAAGAGGCCG
*
13517484 AATCTGTCATCTTCGATCTG-TCCTCTGTCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCT-CTCTGTCAATACAGAGACGCCA
* * *
13517528 AATCTGTTATCTTTGATCTACTCTCTGTCAATACAAAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
13517572 AACCTGTTATCTTCGATTTGCTCTTTGTCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
13517616 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
13517660 AATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * * *
13517704 AATCTGCTATCTCCAATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * * *
13517748 AACCTATTATCTTTGATCTGCTCTCTGTCAATATAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
13517792 AATCTTTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * * *
13517836 AATCTGTTATCTTCAATCTGCTCTCTGACAATATAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
13517880 AATCTGTTATCTTCGATCTGCTCCCTGACAATACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* **
13517924 AATCTGTTATCTTCGATCTACTCTCTGTCAATGTAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * * *
13517968 AATCTGTTATCTTCGATCTGCTCTCTGACAATACAGATATGTCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
13518012 AATCTGTTATCTTCGATCTACTCTCTGTCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
13518056 AATCTGTTATCTTCGATCTGCTCTCTGTCAATATAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * * * * * *
13518100 AATTTGTTATCTTCGATTTTCTCTTTGTCAATACATAAATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
13518144 AATCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
13518188 AATCTGCTATC
1 AATCTGTTATC
13518199 AGTGATCTAT
Statistics
Matches: 592, Mismatches: 78, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
44 591 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
Found at i:13528847 original size:27 final size:27
Alignment explanation
Indices: 13528816--13528993 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
13528806 TAAATTGTAC
*
13528816 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
13528843 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
13528869 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
13528897 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
13528924 AGCACTAAGTGTGCGAGTTTGATTACGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
13528952 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
13528979 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13528994 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:13528877 original size:54 final size:55
Alignment explanation
Indices: 13528816--13528993 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
13528806 TAAATTGTAC
* **
13528816 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
13528871 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
13528924 AGCACTAAGTGTGCGAGTTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
13528979 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13528994 GACTTAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:13536787 original size:27 final size:27
Alignment explanation
Indices: 13536756--13536933 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13536746 TAAATTGTAC
*
13536756 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
13536783 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
13536809 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
13536837 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
13536864 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
13536892 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
13536919 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13536934 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:13536817 original size:54 final size:55
Alignment explanation
Indices: 13536756--13536933 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
13536746 TAAATTGTAC
* **
13536756 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
13536811 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
13536864 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
13536919 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13536934 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:13541411 original size:17 final size:17
Alignment explanation
Indices: 13541386--13541418 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13541376 ATAGGGAATA
13541386 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
13541403 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
13541419 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:13541448 original size:24 final size:22
Alignment explanation
Indices: 13541414--13541458 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
13541404 TATGTAATAA
*
13541414 AATATATAAATGAAATATAAAT
1 AATATATAAATAAAATATAAAT
*
13541436 AATATGATAAAATAAAATTTAAA
1 AATAT-AT-AAATAAAATATAAA
13541459 AAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AATATATAAATAAAATATAAAT
Found at i:13542820 original size:20 final size:20
Alignment explanation
Indices: 13542783--13542827 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13542773 GTAAATGGAC
*
13542783 TTTATTATTTTATAATTTTT
1 TTTATTATTTTATAATTTAT
*
13542803 TTTATT-TTTTATTTATTTAT
1 TTTATTATTTTA-TAATTTAT
13542823 TTTAT
1 TTTAT
13542828 GGGCCTGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTATTTTATAATTTAT
Found at i:13544000 original size:15 final size:14
Alignment explanation
Indices: 13543954--13544006 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
13543944 ACATGAGTAC
13543954 TTTTCTTTTTCT-A
1 TTTTCTTTTTCTCA
* *
13543967 TTTTCTTTTTTTTCC
1 TTTTC-TTTTTCTCA
13543982 TTTTCTTTTCTCTCA
1 TTTTCTTTT-TCTCA
13543997 TTTTGCTTTT
1 TTTT-CTTTT
13544007 ATATATTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 12 0.38
16 5 0.16
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTCTTTTTCTCA
Found at i:13545892 original size:164 final size:164
Alignment explanation
Indices: 13545621--13545949 Score: 613
Period size: 164 Copynumber: 2.0 Consensus size: 164
13545611 TACCAAACAT
13545621 TAAACATAAAACATCATCAAGTTTATCATCTTATGCCAACATAAATGGCCAAAATACACATCCAT
1 TAAACATAAAACATCATCAAGTTTATCATCTTATGCCAACATAAATGGCCAAAATACACATCCAT
* * *
13545686 CAAACATACGAAATTGATACTAGCCTATACATGCCATATACCATACATGCATAGCTTCAAAAGTA
66 CAAACATACCAAATTGATACAAGCCTATACATGCCATATACCATACATACATAGCTTCAAAAGTA
* *
13545751 CCAAAATAGATGATTGATAGTGCGATGAAGTCTC
131 CCAAAATAGATGATCGATAGTGCAATGAAGTCTC
13545785 TAAACATAAAACATCATCAAGTTTATCATCTTATGCCAACATAAATGGCCAAAATACACATCCAT
1 TAAACATAAAACATCATCAAGTTTATCATCTTATGCCAACATAAATGGCCAAAATACACATCCAT
13545850 CAAACATACCAAATTGATACAAGCCTATACATGCCATATACCATACATACATAGCTTCAAAAGTA
66 CAAACATACCAAATTGATACAAGCCTATACATGCCATATACCATACATACATAGCTTCAAAAGTA
13545915 CCAAAATAGATGATCGATAGTGCAATGAAGTCTC
131 CCAAAATAGATGATCGATAGTGCAATGAAGTCTC
13545949 T
1 T
13545950 GACGATCCCT
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 160 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (164 bp):
