Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, whole genome shotgun sequence
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: 2003061
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:557232 original size:20 final size:19
Alignment explanation
Indices: 557185--557232 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
557175 TAAAATGAAT
557185 TTTATAAATGACAAATGGC
1 TTTATAAATGACAAATGGC
*
557204 TTTATAAATGACAAATGTC
1 TTTATAAATGACAAATGGC
557223 TTTAATAAAT
1 TTT-ATAAAT
557233 TTCATAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (19 bp):
TTTATAAATGACAAATGGC
Found at i:560325 original size:21 final size:24
Alignment explanation
Indices: 560292--560335 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
560282 TGTTTTGGTC
560292 TTATCTCACTTAAA-T-GAATATT
1 TTATCTCACTTAAAGTGGAATATT
*
560314 TTAT-TCATTTAAAGTGGAATAT
1 TTATCTCACTTAAAGTGGAATAT
560336 AATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
TTATCTCACTTAAAGTGGAATATT
Found at i:561741 original size:23 final size:23
Alignment explanation
Indices: 561715--561765 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
561705 TTAGTACTAT
561715 AGTGTGTAAGGACACTAAGTGCA
1 AGTGTGTAAGGACACTAAGTGCA
561738 AGTGTGTAAGGACACTAAGTGCA
1 AGTGTGTAAGGACACTAAGTGCA
*
561761 GGTGT
1 AGTGT
561766 ATGTCCGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.33, T:0.24
Consensus pattern (23 bp):
AGTGTGTAAGGACACTAAGTGCA
Found at i:562233 original size:46 final size:46
Alignment explanation
Indices: 561995--562226 Score: 369
Period size: 46 Copynumber: 5.1 Consensus size: 46
561985 GAATAATGAC
*
561995 AAGTATATTGGTAAAATAAGCTTACGAGCTTATTGTATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
* *
562041 AAGTATATTGGTAAAATAAGCTTACAAGCTTATGTTATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
* *
562087 AAGTATAGTGGTAAAATAAGCTTATGAGCTTATGGTATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
562133 AAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GTGATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGT-ATTAAATGGT
* * *
562179 CAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGGA-TAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
562224 AAG
1 AAG
562227 AGATTTTATC
Statistics
Matches: 171, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
45 12 0.07
46 158 0.92
47 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (46 bp):
AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
Found at i:570188 original size:36 final size:36
Alignment explanation
Indices: 570147--570256 Score: 184
Period size: 36 Copynumber: 3.1 Consensus size: 36
570137 ATGTATACTC
* *
570147 AAATTTAAATGATCATGGAATATAAGAAAAATACTA
1 AAATTTAAAGGATCATGGAATATAAGAAAAAGACTA
570183 AAATTTAAAGGATCATGGAATATAAGAAAAAGACTA
1 AAATTTAAAGGATCATGGAATATAAGAAAAAGACTA
* *
570219 AAATTTAAAGGATCATGAAATATAGGAAAAAGACTA
1 AAATTTAAAGGATCATGGAATATAAGAAAAAGACTA
570255 AA
1 AA
570257 CGAGTTTAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.24
Consensus pattern (36 bp):
AAATTTAAAGGATCATGGAATATAAGAAAAAGACTA
Found at i:572710 original size:50 final size:50
Alignment explanation
Indices: 572630--572739 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
572620 TAATGGACAT
* *
572630 TATTAATACTCTATTAAGCAATATAGGTACTAAAATAATATTGATACTAG
1 TATTGATACTCTACTAAGCAATATAGGTACTAAAATAATATTGATACTAG
* * * * *
572680 TATTGATACTCTACTAAGCAGTATAGGTACTAAAATAGTATTGGTATTTG
1 TATTGATACTCTACTAAGCAATATAGGTACTAAAATAATATTGATACTAG
572730 TATTGATACT
1 TATTGATACT
572740 AACATCGATA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (50 bp):
TATTGATACTCTACTAAGCAATATAGGTACTAAAATAATATTGATACTAG
Found at i:576589 original size:25 final size:22
Alignment explanation
Indices: 576560--576605 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
576550 ATTTTAACCC
576560 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
576585 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
576606 GCATCATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:586768 original size:20 final size:20
Alignment explanation
Indices: 586665--586778 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
586655 TACATTCTGA
*
586665 CACTTTGGTGCATTCCT-TAG
1 CACTTTGGTGCATT-GTGTAG
* * *
586685 CACTTCGATGCATTCTGTAG
1 CACTTTGGTGCATTGTGTAG
* * *
586705 CACTTCGATGCATTCTGTAG
1 CACTTTGGTGCATTGTGTAG
* *
586725 CACTTTAGTGCTTTGTGT--
1 CACTTTGGTGCATTGTGTAG
*
586743 CACTTTGGCGCATTGTGTAG
1 CACTTTGGTGCATTGTGTAG
586763 CACTTTGGTGCATTGT
1 CACTTTGGTGCATTGT
586779 CGCATTTATG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
18 15 0.19
19 2 0.03
20 63 0.79
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
CACTTTGGTGCATTGTGTAG
Found at i:594192 original size:19 final size:18
Alignment explanation
Indices: 594156--594202 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
594146 ATTAATTGAA
594156 CATCGAATGC-ATTCCATG
1 CATCG-ATGCAATTCCATG
594174 CATCGATGCAATCTCCATG
1 CATCGATGCAAT-TCCATG
594193 CATCGATGCA
1 CATCGATGCA
594203 CTCTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 16 0.59
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (18 bp):
CATCGATGCAATTCCATG
Found at i:594331 original size:64 final size:65