TAAACATAAAACATCATCAAGTTTATCATCTTATGCCAACATAAATGGCCAAAATACACATCCAT
CAAACATACCAAATTGATACAAGCCTATACATGCCATATACCATACATACATAGCTTCAAAAGTA
CCAAAATAGATGATCGATAGTGCAATGAAGTCTC
Found at i:13548039 original size:12 final size:12
Alignment explanation
Indices: 13548024--13548055 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13548014 TCATCATCAC
13548024 CATCATCATTGT
1 CATCATCATTGT
13548036 CATCATCATTGT
1 CATCATCATTGT
13548048 CATCATCA
1 CATCATCA
13548056 CCATTGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (12 bp):
CATCATCATTGT
Found at i:13548042 original size:15 final size:14
Alignment explanation
Indices: 13548024--13548064 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
13548014 TCATCATCAC
13548024 CATCATCATTG--T
1 CATCATCATTGTCT
13548036 CATCATCATTGTCAT
1 CATCATCATTGTC-T
*
13548051 CATCACCATTGTCT
1 CATCATCATTGTCT
13548065 TCCTCCTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 11 0.44
14 1 0.04
15 13 0.52
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.39
Consensus pattern (14 bp):
CATCATCATTGTCT
Found at i:13558588 original size:19 final size:20
Alignment explanation
Indices: 13558553--13558590 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13558543 TTTGGTTAGG
13558553 GACTAAATTGCAATAAATTA
1 GACTAAATTGCAATAAATTA
13558573 GACTAAATTG-AATAAATT
1 GACTAAATTGCAATAAATT
13558591 TCAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (20 bp):
GACTAAATTGCAATAAATTA
Found at i:13562065 original size:8 final size:9
Alignment explanation
Indices: 13562043--13562067 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13562033 GTAAAAGTCC
13562043 TAAAAAATA
1 TAAAAAATA
13562052 TAAAAAATA
1 TAAAAAATA
13562061 TAAAAAA
1 TAAAAAA
13562068 ATTAAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAAAATA
Found at i:13566293 original size:23 final size:22
Alignment explanation
Indices: 13566274--13566336 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
13566264 TAAAAAATGC
13566274 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
13566297 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
13566319 TAAATACAATTACATATA
1 T-AATACAATTACATATA
13566337 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:13566948 original size:21 final size:21
Alignment explanation
Indices: 13566924--13567008 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
13566914 ACTCATAAAC
*
13566924 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
13566945 CTTAAACCATAGTTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
13566970 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
13566991 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
13567009 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:13566960 original size:46 final size:46
Alignment explanation
Indices: 13566908--13567001 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
13566898 CTTCAAATAC
*
13566908 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
* *
13566954 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
13567000 TA
1 TA
13567002 AACCATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:13567252 original size:41 final size:40
Alignment explanation
Indices: 13567180--13567269 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
13567170 TTGCCAATAG
*
13567180 CGCCGCTAATTCTCTGTTTTTCACGGTGTTTTTT-ATTAAAA
1 CGCCGCT-ATTCTCTGTTTTTCACGGCGTTTTTTGA-TAAAA
*
13567221 CGCCGCTATTGCTCTGTTTTT-AGTGGCGTTTTTTGATAAAA
1 CGCCGCTATT-CTCTGTTTTTCA-CGGCGTTTTTTGATAAAA
*
13567262 CACCGCTA
1 CGCCGCTA
13567270 AAAACGCCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 4 0.09
41 38 0.88
42 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (40 bp):
CGCCGCTATTCTCTGTTTTTCACGGCGTTTTTTGATAAAA
Found at i:13582410 original size:40 final size:41
Alignment explanation
Indices: 13582333--13582412 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
13582323 ATTTTATTCA
* *
13582333 TTATTATAATATAACATATATATATACACATTTCATATTAT
1 TTATTATAATATAACACATATATATACACATTACATATTAT
*
13582374 TTATT-TATTATAACACATATATATACAACA-TACATATTA
1 TTATTATAATATAACACATATATATAC-ACATTACATATTA
13582413 ATGCCGTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (41 bp):
TTATTATAATATAACACATATATATACACATTACATATTAT
Found at i:13595193 original size:152 final size:153
Alignment explanation
Indices: 13594916--13595211 Score: 513
Period size: 152 Copynumber: 1.9 Consensus size: 153
13594906 AATTATTTGT
* * *
13594916 TTCTATGTAAATGATTTGTTAATTTTTGGGATGAACATGAAAGGTGTTCGTGAGACCAAAAAGTA
1 TTCTATGTAAATGATTTGTTAATTTTTGAGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
*
13594981 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTTTAGGTATAAAGGTGA
66 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
*
13595046 AAAAGTAT-AAAGGTAGATAGAA
131 AAAAGCATGAAAGGTAGATAGAA
* *
13595068 TTCTATGTAGATGATTTGTTAATTTTTGAGACGAACATGAAAGGTATTCGTGAGACCAAAGAGTA
1 TTCTATGTAAATGATTTGTTAATTTTTGAGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
*
13595133 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTCTAAAGGTGA
66 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
13595198 AAAAGCATGAAAGG
131 AAAAGCATGAAAGG
13595212 GAAATTGCAC
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
152 130 0.96
153 5 0.04
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (153 bp):
TTCTATGTAAATGATTTGTTAATTTTTGAGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
AAAAGCATGAAAGGTAGATAGAA
Found at i:13596919 original size:25 final size:25
Alignment explanation
Indices: 13596885--13596935 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13596875 GTGTTAAAGA
13596885 TGATTTTACATGCCATGAAAAAATT
1 TGATTTTACATGCCATGAAAAAATT
*
13596910 TGATTTTACATGCCATGGAAAAATT
1 TGATTTTACATGCCATGAAAAAATT
13596935 T
1 T
13596936 ATTCTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (25 bp):
TGATTTTACATGCCATGAAAAAATT
Found at i:13597452 original size:18 final size:18
Alignment explanation
Indices: 13597416--13597452 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13597406 TGAGTTTTTG
* *
13597416 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCAAAT
13597434 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
13597452 A
1 A
13597453 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:13597528 original size:30 final size:30
Alignment explanation
Indices: 13597494--13597555 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
13597484 AACTCCCAAA
* *
13597494 CCTTCTTATTTTCCCCTC-AAAACTTTTACT
1 CCTTCTCACTTTCCCC-CAAAAACTTTTACT
13597524 CCTTCTCACTTTCCCCCAAAAACTTTTACT
1 CCTTCTCACTTTCCCCCAAAAACTTTTACT
13597554 CC
1 CC
13597556 CCTCCCATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.40
Consensus pattern (30 bp):
CCTTCTCACTTTCCCCCAAAAACTTTTACT
Found at i:13597801 original size:28 final size:29
Alignment explanation
Indices: 13597743--13597801 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 29