Alignment explanation
Indices: 594154--594316 Score: 215
Period size: 65 Copynumber: 2.5 Consensus size: 65
594144 GAATTAATTG
* *
594154 AACATCGAATGCATTCCATGCATCGATGCA-ATCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACA-CTCCATGCATCGATGCACTCAGAATATTTTCA
594218 A
65 A
* * ** **
594219 AACATCGAATGCATTTGATGCATCGATGTACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
594282 A
65 A
594283 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
594317 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 35 0.42
65 48 0.57
66 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:602651 original size:65 final size:64
Alignment explanation
Indices: 602533--602676 Score: 152
Period size: 65 Copynumber: 2.2 Consensus size: 64
602523 TATTCAAAGG
* *
602533 CATGCACCGATGC-ATCAGTCCATGCATCGATGCATCGATGAATTAATTGAACATCGAATGCATT
1 CATGCACCGATGCAATCA-TCCATGCATCGATGCATC-ATGAATTAATTAAACATCAAATGCATT
602597 C
64 C
*
602598 CATGCACCGATGCAATC-TCCATGCATCGATGCACTC-TGAA-TATTTTCAAAACATCAAATGCA
1 CATGCACCGATGCAATCATCCATGCATCGATGCA-TCATGAATTA-ATT--AAACATCAAATGCA
*
602660 TTT
62 TTC
* *
602663 GATGCATCGATGCA
1 CATGCACCGATGCA
602677 CAAGCCATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
62 2 0.03
63 6 0.09
64 16 0.24
65 41 0.60
66 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCAATCATCCATGCATCGATGCATCATGAATTAATTAAACATCAAATGCATTC
Found at i:617907 original size:24 final size:24
Alignment explanation
Indices: 617880--617986 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
617870 AAACGGAGAT
*
617880 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
617904 ATCAGATATCAAAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
617928 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
617952 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
*
617976 ATCATAAATCA
1 ATCAGAAATCA
617987 GATAAAATAT
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:617986 original size:48 final size:48
Alignment explanation
Indices: 617880--617988 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
617870 AAACGGAGAT
* * *
617880 ATCAGAAATCAAAACATAATTCAGATCAGATATCAAAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
617928 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
*
617976 ATCATAAATCAGA
1 ATCAGAAATCAGA
617989 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:619134 original size:18 final size:18
Alignment explanation
Indices: 619113--619150 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
619103 TCCTTCCATC
*
619113 CAATCTTATTATTTAATT
1 CAATCTTATCATTTAATT
*
619131 CAATCTTATCATTTACTT
1 CAATCTTATCATTTAATT
619149 CA
1 CA
619151 GTCCTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (18 bp):
CAATCTTATCATTTAATT
Found at i:620498 original size:13 final size:13
Alignment explanation
Indices: 620480--620517 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
620470 TTCAACGGTC
620480 AACGGGTCGGGTA
1 AACGGGTCGGGTA
620493 AACGGGTCGGGTA
1 AACGGGTCGGGTA
620506 AACGGGTCGGGT
1 AACGGGTCGGGT
620518 CGAGTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.47, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:622619 original size:24 final size:24
Alignment explanation
Indices: 622592--622698 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 24
622582 AAACGGAGAT
622592 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
622616 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
622640 GTTAGGAATCAGAACA-AATTTCAG
1 ATCAGAAATCAAAACATAA-TTCAG
** *
622664 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
622688 ATCAGAAATCA
1 ATCAGAAATCA
622699 GATAAAATAT
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 2 0.03
24 59 0.94
25 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:622698 original size:48 final size:48
Alignment explanation
Indices: 622592--622700 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
622582 AAACGGAGAT
* * *
622592 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
622640 GTTAGGAATCAGAACA-AATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACATAA-TTCAGATCAGATATCAAAACAGAATCCAA
622688 ATCAGAAATCAGA
1 ATCAGAAATCAGA
622701 TAAAATATTC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:623843 original size:18 final size:18
Alignment explanation
Indices: 623822--623857 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
623812 CTTCCATCCG
*
623822 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
623840 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
623858 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:625196 original size:13 final size:13
Alignment explanation
Indices: 625178--625202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
625168 GTCAACGGTC
625178 AACGGGTCGGGTA
1 AACGGGTCGGGTA
625191 AACGGGTCGGGT
1 AACGGGTCGGGT
625203 CGGGTTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:627302 original size:24 final size:24
Alignment explanation
Indices: 627275--627381 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
627265 AAACGGAGAT
*
627275 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
627299 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
627323 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