13597733 TTTTTAATAT
* ***
13597743 TTTCCCTCCAAAATTTTACTCCTATTTAC
1 TTTCCCTCCAAAATTTTACTCCCAAAAAC
*
13597772 TTTCCCT-CAAACTTTTACTCCCAAAAAC
1 TTTCCCTCCAAAATTTTACTCCCAAAAAC
13597800 TT
1 TT
13597802 CTTATTTTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (29 bp):
TTTCCCTCCAAAATTTTACTCCCAAAAAC
Found at i:13599940 original size:21 final size:21
Alignment explanation
Indices: 13599881--13599941 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
13599871 GATTATATGA
* * *
13599881 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
13599902 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
13599923 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
13599942 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:13599948 original size:6 final size:6
Alignment explanation
Indices: 13599935--13599965 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
13599925 GTGAATTGTT
13599935 ATTG-A ATTGAA ATTGAA ATTGAA ATTGAA AT
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA AT
13599966 GTAAATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (6 bp):
ATTGAA
Found at i:13600154 original size:19 final size:20
Alignment explanation
Indices: 13600130--13600167 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13600120 TTGGACAATA
*
13600130 AATAAAAA-AAAATGAATTG
1 AATAAAAATAAAATAAATTG
13600149 AATAAAAATAAAATAAATT
1 AATAAAAATAAAATAAATT
13600168 ATGAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AATAAAAATAAAATAAATTG
Found at i:13600808 original size:45 final size:45
Alignment explanation
Indices: 13600744--13600887 Score: 224
Period size: 45 Copynumber: 3.3 Consensus size: 45
13600734 CTGTTACCGC
*
13600744 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
13600789 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
* *
13600834 TACTGCTACTGTTATCGATTCGACAC----TGTGTCAAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
*
13600875 TACTGTTACTGTT
1 TACTGCTACTGTT
13600888 CCGGATTTGT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
41 27 0.28
45 68 0.72
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
Found at i:13601084 original size:18 final size:18
Alignment explanation
Indices: 13601063--13601253 Score: 137
Period size: 18 Copynumber: 10.6 Consensus size: 18
13601053 TAACTGATTA
13601063 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
13601081 TTACCTG-ATAATTAACTG
1 TTA-CTGAATAATTGACTG
13601099 TTACT-AGAT-ATTAGACTG
1 TTACTGA-ATAATT-GACTG
* * *
13601117 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
13601135 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
13601153 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
13601171 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
** *
13601189 CCACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
13601208 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
13601225 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
13601243 TTACTGGATAA
1 TTACTGAATAA
13601254 CCGATCAATT
Statistics
Matches: 140, Mismatches: 17, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
17 21 0.15
18 100 0.71
19 19 0.14
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:13601313 original size:18 final size:18
Alignment explanation
Indices: 13601292--13601333 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13601282 AGTTATTATT
* *
13601292 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
13601310 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
13601328 GAATAA
1 GAATAA
13601334 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:13601331 original size:36 final size:36
Alignment explanation
Indices: 13601051--13601333 Score: 166
Period size: 36 Copynumber: 7.6 Consensus size: 36
13601041 AAAGGTATAA
* * *
13601051 AATAACTGATTATTACTGAATAATTGACTGTTACCTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTA-CTG
* * *
13601088 -ATAATTAACTGTTACT-AGAT-ATTAGACTGTTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GATTGTTACTG
* * **
13601123 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * * **
13601159 AATAACTGATTGTCACTGAATGAA-TGACTGCCACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* *
13601195 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATTGTTACTG
* * *
13601231 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * *
13601275 AATAACT-AGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGA-CTGTTACTGAATAATTGATTGTTACTG
13601311 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
13601334 ATAATTATTC
Statistics
Matches: 185, Mismatches: 40, Indels: 43
0.69 0.15 0.16
Matches are distributed among these distances:
35 14 0.08
36 121 0.65
37 22 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:13613735 original size:14 final size:16
Alignment explanation
Indices: 13613701--13613735 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
13613691 GTGCAACATG
13613701 TTTTGAGAAATATGCT
1 TTTTGAGAAATATGCT
13613717 TTTTG-GAAATATG-T
1 TTTTGAGAAATATGCT
13613731 TTTTG
1 TTTTG
13613736 TATGTGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTTGAGAAATATGCT
Found at i:13614951 original size:48 final size:48
Alignment explanation
Indices: 13614886--13616284 Score: 2287
Period size: 48 Copynumber: 28.7 Consensus size: 48
13614876 GGTCATTCGG
* * *
13614886 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13614935 CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13614983 CCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615031 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615079 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13615129 CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTATA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615177 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615225 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13615275 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTATA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615323 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615371 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615421 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615469 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTATA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615517 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13615565 CCACATATACATTTCTCATACATATTTCATATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615613 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13615661 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615709 CCACATATACAT-TCTTATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615756 CCACCTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615804 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13615854 CCACATATATACATTTCTCATACATATTTCATATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615904 CCACGTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13615952 CCATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13616000 CCACATATATACATTTCTCCACATACATATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACA--TAT---C-T-C--ATACATATTTCACATTAGCCATTCGGCTTTA
*
13616059 CCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13616107 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
13616157 CCACATATACATATCTCATATATATTTCACAGTAGCCATTCGGCTTTG
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * * *
13616205 CCACATATACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTG
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13616253 CCACATATACATATCTCATACATATTTCACAT
1 CCACATATACATATCTCATACATATTTCACAT
13616285 ATCTCATACA
Statistics
Matches: 1276, Mismatches: 52, Indels: 45
0.93 0.04 0.03
Matches are distributed among these distances:
47 45 0.04
48 887 0.70
49 4 0.00
50 290 0.23
51 1 0.00
52 3 0.00
55 3 0.00
56 1 0.00
57 7 0.01
59 35 0.03
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:13615130 original size:146 final size:146
Alignment explanation
Indices: 13614886--13616284 Score: 2316
Period size: 146 Copynumber: 9.6 Consensus size: 146
13614876 GGTCATTCGG
* * *
13614886 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCAC--ATATACATAT
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATAT
* *
13614949 CTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACA
65 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
13615014 TTAGCCATTCGGCTTTA
130 TTAGCCATTCGGCTTTA
*
13615031 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
13615096 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
13615161 TAGCCATTCAGCTATA
131 TAGCCATTCGGCTTTA
*
13615177 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
13615242 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
13615307 TAGCCATTCGACTATA
131 TAGCCATTCGGCTTTA
*
13615323 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
13615388 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
13615453 TAGCCATTCGGCTTTA
131 TAGCCATTCGGCTTTA
*
13615469 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTATACCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
* *
13615532 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCATAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
13615597 TAGCCATTCGGCTTTA
131 TAGCCATTCGGCTTTA
13615613 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
*
13615676 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT-TCTTATACATATTTCACAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
13615740 TAGCCATTCGGCTTTA
131 TAGCCATTCGGCTTTA
* *
13615756 CCACCTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
* *
13615821 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTTCAC
13615886 ATTAGCCATTCGGCTTTA
129 ATTAGCCATTCGGCTTTA
*
13615904 CCACGTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA-C-CATATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
*
13615967 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCCACATACATATAC
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACA--TAT---C-T-C--ATAC
13616032 ATATTTCACATTAGCCATTCGGCTTTA
120 ATATTTCACATTAGCCATTCGGCTTTA
* *
13616059 CCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
* *
13616124 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAG
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
13616189 TAGCCATTCGGCTTTG
131 TAGCCATTCGGCTTTA
* * * *
13616205 CCACATATACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
13616268 TCATACATATTTCACAT
66 TCATACATATTTCACAT
13616285 ATCTCATACA
Statistics
Matches: 1196, Mismatches: 40, Indels: 37
0.94 0.03 0.03
Matches are distributed among these distances:
143 84 0.07
144 268 0.22
145 51 0.04
146 560 0.47
147 9 0.01
148 83 0.07
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
153 3 0.00
155 83 0.07
156 1 0.00
157 50 0.04
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (146 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATC
TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
TAGCCATTCGGCTTTA
Found at i:13616275 original size:11 final size:11
Alignment explanation
Indices: 13616259--13616297 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13616249 TTTGCCACAT
13616259 ATACATATCTC
1 ATACATATCTC
*
13616270 ATACATATTTC
1 ATACATATCTC
13616281 --ACATATCTC
1 ATACATATCTC
13616290 ATACATAT
1 ATACATAT
13616298 TTCACATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (11 bp):
ATACATATCTC
Found at i:13616286 original size:20 final size:20
Alignment explanation
Indices: 13616261--13616304 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
13616251 TGCCACATAT
13616261 ACATATCTCATACATATTTC
1 ACATATCTCATACATATTTC
13616281 ACATATCTCATACATATTTC
1 ACATATCTCATACATATTTC
13616301 ACAT
1 ACAT
13616305 TAGCCATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (20 bp):
ACATATCTCATACATATTTC
Found at i:13616328 original size:68 final size:68
Alignment explanation
Indices: 13616213--13616347 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
13616203 TGCCACATAT
* * *
13616213 ACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
13616278 TTC
66 TTC
* * *
13616281 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATAT
1 ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
13616346 TT
66 TT
13616348 ATCTTGTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (68 bp):
ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTC
Found at i:13618519 original size:28 final size:27
Alignment explanation
Indices: 13618488--13618592 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 27
13618478 CTGACTGATT
*
13618488 TCGCACACATAGTGCTCGATTAAAGAGC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* * *
13618516 TCGCACACATAATGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
13618545 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
* *
13618573 TTGCACACACAGTGCCTCAT
1 TCGCACACATAGTG-CTCAT
13618593 AACTCCAGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 33 0.53
29 26 0.42
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:13618663 original size:40 final size:40
Alignment explanation
Indices: 13618626--13618942 Score: 505
Period size: 40 Copynumber: 8.0 Consensus size: 40
13618616 GGTTTAGCTT
*
13618626 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
13618666 GGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
13618705 AGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
13618745 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
13618785 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
13618825 AGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* * *
13618865 GGATATAACA-TCAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACT-AGCACGAATGCTCTTCGGAACTTAGCCC
* * *
13618905 GGATATAACA-TCAGCACGAATGCTCTTCGGGACTTAGC
1 GGATACATCACT-AGCACGAATGCTCTTCGGAACTTAGC
13618943 TCGGCTATAT
Statistics