627347 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
627371 ATCAGAAATCA
1 ATCAGAAATCA
627382 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:627381 original size:48 final size:48
Alignment explanation
Indices: 627275--627383 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
627265 AAACGGAGAT
* * * *
627275 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
627323 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
627371 ATCAGAAATCAGA
1 ATCAGAAATCAGA
627384 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:628531 original size:18 final size:18
Alignment explanation
Indices: 628510--628550 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
628500 CTTCCATCCG
*
628510 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
628528 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
*
628546 GTCTT
1 ATCTT
628551 TTCGAACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.02, T:0.54
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:629874 original size:15 final size:15
Alignment explanation
Indices: 629854--629889 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
629844 GTGGTCAACG
629854 TGGGTCAACGGTCAA
1 TGGGTCAACGGTCAA
629869 TGGGTCAACGGTCAA
1 TGGGTCAACGGTCAA
*
629884 CGGGTC
1 TGGGTC
629890 GGGTCAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.19
Consensus pattern (15 bp):
TGGGTCAACGGTCAA
Found at i:629896 original size:13 final size:13
Alignment explanation
Indices: 629878--629951 Score: 85
Period size: 13 Copynumber: 5.3 Consensus size: 13
629868 ATGGGTCAAC
629878 GGTCAACGGGTCG
1 GGTCAACGGGTCG
629891 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
*
629909 GGTCAACTGGTCG
1 GGTCAACGGGTCG
629922 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
629935 GGTAAACGGGTCG
1 GGTCAACGGGTCG
629948 GGTC
1 GGTC
629952 GGGTTATGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 39 0.75
18 13 0.25
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:629907 original size:18 final size:18
Alignment explanation
Indices: 629884--629925 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
629874 CAACGGTCAA
629884 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
629902 CGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
629920 CGGGTC
1 CGGGTC
629926 AACGGGTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:629921 original size:31 final size:31
Alignment explanation
Indices: 629878--629937 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
629868 ATGGGTCAAC
629878 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
629909 GGTCAACTGGTCGGGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGTCAACGGGTCGGGT
629938 AAACGGGTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:638213 original size:20 final size:20
Alignment explanation
Indices: 638184--638222 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
638174 CTCCTAAACT
* *
638184 TGCAATCATCATTAAAATCG
1 TGCAAACATCATCAAAATCG
638204 TGCAAACATCATCAAAATC
1 TGCAAACATCATCAAAATC
638223 CACTCAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (20 bp):
TGCAAACATCATCAAAATCG
Found at i:638439 original size:29 final size:26
Alignment explanation
Indices: 638394--638448 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
638384 TGAATTTTCC
638394 AAAAAAAAAATTAAATTTTCGAAATTA
1 AAAAAAAAAATTAAATTTTC-AAATTA
*
638421 AAAAAAAAAATTGTTAATTTTCAAATTA
1 AAAAAAAAAA-T-TAAATTTTCAAATTA
638449 TTGTGTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 10 0.40
28 7 0.28
29 8 0.32
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAAAAAAATTAAATTTTCAAATTA
Found at i:651814 original size:15 final size:15
Alignment explanation
Indices: 651796--651824 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
651786 CCCTTTTTTT
651796 TGAATTTTCTCTTTA
1 TGAATTTTCTCTTTA
651811 TGAATTTTCTCTTT
1 TGAATTTTCTCTTT
651825 CTGTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.14, G:0.07, T:0.62
Consensus pattern (15 bp):
TGAATTTTCTCTTTA
Found at i:652293 original size:22 final size:22
Alignment explanation
Indices: 652258--652302 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
652248 GGGCATGGGA
* * *
652258 CGAGTCTGGGTTGGGTCTAGAT
1 CGAGTCTAGATTGGATCTAGAT
*
652280 CGAGTCTAGATTGGATCTGGAT
1 CGAGTCTAGATTGGATCTAGAT
652302 C
1 C
652303 TTGGGTCGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.31
Consensus pattern (22 bp):
CGAGTCTAGATTGGATCTAGAT
Found at i:652460 original size:3 final size:3
Alignment explanation
Indices: 652445--652494 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
652435 GCAAAAATGT
* *
652445 ATA ATA GTA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
652493 AT
1 AT
652495 TGTTTTAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:660530 original size:14 final size:16
Alignment explanation
Indices: 660491--660533 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
660481 AAAAGTAATT
*
660491 AAGAATGAAAATATAG
1 AAGATTGAAAATATAG
*
660507 AAGATTGAAAATGTA-
1 AAGATTGAAAATATAG
660522 AAG-TTGAAAATA
1 AAGATTGAAAATA
660534 ACTATGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 13 0.54
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (16 bp):