Matches: 267, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 39 0.15
40 228 0.85
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
Found at i:13620497 original size:48 final size:48
Alignment explanation
Indices: 13620432--13620937 Score: 826
Period size: 48 Copynumber: 10.6 Consensus size: 48
13620422 GGTCATTCGG
* * *
13620432 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13620481 CCACATATACATATCTCATACACATTTCACATTAGTCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13620529 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13620577 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13620625 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13620675 CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTGTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13620723 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
13620771 CCACATTTATACATTTCTCATACATATTT--C---A-CCATTCGGCTTTA
1 CCACA--TATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13620815 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
13620863 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
13620911 CCGCATATACATATCTCATATATATTT
1 CCACATATACATATCTCATACATATTT
13620938 ATCTTGTACA
Statistics
Matches: 430, Mismatches: 17, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
42 21 0.05
44 19 0.04
45 1 0.00
47 1 0.00
48 316 0.73
49 4 0.01
50 68 0.16
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:13620677 original size:146 final size:144
Alignment explanation
Indices: 13620432--13620937 Score: 826
Period size: 146 Copynumber: 3.5 Consensus size: 144
13620422 GGTCATTCGG
* * *
13620432 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
* *
13620497 CATACACATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
65 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
13620562 AGCCATTCGGCTTTA
130 AGCCATTCGGCTTTA
*
13620577 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATC
13620642 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
64 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
13620707 TAGCCATTCAGCTGTA
129 TAGCCATTCGGCTTTA
*
13620723 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATTTATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA--TATACATATC
13620788 TCATACATATTT--C---A-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
64 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
13620847 TAGCCATTCGGCTTTA
129 TAGCCATTCGGCTTTA
*
13620863 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
13620928 ATATATATTT
66 ATACATATTT
13620938 ATCTTGTACA
Statistics
Matches: 344, Mismatches: 13, Indels: 15
0.92 0.03 0.04
Matches are distributed among these distances:
138 20 0.06
140 111 0.32
141 1 0.00
144 47 0.14
145 4 0.01
146 161 0.47
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (144 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
GCCATTCGGCTTTA
Found at i:13623027 original size:11 final size:11
Alignment explanation
Indices: 13623011--13623035 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13623001 CATTTTAGTT
13623011 TTATTGAAATA
1 TTATTGAAATA
13623022 TTATTGAAATA
1 TTATTGAAATA
13623033 TTA
1 TTA
13623036 AAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TTATTGAAATA
Found at i:13623244 original size:17 final size:17
Alignment explanation
Indices: 13623222--13623257 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13623212 AAATAGATGG
13623222 AAAAATTAAAGTTTTCT
1 AAAAATTAAAGTTTTCT
13623239 AAAAATTAAAGTTTTCT
1 AAAAATTAAAGTTTTCT
13623256 AA
1 AA
13623258 CTTTGTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAGTTTTCT
Found at i:13627587 original size:51 final size:48
Alignment explanation
Indices: 13627509--13627608 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 48
13627499 ACGTTGATAT
13627509 ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTGTTTATGTAATTTA
1 ACATTATGCTTGGAACTAATGACCAATTTT-G--GTTGTTTATGTAATTTA
* *
13627560 ACATTATGCTTGGAATTAATGATCAATTTTGGTTGTTTATGTAATTTA
1 ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
13627608 A
1 A
13627609 TTTAGCTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 18 0.38
50 1 0.02
51 28 0.60
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (48 bp):
ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
Found at i:13634951 original size:4 final size:4
Alignment explanation
Indices: 13634942--13634966 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13634932 TGCTTTGCTT
13634942 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
13634967 AAAACAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:13643022 original size:24 final size:24
Alignment explanation
Indices: 13642980--13643043 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 24
13642970 AGTTGAGATT
*
13642980 TAACACCAAAAATTAAACAATGAAG
1 TAACACCAAAAA-TAAACAATGAAA
13643005 TAACACCAAAAA-ACAACAATGAAA
1 TAACACCAAAAATA-AACAATGAAA
13643029 TAACACCAAAAATAA
1 TAACACCAAAAATAA
13643044 CCTAGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 1 0.03
24 22 0.61
25 13 0.36
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (24 bp):
TAACACCAAAAATAAACAATGAAA
Found at i:13644812 original size:21 final size:21
Alignment explanation
Indices: 13644787--13644826 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13644777 AGAAAGTTAA
*
13644787 GAAAATGTAAGAAATCAAGGT
1 GAAAAGGTAAGAAATCAAGGT
13644808 GAAAAGGTAAGAAATCAAG
1 GAAAAGGTAAGAAATCAAG
13644827 AGTTCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (21 bp):
GAAAAGGTAAGAAATCAAGGT
Found at i:13653036 original size:2 final size:2
Alignment explanation
Indices: 13653031--13653056 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13653021 GTGTGGGGAT
13653031 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
13653057 CTCACAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13654253 original size:27 final size:27
Alignment explanation
Indices: 13654212--13654266 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13654202 ACAATTTCCA
*
13654212 TAGTTCCCTCTTCTGTGGACATAACAT
1 TAGTTCCCTCATCTGTGGACATAACAT
13654239 TAGTTCCCTCATCTGTGGACATAACAT
1 TAGTTCCCTCATCTGTGGACATAACAT
13654266 T
1 T
13654267 CAAATGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (27 bp):
TAGTTCCCTCATCTGTGGACATAACAT
Found at i:13654830 original size:14 final size:15
Alignment explanation
Indices: 13654806--13654840 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
13654796 AGCTGACGAT
13654806 AAAAATGAAAAAGAA
1 AAAAATGAAAAAGAA
*
13654821 AAAAAT-AAAAATAA
1 AAAAATGAAAAAGAA
13654835 AAAAAT
1 AAAAAT
13654841 TAGGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAAGAA
Found at i:13662232 original size:28 final size:28
Alignment explanation
Indices: 13662173--13662232 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
13662163 TAGATGGATC
**
13662173 GATTATTTAACTAGTAGATGAAGTATAA
1 GATTATTTAACTAGTAGAACAAGTATAA
13662201 GATTATTTAACTA-TATGAACAA-TATAA
1 GATTATTTAACTAGTA-GAACAAGTATAA
13662228 TGATT
1 -GATT
13662233 TTGCGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
GATTATTTAACTAGTAGAACAAGTATAA
Found at i:13665060 original size:24 final size:24
Alignment explanation
Indices: 13665033--13665086 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
13665023 ATAAGTTAGG
13665033 TAATACAATCATTATAATAGAACA
1 TAATACAATCATTATAATAGAACA
13665057 TAATACAATCATTATAATAGAACA
1 TAATACAATCATTATAATAGAACA
13665081 TAATAC
1 TAATAC
13665087 TTACAGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (24 bp):
TAATACAATCATTATAATAGAACA
Found at i:13670361 original size:21 final size:21
Alignment explanation
Indices: 13670332--13670384 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13670322 GTTCGCTTCT
*
13670332 CCCATGCCCGTATGTTAAAGC
1 CCCACGCCCGTATGTTAAAGC
* *
13670353 CCCACGCCCATGTGTTAAAGC
1 CCCACGCCCGTATGTTAAAGC
*
13670374 CTCACGCCCGT
1 CCCACGCCCGT
13670385 GTTAATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
CCCACGCCCGTATGTTAAAGC
Found at i:13670388 original size:19 final size:20
Alignment explanation
Indices: 13670344--13670389 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
13670334 CATGCCCGTA
13670344 TGTTAAAGCCCCACGCCCATG
1 TGTTAAAGCCCCACGCCCA-G
*
13670365 TGTTAAAGCCTCACGCCC-G
1 TGTTAAAGCCCCACGCCCAG
13670384 TGTTAA
1 TGTTAA
13670390 TTAAACAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (20 bp):
TGTTAAAGCCCCACGCCCAG
Found at i:13681879 original size:35 final size:35
Alignment explanation
Indices: 13681808--13681919 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
13681798 AGATAACTTT
* * *
13681808 ACATATAACCGAGTATACAAGTTCAATATAAGCTC
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
* *
13681843 ACATGTAATCGAATACTA-AAATTCAATATAACCTC
1 ACATGTAACCGAATA-TACAAATTCAATATAAGCTC
* * * * *
13681878 ACCTGCAGCCGAATATACAAGTTCAATATAAGCTT
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
13681913 ACATGTA
1 ACATGTA
13681920 CTTACCTATA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
34 2 0.03
35 57 0.93
36 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.27
Consensus pattern (35 bp):
ACATGTAACCGAATATACAAATTCAATATAAGCTC
Found at i:13689713 original size:35 final size:35
Alignment explanation
Indices: 13689621--13689724 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 35
13689611 CTTTACATAT
* *
13689621 AACCGAGTATACAAGTTCAATATAAGCTCACATGT
1 AACCGAATATACAAGTTCAATATAAGCTCACATGC
* * * *
13689656 AATCGAATACTA-AAATTTAATATAACCTCACATGC
1 AACCGAATA-TACAAGTTCAATATAAGCTCACATGC
* *
13689691 AGCCGAATATACAAGTTCAATATAAGCTTACATG
1 AACCGAATATACAAGTTCAATATAAGCTCACATG
13689725 TACTTACCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.04
35 51 0.93
36 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (35 bp):
AACCGAATATACAAGTTCAATATAAGCTCACATGC
Found at i:13694925 original size:3 final size:3
Alignment explanation
Indices: 13694919--13694950 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13694909 CTTATTATTT
*
13694919 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13694951 TATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13696577 original size:13 final size:13
Alignment explanation
Indices: 13696554--13696588 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13696544 CATAGTTTGG
13696554 TATGAATTTATATA
1 TATG-ATTTATATA
*
13696568 TATGATTTATATG
1 TATGATTTATATA
13696581 TATGATTT
1 TATGATTT
13696589 TCTAATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (13 bp):
TATGATTTATATA
Found at i:13697958 original size:17 final size:17
Alignment explanation
Indices: 13697928--13697960 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13697918 AACGAAACAA
13697928 AAGAAGAAAAAAAAAGG
1 AAGAAGAAAAAAAAAGG
13697945 AAGAA-AAAAGAAAAAG
1 AAGAAGAAAA-AAAAAG
13697961 AGTGAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAAAGG
Found at i:13701625 original size:30 final size:30
Alignment explanation
Indices: 13701568--13701625 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
13701558 TGGCACGACC
** *
13701568 TAGCACACGACCTGGACACGGGTGTGTGCA
1 TAGCACACGACCTGGACACACGAGTGTGCA
**
13701598 TAGCACACGGGCTGGACACACGAGTGTG
1 TAGCACACGACCTGGACACACGAGTGTG
13701626 TGTTATGACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (30 bp):
TAGCACACGACCTGGACACACGAGTGTGCA
Found at i:13719662 original size:41 final size:41
Alignment explanation
Indices: 13719613--13719824 Score: 205
Period size: 41 Copynumber: 5.2 Consensus size: 41
13719603 TGGTACAAAA
* *
13719613 GTGC-ATTCAAGGGTACTGAAGTACAAACAAGGGGACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGGACGTAT
* *
13719653 GTGTAATTCAGGGGTACCGAAGTACTAAC-AGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGG-ACGTAT
* ** * * * *
13719694 GTGCAATTCAGGGGAACTAAAGTACAAACATGAGTAAGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGGACGTAT
* * * *
13719735 GTGTAATTCAGGGGAACCGAAGTACAAA-TAGGGGCACATAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGG-ACGTAT
* * * * *
13719776 GTGCAATTTAGGGTTACCGAAATATAAACAAGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGGACGTAT
13719817 GTGCAATT
1 GTGCAATT
13719825 TAGAGATATT
Statistics
Matches: 136, Mismatches: 31, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
40 10 0.07
41 120 0.88
42 6 0.04
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAACAAGGGGACGTAT
Found at i:13719754 original size:82 final size:82
Alignment explanation
Indices: 13719613--13719788 Score: 237
Period size: 82 Copynumber: 2.2 Consensus size: 82
13719603 TGGTACAAAA
* * * * * *
13719613 GTGC-ATTCAAGGGTACTGAAGTACAAACAAGGGGACGTATGTGTAATTCAGGGGTACCGAAGTA
1 GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
* *
13719677 CTAACAGGGGCACGTAT
66 CAAACAGGGGCACATAT
* *
13719694 GTGCAATTCAGGGGAACTAAAGTACAAACATGAGTAAGTATGTGTAATTCAGGGGAACCGAAGTA
1 GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
*
13719759 CAAATAGGGGCACATAT
66 CAAACAGGGGCACATAT
*
13719776 GTGCAATTTAGGG
1 GTGCAATTCAGGG
13719789 TTACCGAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 4 0.05
82 78 0.95
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (82 bp):
GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
CAAACAGGGGCACATAT
Found at i:13719817 original size:82 final size:82
Alignment explanation
Indices: 13719631--13719824 Score: 237
Period size: 82 Copynumber: 2.4 Consensus size: 82
13719621 AAGGGTACTG
* * * *
13719631 AAGTACAAACAAGGGGACGTATGTGTAATTCAGGGGTACCGAAGTACTAACAGGGGCACGTATGT
1 AAGTACAAACAAGGGCACGTATGTGTAATTCAGGGGAACCGAAGTACAAACAGGGGCACATATGT
*
13719696 GCAATTCAGGGGAACTA
66 GCAATTCAGGGGAACGA
* * * * *
13719713 AAGTACAAACATGAGTAAGTATGTGTAATTCAGGGGAACCGAAGTACAAATAGGGGCACATATGT
1 AAGTACAAACAAGGGCACGTATGTGTAATTCAGGGGAACCGAAGTACAAACAGGGGCACATATGT
* * *
13719778 GCAATTTAGGGTTACCGA
66 GCAATTCAGGG-GAACGA
* *
13719796 AA-TATAAACAAGGGCACGTATGTGCAATT
1 AAGTACAAACAAGGGCACGTATGTGTAATT