AAGATTGAAAATATAG
Found at i:669653 original size:26 final size:26
Alignment explanation
Indices: 669621--669673 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
669611 GAAATTTGGT
* *
669621 TCCTAAATCATTTTTTTCAACTTTTG
1 TCCTAAATCATTCTATTCAACTTTTG
669647 TCCTAAATCATTCTATTCAACTTTTG
1 TCCTAAATCATTCTATTCAACTTTTG
669673 T
1 T
669674 GAAATCCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.51
Consensus pattern (26 bp):
TCCTAAATCATTCTATTCAACTTTTG
Found at i:674461 original size:28 final size:27
Alignment explanation
Indices: 674420--674472 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
674410 CTATTTTTTC
*
674420 TTTTTTTTTATTCTCTTTTTCTTTCCT
1 TTTTTTTTTATTCTCTTTTTATTTCCT
* *
674447 TTTTTTTTGTTTTCTTTTTTTATTTC
1 TTTTTTTT-TATTCTCTTTTTATTTC
674473 AAATTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (27 bp):
TTTTTTTTTATTCTCTTTTTATTTCCT
Found at i:678367 original size:21 final size:21
Alignment explanation
Indices: 678341--678380 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
678331 CAGAACCCTA
*
678341 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
678362 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
678381 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:678409 original size:20 final size:21
Alignment explanation
Indices: 678363--678423 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
678353 TTCCCCTGTG
678363 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
678386 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
678406 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
678424 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:684795 original size:134 final size:134
Alignment explanation
Indices: 684611--684887 Score: 313
Period size: 134 Copynumber: 2.1 Consensus size: 134
684601 ACTGGCTATA
* * ** *
684611 TTTAGGGATGATGATAACACGATTCCTATGCGATAAGGACGGCTGGTTATCTAAGGTTAACGCAG
1 TTTAGGGATGATGATAACACGATTCCTACGCGATAAGGACGACTAATTATCTAAGGGTAACGCAG
* * * * **
684676 CTCCTACGTGATGAGGATAACTGGTCGGTGGATGACACATTTCGTATGCGATGAAGATGGTTGGC
66 CTCCTACGTGATGAGGAGAACTAGTCGGTGGATGACACAGTTCCTACACGATGAAGATGGTTGGC
684741 CATC
131 CATC
* * * * * *
684745 TTTAGGGATGATGATAACATTG-TTCCTACGTGATGAGGATGACTAATTATCTAAGGGTGATGCA
1 TTTAGGGATGATGATAACA-CGATTCCTACGCGATAAGGACGACTAATTATCTAAGGGTAACGCA
** * * * * *
684809 TTTCCTACGTGCTGAGGAGATCTAGTCGGTGGATGACACGGTTCCTACATGATGAGGATGGTTGG
65 GCTCCTACGTGATGAGGAGAACTAGTCGGTGGATGACACAGTTCCTACACGATGAAGATGGTTGG
684874 CCATC
130 CCATC
*
684879 TTTAAGGAT
1 TTTAGGGAT
684888 AATATTTCAA
Statistics
Matches: 117, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
134 116 0.99
135 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (134 bp):
TTTAGGGATGATGATAACACGATTCCTACGCGATAAGGACGACTAATTATCTAAGGGTAACGCAG
CTCCTACGTGATGAGGAGAACTAGTCGGTGGATGACACAGTTCCTACACGATGAAGATGGTTGGC
CATC
Found at i:684997 original size:65 final size:65
Alignment explanation
Indices: 684892--685269 Score: 363
Period size: 65 Copynumber: 5.8 Consensus size: 65
684882 AAGGATAATA
* **
684892 TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-ACTCTCAAAGATGAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGA-TCTCAAAGATGAT
684956 G
65 G
* * * * * *
684957 TTTCAAGAGAAACTGTATCAATAGAGACAAAATTCCTTTCAAGGGAGACTAGA-CTTAAAGATCT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAAC--GATCTCAAAGAT-G
*
685021 TTG
63 ATG
* * * * * *
685024 TTTCAAGAGAAACTGTTTGAAGGGAGACAAAATTCATTTTAA-GGAAACGATCTCAATGGTGATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
* * *
685088 TTTCAAGAGAAACTATCT-ACAGAGAGATAAAATTCTTTTCAAGGGAAACGATCTCAAAGATGAT
1 TTTCAAGAGAAACTGTCTCA-AGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGAT
685152 G
65 G
* * * * *
685153 TTTCAAGAGAAATTGTCTCGAA-ATAGACAAAATTCATTTCACGGGAAACGAGACTTAAAGAT-A
1 TTTCAAGAGAAACTGTCTC-AAGAGAGACAAAATTCATTTCAAGGGAAACGA-TCTCAAAGATGA
685216 TTTG
64 --TG
* * * **
685220 TTTCAAGAGAAGCTATCTAAAGAGAGACAAAACTTTGTTTCAAGGGAAAC
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAAC
685270 ATAATCTACT
Statistics
Matches: 254, Mismatches: 45, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
63 1 0.00
64 38 0.15
65 111 0.44
66 24 0.09
67 65 0.26
68 15 0.06
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
Found at i:685128 original size:131 final size:131
Alignment explanation
Indices: 684892--685266 Score: 345
Period size: 132 Copynumber: 2.8 Consensus size: 131
684882 AAGGATAATA
**
684892 TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACACTCTCAAAGATGATG
1 TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTCATTTCAAGGGAAACACTCTCAAAGATGATG
*
684957 TTTCAAGAGAAACTGTATCAATAGAGACAAAATTCCTTTCAAGGGAGACTAGACTTAAAGATCTT
66 TTTCAAGAGAAAC-GTATCAAGAGAGACAAAATTCCTTTCAAGGGAGACTAGACTTAAAGATCTT
685022 TG
130 TG
** * * * * *
685024 TTTCAAGAGAAACTGTTTGAAGGGAGACAAAATTCATTTTAA-GGAAACGA-TCTCAATGGTGAT
1 TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTCATTTCAAGGGAAAC-ACTCTCAAAGATGAT
* * * *
685087 GTTTCAAGAGAAAC-TATCTACAGAGAGATAAAATTCTTTTCAAGGGAAAC--GATCTCAAAGAT
65 GTTTCAAGAGAAACGTATC-A-AGAGAGACAAAATTCCTTTCAAGGGAGACTAGA-CTTAAAGAT
**
685149 -GATG
127 CTTTG
* * * * ** *