13719825 TAGAGATATT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
82 88 0.95
83 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (82 bp):
AAGTACAAACAAGGGCACGTATGTGTAATTCAGGGGAACCGAAGTACAAACAGGGGCACATATGT
GCAATTCAGGGGAACGA
Found at i:13722281 original size:43 final size:43
Alignment explanation
Indices: 13722220--13722305 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
13722210 TAGGATACCG
* *
13722220 TTAGGTGTCAGGCATGTGTCTGACTTAAAGAAAAATCTCATCT
1 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
13722263 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
1 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
13722306 CCTTGAGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
Found at i:13726419 original size:26 final size:26
Alignment explanation
Indices: 13726359--13726419 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
13726349 AAATTTCACA
13726359 TTTTA-TACTATTTATATTATTAAAT
1 TTTTATTACTATTTATATTATTAAAT
13726384 TGTTTAATTA-TATTTA-ATTATTATAAGT
1 T-TTT-ATTACTATTTATATTATTA-AA-T
13726412 TTTTATTA
1 TTTTATTA
13726420 AAATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 1 0.03
26 14 0.45
27 12 0.39
28 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTATTACTATTTATATTATTAAAT
Found at i:13726946 original size:21 final size:20
Alignment explanation
Indices: 13726921--13726967 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
13726911 TTTATATAAA
* *
13726921 ATAAATTCTTTTTAAAAAATT
1 ATAAATTCTGTAT-AAAAATT
13726942 ATAAAATTCTGTATAAAAATT
1 AT-AAATTCTGTATAAAAATT
13726963 ATAAA
1 ATAAA
13726968 AATTCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAATTCTGTATAAAAATT
Found at i:13726978 original size:10 final size:9
Alignment explanation
Indices: 13726953--13726998 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
13726943 TAAAATTCTG
13726953 TATAAAAAT
1 TATAAAAAT
13726962 TATAAAAAT
1 TATAAAAAT
*
13726971 TCTAAAAAT
1 TATAAAAAT
*
13726980 ACATAGAAAAT
1 -TATA-AAAAT
13726991 TATAAAAA
1 TATAAAAA
13726999 ATTAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 21 0.68
10 5 0.16
11 5 0.16
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (9 bp):
TATAAAAAT
Found at i:13729086 original size:43 final size:43
Alignment explanation
Indices: 13729039--13729193 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
13729029 ATCGAGATGT
13729039 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * *
13729082 GATTATATGTGAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGA
* * * * * *
13729125 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * *
13729168 GATAACATGTAAGAGCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
13729194 TATGACATTG
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 82 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:13731716 original size:46 final size:45
Alignment explanation
Indices: 13731658--13731832 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
13731648 TCACTTGTTT
* *
13731658 GAGCTAGTGTAAGACATCTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGA
* *
13731704 GAGCCAGTGTAAGACGATGTCTGGGACATGGCATCGG--TATTAAGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATTATGA
* * *
13731749 CGAGTGCTAGTGTAA-AAATGTCTGGGACATGCATCGGCCTCGA-GATGTA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-A
13731798 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
13731833 TAAGAGTTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
45 22 0.21
46 51 0.48
47 14 0.13
48 18 0.17
49 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGA
Found at i:13735311 original size:28 final size:28
Alignment explanation
Indices: 13735271--13735324 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
13735261 ACCTATAAGA
* *
13735271 AATTTGGTATAAGTAATTTTCATTGAGC
1 AATTTGGTATAAGCAAATTTCATTGAGC
13735299 AATTTGGTATAAGCAAATTTCATTGA
1 AATTTGGTATAAGCAAATTTCATTGA
13735325 CTCTTAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (28 bp):
AATTTGGTATAAGCAAATTTCATTGAGC
Found at i:13736418 original size:71 final size:70
Alignment explanation
Indices: 13736317--13736456 Score: 253
Period size: 71 Copynumber: 2.0 Consensus size: 70
13736307 CCGAAAAAAT
13736317 ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
1 ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
13736382 TTGAA
66 TTGAA
* *
13736387 ATGATAGTGAGAATTTTTTCCTTGAATCTATTGAGTTAGAAGAGATAGAAATGTCATGTTCTCCT
1 ATGATAGTGAGAA-TTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCT
13736452 ATTGA
65 ATTGA
13736457 GATGTATTGA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 13 0.19
71 54 0.81
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (70 bp):
ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
TTGAA
Found at i:13740386 original size:50 final size:50
Alignment explanation
Indices: 13740178--13740566 Score: 465
Period size: 50 Copynumber: 7.9 Consensus size: 50
13740168 ACGGTAAGGT
* * * *
13740178 GCCGATGCCATGTCCCGGACATGGTCTTACACT-G-GCTCATA-CATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-TCGAG
* * * * * *
13740226 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
13740275 TGCCGATG-CATGTCCCAGACATAGTCTTACACT-G-ACACATA-C-C-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
13740320 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
13740370 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
13740420 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
13740470 GCCGATTCTATGTCCTAGACATGGTCTTACACCAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
13740520 GTCGATTCTATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
13740567 TCTAGCATCA
Statistics
Matches: 295, Mismatches: 35, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
44 7 0.02
45 24 0.08
46 1 0.00
47 8 0.03
48 32 0.11
49 25 0.08
50 198 0.67
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:13746172 original size:25 final size:25
Alignment explanation
Indices: 13746144--13746192 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13746134 CCAGAGGACC
*
13746144 AATCATATAACTCATAATAATGATT
1 AATCACATAACTCATAATAATGATT
* * *
13746169 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATAATAATGAT
13746193 AATAATAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATAATAATGATT
Found at i:13754581 original size:45 final size:45
Alignment explanation
Indices: 13754519--13754606 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
13754509 CTTAACGATC
* * * *
13754519 ATATAAATTTCTTTTTTAATTAGTTTCTAACCTTTGCCTCTCATA
1 ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCATA
* *
13754564 ATATAAATGTCTCTTTTACTTAGATTCTAACATTTGTCTCTCA
1 ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCA
13754607 CAACATTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (45 bp):
ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCATA
Found at i:13759462 original size:35 final size:33
Alignment explanation
Indices: 13759416--13759523 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 33
13759406 TTTCTTAAAG
13759416 GAAATATAAAAACATGTTCTTCCCACTAATTTTAA
1 GAAATA-AAAAACATGTTCTTCCCACT-ATTTTAA
* * *
13759451 GAAATAGAAAA-ATAGATCGTTCTCACCT-TTTTAGA
1 GAAATAAAAAACAT-GTTC-TTCCCA-CTATTTTA-A
* *
13759486 GAAATAAAGAGCATGTTCTTCCCACTATTTTTAA
1 GAAATAAAAAACATGTTCTTCCCACTA-TTTTAA
13759520 GAAA
1 GAAA
13759524 CACAATAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
33 4 0.07
34 22 0.38
35 28 0.48
36 4 0.07
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (33 bp):
GAAATAAAAAACATGTTCTTCCCACTATTTTAA
Found at i:13759568 original size:68 final size:69
Alignment explanation
Indices: 13759428--13759575 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 69
13759418 AATATAAAAA
* * * *
13759428 CATGTTCTTCCCACTAATTTTAAGAAATAGAAAAATAGATCGTTCTCACCTTTTTAGAGAAATAA
1 CATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTTTTTAGAGAAACAA
13759493 AGAG
66 AGAG
* * * * *
13759497 CATGTTCTTCCCACTATTTTTAAGAAACA-CAATAGAGGTCATTCTC-CCTTGTTTGGAGAAACA
1 CATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTT-TTTAGAGAAACA
*
13759560 AGGAG
65 AAGAG
*
13759565 CATGCTCTTCC
1 CATGTTCTTCC
13759576 TTTTTTCTAG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
67 4 0.06
68 36 0.54
69 27 0.40
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (69 bp):
CATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTTTTTAGAGAAACAA
AGAG
Found at i:13762286 original size:20 final size:20
Alignment explanation
Indices: 13762274--13762588 Score: 211
Period size: 20 Copynumber: 15.8 Consensus size: 20
13762264 AGTTCAAATT
*
13762274 AGAGTACCAAAGTACATACA
1 AGAGTACCAAAGTACAAACA
13762294 AGAGTACCAAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
13762314 GGGGTACCGAAGTCCATACA
1 AGAGTACCAAAGTACAAACA
13762334 AGAGTACCAAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * ** *
13762354 GGGGTACTGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
* *
13762374 AGAGTACCGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
*
13762394 AGAGTACCGAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
13762414 GGGGTACCGAAGTATAAA-T
1 AGAGTACCAAAGTACAAACA
* * *
13762433 AGGGATACCGAAGTACATACA
1 AGAG-TACCAAAGTACAAACA
13762454 AGAGTACCAAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
13762474 GGGGTATCGAAGTACAAATA
1 AGAGTACCAAAGTACAAACA
* * * * *
13762494 GGAGTATCGAAGTATATACA
1 AGAGTACCAAAGTACAAACA
* *** *
13762514 GGAGTATTGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
** *
13762534 AGAGTACTGAAGCACAAAC-
1 AGAGTACCAAAGTACAAACA
* *
13762553 AGGGTACCAAAATACAAACA
1 AGAGTACCAAAGTACAAACA
* *
13762573 GGAGTACCGAAGTACA
1 AGAGTACCAAAGTACA
13762589 TTCACATATA
Statistics
Matches: 237, Mismatches: 55, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
19 17 0.07
20 217 0.92
21 3 0.01
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (20 bp):
AGAGTACCAAAGTACAAACA
Found at i:13762332 original size:40 final size:40
Alignment explanation
Indices: 13762277--13762588 Score: 338
Period size: 40 Copynumber: 7.8 Consensus size: 40
13762267 TCAAATTAGA
* *
13762277 GTACCAAAGTACATACAAGAGTACCAAAGTACAAACAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* *
13762317 GTACCGAAGTCCATACAAGAGTACCAAAGTACAAACAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * *
13762357 GTACTGAAGTACATACAAGAGTACCGAAGTACATACAAGA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * * *
13762397 GTACCGAAGTACAAACAGGGGTACCGAAGTATAAATAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* *
13762437 ATACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * * * * * *
13762477 GTATCGAAGTACAAATAGGAGTATCGAAGTATATACAGGA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
** * *
13762517 GTATTGAAGTACATACAAGAGTACTGAAGCACAAACA-GG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * *
13762556 GTACCAAAATACAAACAGGAGTACCGAAGTACA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACA
13762589 TTCACATATA
Statistics
Matches: 220, Mismatches: 52, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
39 26 0.12
40 194 0.88
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (40 bp):
GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
Found at i:13762341 original size:60 final size:60
Alignment explanation
Indices: 13762244--13762588 Score: 343
Period size: 60 Copynumber: 5.8 Consensus size: 60
13762234 CAGGAACACT
* * * ** * * * *
13762244 AAGT-CAAACAGGGGTACTGAAGTTCAAATTAGAGTACCAAAGTACATACAAGAGTACCA
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* *
13762303 AAGTACAAACAGGGGTACCGAAGTCCATACAAGAGTACCAAAGTACAAACAGGGGTACTG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * *
13762363 AAGTACATACAAGAGTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGGGTACCG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * *
13762423 AAGTATAAATAGGGATACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTATCG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * * * *** * * * *
13762483 AAGTACAAATAGGAGTATCGAAGTATATACAGGAGTATTGAAGTACATACAAGAGTACTG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * * * *
13762543 AAGCACAAACA-GGGTACCAAAATACAAACAGGAGTACCGAAGTACA
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACA
13762589 TTCACATATA
Statistics
Matches: 237, Mismatches: 48, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
59 31 0.13
60 206 0.87
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (60 bp):
AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
Found at i:13773103 original size:17 final size:16
Alignment explanation
Indices: 13773072--13773105 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13773062 AAATATTATG
13773072 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
13773088 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
13773105 A
1 A
13773106 GGCCATATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:13775274 original size:28 final size:28
Alignment explanation
Indices: 13775229--13775288 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
13775219 TTTTTTTAAT
*
13775229 TCTTTCTTT-CGTTCTTTTATCTTATTTC
1 TCTTTCTTTCCTTTCTTTTAT-TTATTTC
13775257 TCTTTCTTTACCTTT-TTTTATTTATTTC
1 TCTTTCTTT-CCTTTCTTTTATTTATTTC
13775285 -CTTT
1 TCTTT
13775289 TTTTTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 16 0.55
29 6 0.21
30 3 0.10
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (28 bp):
TCTTTCTTTCCTTTCTTTTATTTATTTC
Found at i:13778409 original size:24 final size:24
Alignment explanation
Indices: 13778382--13778442 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
13778372 TATATTCTAA
*
13778382 TTATATCTTATAAATAATTAATAT
1 TTATATCTTATAAATAATTAAAAT
* *
13778406 TTAT-TGCTTAAAAATATTTAAAAT
1 TTATAT-CTTATAAATAATTAAAAT
13778430 TTATATTCTTATA
1 TTATA-TCTTATA
13778443 TTAAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.03
24 23 0.77
25 5 0.17
26 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
TTATATCTTATAAATAATTAAAAT
Done.