685153 TTTCAAGAGAAATTGTCTCGAA-ATAGACAAAATTCATTTCACGGGAAACGAGACTTAAAGAT-A
1 TTTCAAGAGAAACTGCCTC-AAGAGAGACAAAATTCATTTCAAGGGAAAC-ACTCTCAAAGATGA
* **
685216 TTTGTTTCAAGAGAAGC-TATCTAAAGAGAGACAAAACTTTGTTTCAAGGGA
64 --TGTTTCAAGAGAAACGTATC--AAGAGAGACAAAA-TTCCTTTCAAGGGA
685267 AACATAATCT
Statistics
Matches: 200, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
129 40 0.20
130 20 0.10
131 62 0.31
132 65 0.32
133 13 0.06
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (131 bp):
TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTCATTTCAAGGGAAACACTCTCAAAGATGATG
TTTCAAGAGAAACGTATCAAGAGAGACAAAATTCCTTTCAAGGGAGACTAGACTTAAAGATCTTT
G
Found at i:685249 original size:196 final size:196
Alignment explanation
Indices: 684892--685251 Score: 512
Period size: 196 Copynumber: 1.8 Consensus size: 196
684882 AAGGATAATA
*
684892 TTTCAAGAGAAACTGCCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACACTCTCAAAGATGATG
1 TTTCAAGAGAAACTACCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACACTCTCAAAGATGATG
* * * *
684957 TTTCAAGAGAAACTGTATCAATAGAGACAAAATTCCTTTCAAGGGAGACTAGACTTAAAGATCTT
66 TTTCAAGAGAAACTGTATCAATAGAGACAAAATTCATTTCAAGGGAAACGAGACTTAAAGATATT
* * * *
685022 TGTTTCAAGAGAAACTGTTTGAAGGGAGACAAAATTCATTTTAAGGAAACGATCTCAATGGTGAT
131 TGTTTCAAGAGAAACTATCTAAAGAGAGACAAAATTCATTTTAAGGAAACGATCTCAATGGTGAT
685087 G
196 G
* *
685088 TTTCAAGAGAAACTATCT-ACAGAGAGATAAAATTCT-TTTCAAGGGAAACGA-TCTCAAAGATG
1 TTTCAAGAGAAACTACCTCA-AGAGAGACAAAATT-TGTTTCAAGGGAAAC-ACTCTCAAAGATG
* * * *
685150 ATGTTTCAAGAGAAATTGTCTCGAA-ATAGACAAAATTCATTTCACGGGAAACGAGACTTAAAGA
63 ATGTTTCAAGAGAAACTGTATC-AATAGAGACAAAATTCATTTCAAGGGAAACGAGACTTAAAGA
*
685214 TATTTGTTTCAAGAGAAGCTATCTAAAGAGAGACAAAA
127 TATTTGTTTCAAGAGAAACTATCTAAAGAGAGACAAAA
685252 CTTTGTTTCA
Statistics
Matches: 144, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
195 1 0.01
196 139 0.97
197 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (196 bp):
TTTCAAGAGAAACTACCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACACTCTCAAAGATGATG
TTTCAAGAGAAACTGTATCAATAGAGACAAAATTCATTTCAAGGGAAACGAGACTTAAAGATATT
TGTTTCAAGAGAAACTATCTAAAGAGAGACAAAATTCATTTTAAGGAAACGATCTCAATGGTGAT
G
Found at i:691618 original size:3 final size:3
Alignment explanation
Indices: 691610--691635 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
691600 ATAAAAATGT
691610 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
691636 TTTTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:709348 original size:17 final size:18
Alignment explanation
Indices: 709320--709353 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
709310 TCATGTTTCA
709320 AATAACTTTATAAAATAT
1 AATAACTTTATAAAATAT
*
709338 AATAA-TTTATACAATA
1 AATAACTTTATAAAATA
709354 AAAACCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAACTTTATAAAATAT
Found at i:710868 original size:18 final size:18
Alignment explanation
Indices: 710845--710879 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
710835 TAGCACTAGG
*
710845 GTCGGGTCAACGGGTCGA
1 GTCGGGTCAACGAGTCGA
710863 GTCGGGTCAACGAGTCG
1 GTCGGGTCAACGAGTCG
710880 GGTTAACAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:717697 original size:19 final size:19
Alignment explanation
Indices: 717673--717715 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
717663 AGATAAGGCT
717673 AAGACTGAAGGTGGAACTG
1 AAGACTGAAGGTGGAACTG
717692 AAGACTGAAGGTGGAACTG
1 AAGACTGAAGGTGGAACTG
717711 AAGAC
1 AAGAC
717716 GATGGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.35, T:0.14
Consensus pattern (19 bp):
AAGACTGAAGGTGGAACTG
Found at i:721652 original size:13 final size:13
Alignment explanation
Indices: 721631--721698 Score: 84
Period size: 13 Copynumber: 5.2 Consensus size: 13
721621 AATGACACGC
721631 AATGCGCGTCATA
1 AATGCGCGTCATA
*
721644 AATGTGCGTCATA
1 AATGCGCGTCATA
*
721657 AATGTGTC-TCATA
1 AATGCG-CGTCATA
*
721670 AATGCGTGTCATA
1 AATGCGCGTCATA
*
721683 AATGCGCATCATA
1 AATGCGCGTCATA
721696 AAT
1 AAT
721699 TTATGACACA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
13 47 0.98
14 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:721656 original size:83 final size:83
Alignment explanation
Indices: 721496--721659 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 83
721486 ATATACTCTC
* * *
721496 TGACACACAATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATGACAAGCAATGTAATTCATA
1 TGACACACAATGTGTGTCATCTTCATTTATGAC-AGGACTTCAATGACAAGCAATGCAAGTCATA
* *
721561 CATGCGTGTCATAAATTTA
65 AATGCGCGTCATAAATTTA
* * * **
721580 TGACACACAAATGTGTGTCATCTTCATTTATGA-ATGACTTTAATGACACGCAATGCGCGTCATA
1 TGACACAC-AATGTGTGTCATCTTCATTTATGACAGGACTTCAATGACAAGCAATGCAAGTCATA
*
721644 AATGTGCGTCATAAAT
65 AATGCGCGTCATAAAT
721660 GTGTCTCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 36 0.53
84 8 0.12
85 24 0.35
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (83 bp):
TGACACACAATGTGTGTCATCTTCATTTATGACAGGACTTCAATGACAAGCAATGCAAGTCATAA
ATGCGCGTCATAAATTTA
Found at i:726528 original size:13 final size:13
Alignment explanation
Indices: 726510--726534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
726500 AATGAATTTT
726510 AAGATTTTCTAAA
1 AAGATTTTCTAAA
726523 AAGATTTTCTAA
1 AAGATTTTCTAA
726535 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:735678 original size:20 final size:20
Alignment explanation
Indices: 735655--735705 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
735645 TATATTTTTA
735655 TATTTTATATTTGTTTTAGG
1 TATTTTATATTTGTTTTAGG
*
735675 TATTTTATCTTTGTTTTAGG
1 TATTTTATATTTGTTTTAGG
735695 TATTTTA-ATTT
1 TATTTTATATTT
735706 AAATAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.67
Consensus pattern (20 bp):
TATTTTATATTTGTTTTAGG
Found at i:736394 original size:17 final size:18
Alignment explanation
Indices: 736372--736413 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
736362 CTTTAAATTA
736372 TTTATTTAATTATT-TAT
1 TTTATTTAATTATTATAT
*
736389 TTTATTTAATTATTATCT
1 TTTATTTAATTATTATAT
736407 TTTATTT
1 TTTATTT
736414 TAAAACCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:736467 original size:27 final size:28
Alignment explanation
Indices: 736437--736510 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
736427 TAAAAACCCC
*
736437 TTTTTATTTTACTGTTATTATTTATTAT
1 TTTTTATTTTACTCTTATTATTTATTAT
*
736465 TTTATTATTTT-CCCTT-TTATTTATTAT
1 TTT-TTATTTTACTCTTATTATTTATTAT
* *
736492 TTTCTATTTTA-TTTTATTA
1 TTTTTATTTTACTCTTATTA
736511 AATCTTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 8 0.21
27 17 0.45
28 6 0.16
29 7 0.18
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (28 bp):
TTTTTATTTTACTCTTATTATTTATTAT
Found at i:736489 original size:19 final size:20
Alignment explanation
Indices: 736461--736510 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
736451 TTATTATTTA
*
736461 TTATTTTATTATTTTCCCTT
1 TTATTTTATTATTTTCCATT
*
736481 TTA-TTTATTATTTTCTATT
1 TTATTTTATTATTTTCCATT
736500 TTATTTTATTA
1 TTATTTTATTA
736511 AATCTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTATTATTTTCCATT
Found at i:746002 original size:11 final size:11
Alignment explanation
Indices: 745977--746081 Score: 57
Period size: 10 Copynumber: 9.9 Consensus size: 11
745967 TCTATTTTAT
745977 ATTTTA-TTTC
1 ATTTTATTTTC
745987 ATTTTATTTTC
1 ATTTTATTTTC
*
745998 GTTTTA-TTTC
1 ATTTTATTTTC
746008 A-TTT-TTTT-
1 ATTTTATTTTC
*
746016 ATTATATTTTTAAC
1 ATTTTA-TTTT--C
*
746030 AAACTTTATTTTC
1 --ATTTTATTTTC
*
746043 ATTCTA-TTT-
1 ATTTTATTTTC
746052 ATTTTATTTTC
1 ATTTTATTTTC
*
746063 A-TTAATTTT-
1 ATTTTATTTTC
746072 ATTTTATTTT
1 ATTTTATTTT
746082 TTCTCAGAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
8 1 0.01
9 14 0.19
10 30 0.42
11 18 0.25
13 1 0.01
15 4 0.06
16 4 0.06
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.69
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:746059 original size:20 final size:20
Alignment explanation
Indices: 746034--746081 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
746024 TTTAACAAAC
*
746034 TTTATTTTCATT-CTATTTAT
1 TTTATTTTCATTAAT-TTTAT
746054 TTTATTTTCATTAATTTTAT
1 TTTATTTTCATTAATTTTAT
746074 TTTATTTT
1 TTTATTTT
746082 TTCTCAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTTCATTAATTTTAT
Found at i:748046 original size:76 final size:72
Alignment explanation
Indices: 747959--748156 Score: 245
Period size: 72 Copynumber: 2.7 Consensus size: 72
747949 TTTTATCTTT
* * * * *
747959 GTATTTAAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATGTTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGATGTTA-TTTTAAATATTA-
*
748024 CATTGTTTTAG
64 -AAT-TTTTAG
* * * *
748035 GTATTTTAGTTTAAATAGGTTTTAGAATCTTAATTAGGATTTAGAATATTATTTTAAATATTAAA
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGATGTTATTTTAAATATTAAA
748100 TTTTTAG
66 TTTTTAG
*
748107 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTAGGATGTT
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGGATGTT
748157 TTAGCTTGTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
71 5 0.05
72 45 0.42
73 2 0.02
75 10 0.09
76 44 0.42
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (72 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGATGTTATTTTAAATATTAAA
TTTTTAG
Found at i:748072 original size:19 final size:19
Alignment explanation
Indices: 748045--748081 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
748035 GTATTTTAGT
*
748045 TTAAATAGGTTTTAGAATC
1 TTAAATAGGATTTAGAATC
*
748064 TTAATTAGGATTTAGAAT
1 TTAAATAGGATTTAGAAT
748082 ATTATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTAAATAGGATTTAGAATC
Found at i:748140 original size:72 final size:75
Alignment explanation
Indices: 747959--748150 Score: 239
Period size: 76 Copynumber: 2.6 Consensus size: 75
747949 TTTTATCTTT
* * * * * * *
747959 GTATTTAAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATGTTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTA-
*
748024 CATTGTTTTAG
65 CAATGTTTTAG
* *
748035 GTATTTTAGTTTAAATAGGTTTTAGAATCTTAATTAGGATTTAGAATATTA-TTTTAAATATTA-
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTAC
748098 AAT-TTTTAG
66 AATGTTTTAG
*
748107 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTAG
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAG
748151 GATGTTTTAG
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 5 0.05
72 41 0.40
73 2 0.02
75 10 0.10
76 44 0.43
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (75 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTAC
AATGTTTTAG
Found at i:748869 original size:19 final size:20
Alignment explanation
Indices: 748829--748878 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
748819 CTATTATTTA
* *
748829 TTATTTTATTATTTTCGCTT
1 TTATTTTATTATTGTCGATT
*
748849 TTA-TTTATTATTGTCTATT
1 TTATTTTATTATTGTCGATT
748868 TTATTTTATTA
1 TTATTTTATTA
748879 AATATTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTATTATTGTCGATT
Found at i:755177 original size:22 final size:20
Alignment explanation
Indices: 755142--755185 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
755132 AAAATAAAAT
*
755142 AATAAAAATGAATTAATTATC
1 AATAAAAATCAATTAATT-TC
*
755163 AATATAAAATCAATTTATTTC
1 AATA-AAAATCAATTAATTTC
755184 AA
1 AA
755186 GTTCACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAAAAATCAATTAATTTC
Found at i:757378 original size:133 final size:133
Alignment explanation
Indices: 757113--757449 Score: 417
Period size: 133 Copynumber: 2.5 Consensus size: 133
757103 GTTCTGGTCG
* ** * **
757113 TCTAAGGGTGACACGTCTCCTACGTGATGAGGAGATTTTGTCGGTGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACGCAACTCCTACGTGATGAGGAGA-TTTGTCGGTGGATGACCCAATTCCTACGT
*
757178 GATGAGGATAGCTAGCCATCTTTAGGGATGATGATAACACAGTTCCTACACGATGAGGACGGCTG
65 GATGAAGATAGCTAGCCATCTTTAGGGATGATGATAACACAGTTCCTACACGATGAGGACGGCTG
757243 GTTA
130 GTTA
* * * * *
757247 TTTAAGGTTGATGCAACTCTTACGTGATGAGGAGATATTGTCGGTGGATGACCCAATTCCTACAT
1 TCTAAGGGTGACGCAACTCCTACGTGATGAGGAGAT-TTGTCGGTGGATGACCCAATTCCTACGT
* ** ** *
757312 GATGAAGATA-CTAGCCATGTTTAGGGATGATGATAACATGGTTCCTACGTGATGAGGATGGCTG
65 GATGAAGATAGCTAGCCATCTTTAGGGATGATGATAACACAGTTCCTACACGATGAGGACGGCTG
757376 GTTA
130 GTTA
*** * *
757380 TCTAAGGGTGACGTGGCTCCTACGTGATGAGGAGATCTGATCGGTGGATGACACGAA-TCCTACG
1 TCTAAGGGTGACGCAACTCCTACGTGATGAGGAGATTTG-TCGGTGGATGAC-CCAATTCCTACG
757444 TGATGA
64 TGATGA
757450 GGATGGATGA
Statistics
Matches: 172, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
132 2 0.01
133 106 0.62
134 64 0.37
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (133 bp):
TCTAAGGGTGACGCAACTCCTACGTGATGAGGAGATTTGTCGGTGGATGACCCAATTCCTACGTG
ATGAAGATAGCTAGCCATCTTTAGGGATGATGATAACACAGTTCCTACACGATGAGGACGGCTGG
TTA
Found at i:757694 original size:65 final size:65
Alignment explanation
Indices: 757473--757855 Score: 390
Period size: 65 Copynumber: 5.8 Consensus size: 65
757463 TTTAGGGATA
* * * * * * *
757473 ATGTTTCAGGAGAAACTGTCTTAAAAGAGACAAAATTCATTTCAAGAGAAACGATCTCAAATTTG
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGATCTCAAATATG
* * * * * *
757538 ATGTTTCAAGAGAAACTGTCTCAAGAGATAAAAAAAATTTGTTTCAAGGGAAATGAAACCCAAAG
1 ATGTTTCAAGAGAAACTGTCTCAAGAG--AGAAAAAATTCGTTTCAAGGGAAACG-ATCTCAAAT
*
757603 ATCT
63 AT-G
* * * * *
757607 TTGTTTCAAGAGAAACTATCTCAAGAGAGATAAACTTCATTTCAAGGGAAACGATCTCAAATATG
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGATCTCAAATATG
* * *
757672 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAGTT-GTTTCAAGGGAAACAATCTAAAATAT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGA-AAAAATTCGTTTCAAGGGAAACGATCTCAAATAT
757736 G
65 G
* * * *
757737 ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGAGACTCAAAGAT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGA-TCTCAAATAT
*
757802 CT
65 -G
* * * * * *
757804 TTATTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTTGTTTCAATGGAAA
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGA-AAAAATTCGTTTCAAGGGAAA
757856 TAAACTAATA
Statistics
Matches: 260, Mismatches: 49, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
64 6 0.02
65 119 0.46
66 20 0.08
67 65 0.25
68 25 0.10
69 25 0.10
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (65 bp):
ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGATCTCAAATATG
Found at i:757831 original size:130 final size:131
Alignment explanation
Indices: 757473--757855 Score: 401
Period size: 134 Copynumber: 2.9 Consensus size: 131
757463 TTTAGGGATA
* * * * * * * * **
757473 ATGTTTCAGGAGAAACTGTCTTAAAAGAGACAAAATTCATTTCAAGAGAAACGATCTCAAATTTG
1 ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCATTTCAAGGGAAACGAACTCAAAGATG
* * * * ** * * *
757538 ATGTTTCAAGAGAAACTGTCTCAAGAGATAAAAAAAATTTGTTTCAAGGGAAATGAAACCCAAAG
66 ATATTTCAAGAGAAACTGACTCAAGAGA-GACAAAACGTTGTTTCAAGGGAAA--CAATCTAAA-
*
757603 ATCT-
127 ATATG
* * * * * *
757607 TTGTTTCAAGAGAAACTATCTCAAGAGAGATAAACTTCATTTCAAGGGAAACGATCTCAAATATG
1 ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCATTTCAAGGGAAACGAACTCAAAGATG
* *
757672 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-GTTGTTTCAAGGGAAACAATCTAAAATAT
66 ATATTTCAAGAGAAACTGACTCAAGAGAGACAAAACGTTGTTTCAAGGGAAACAATCTAAAATAT
757736 G
131 G
*
757737 ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCGTTTCAAGGGAAACGAGACTCAAAGAT
1 ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCATTTCAAGGGAAACGA-ACTCAAAGAT
** * *
757802 CTTTATTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTTGTTTCAATGGAAA
65 -GATATTTCAAGAGAAACTGACTCAAGAGAGACAAAACGTTGTTTCAAGGGAAA
757856 TAAACTAATA
Statistics
Matches: 216, Mismatches: 29, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
129 3 0.01
130 55 0.25
131 8 0.04
132 47 0.22
133 19 0.09
134 84 0.39
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (131 bp):
ATGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTCATTTCAAGGGAAACGAACTCAAAGATG
ATATTTCAAGAGAAACTGACTCAAGAGAGACAAAACGTTGTTTCAAGGGAAACAATCTAAAATAT
G
Found at i:757880 original size:199 final size:198
Alignment explanation
Indices: 757473--757863 Score: 509
Period size: 199 Copynumber: 2.0 Consensus size: 198
757463 TTTAGGGATA
* * * * *
757473 ATGTTTCAGGAGAAACTGTCTTAAAAGAGACAAAATTCATTTCAAGAGAAACGATCTCAAATTTG
1 ATGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTCATTTCAAGAGAAACAATCTAAAATATG
* * * *
757538 ATGTTTCAAGAGAAACTGTCTCAAGAGATAAAAAAAATTTGTTTCAAGGGAAATGAAACCCAAAG
66 ATGTTTCAAGAGAAACTATATCAAGAGA-AAAAAAAATTCGTTTCAAGGGAAACGAAACCCAAAG
* * * * *
757603 ATCTTTGTTTCAAGAGAAACTATCTCAAGAGAGATAAACTTCATTTCAAGGGAAACGATCTCAAA
130 ATCTTTATTTCAAGAGAAACTATCTCAAGAGAGAAAAACTTCATTTCAAGGGAAACAAACTAAAA
757668 TATG
195 TATG
* * *
757672 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAGTT-GTTTCAAGGGAAACAATCTAAAATAT
1 ATGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAA-TTCATTTCAAGAGAAACAATCTAAAATAT
* * *
757736 GATGTTTCAAGAGAAACTATATCAAGAG-AGAAAAAATTCGTTTCAAGGGAAACGAGACTCAAAG
65 GATGTTTCAAGAGAAACTATATCAAGAGAAAAAAAAATTCGTTTCAAGGGAAACGAAACCCAAAG
** * *
757800 ATCTTTATTTCAAGAGAAACTGA-CTCAAGAGAGACAAAACTTTGTTTCAATGGAAATAAACTAA
130 ATCTTTATTTCAAGAGAAACT-ATCTCAAGAGAGA-AAAACTTCATTTCAAGGGAAACAAACTAA
757864 TAGATTTTTG
Statistics
Matches: 165, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
197 62 0.38
198 22 0.13
199 79 0.48
200 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (198 bp):
ATGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTCATTTCAAGAGAAACAATCTAAAATATG
ATGTTTCAAGAGAAACTATATCAAGAGAAAAAAAAATTCGTTTCAAGGGAAACGAAACCCAAAGA
TCTTTATTTCAAGAGAAACTATCTCAAGAGAGAAAAACTTCATTTCAAGGGAAACAAACTAAAAT
ATG
Found at i:764750 original size:2 final size:2
Alignment explanation
Indices: 764743--764777 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
764733 ATATGTGTAA
764743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
764778 GTTATATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:765389 original size:17 final size:17
Alignment explanation
Indices: 765369--765401 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
765359 AAAAAAGGAA
765369 AAAAAAAGAAAACAAAC
1 AAAAAAAGAAAACAAAC
*
765386 AAAAAAATAAAACAAA
1 AAAAAAAGAAAACAAA
765402 AAGGGGTATA
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:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAACAAAC
Found at i:770857 original size:20 final size:19
Alignment explanation
Indices: 770816--770877 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
770806 ACACCTTGCA
*
770816 TTTTACATATGCATTTTA-C
1 TTTTACAT-CGCATTTTATC
770835 TTTTCACATCGCATTTTATC
1 TTTT-ACATCGCATTTTATC
**
770855 TTTTACATTTCATTTTATTC
1 TTTTACATCGCATTTTA-TC
770875 TTT
1 TTT
770878 CATAGTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 23 0.62
20 14 0.38
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTACATCGCATTTTATC
Found at i:773161 original size:15 final size:15
Alignment explanation
Indices: 773137--773167 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
773127 ATACTAAAGG
773137 AAGGGCATCGATACT
1 AAGGGCATCGATACT
*
773152 AAGGGTATCGATACT
1 AAGGGCATCGATACT
773167 A
1 A
773168 TTGTATAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (15 bp):
AAGGGCATCGATACT
Found at i:773761 original size:45 final size:46
Alignment explanation
Indices: 773679--773782 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 46
773669 GCTATGTGAC
* * *
773679 CATAATCTATGTGTTATGTGATCTATGTGATTATATGAAAATATGA
1 CATAAGCTATGTGTTATGTGACCTAAGTGATTATATGAAAATATGA
* * * *
773725 TATAAGCTATGTGTTAT-TGACCTAAGTGATTATATGAACATGTGC
1 CATAAGCTATGTGTTATGTGACCTAAGTGATTATATGAAAATATGA
773770 CATAAGCTATGTG
1 CATAAGCTATGTG
773783 ATAAAGATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
45 35 0.70
46 15 0.30
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (46 bp):
CATAAGCTATGTGTTATGTGACCTAAGTGATTATATGAAAATATGA
Found at i:773803 original size:45 final size:45
Alignment explanation
Indices: 773698--773805 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
773688 TGTGTTATGT
* * **
773698 GATCTATGTGATTATATGAAAATATGATATAAGCTATGTGTTATT
1 GATCTATGTGATTATATGAAAATATGACATAAGCTATGTGATAAA
* * * * *
773743 GACCTAAGTGATTATATGAACATGTGCCATAAGCTATGTGATAAA
1 GATCTATGTGATTATATGAAAATATGACATAAGCTATGTGATAAA
*
773788 GATCTATGTGTTTATATG
1 GATCTATGTGATTATATG
773806 TCTATCTGAT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (45 bp):
GATCTATGTGATTATATGAAAATATGACATAAGCTATGTGATAAA
Found at i:780674 original size:16 final size:17
Alignment explanation
Indices: 780643--780678 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
780633 GTGAATAAGA
780643 AAAAGAAACAAAAAAAT
1 AAAAGAAACAAAAAAAT
*
780660 AAAAGAAA-TAAAAAAT
1 AAAAGAAACAAAAAAAT
780676 AAA
1 AAA
780679 TAAAAAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAGAAACAAAAAAAT
Found at i:782377 original size:134 final size:133
Alignment explanation
Indices: 782058--782451 Score: 412
Period size: 134 Copynumber: 3.0 Consensus size: 133
782048 ATCTGGTTTT
* * *
782058 CCCTAAAGAGTAGTGGAGAAGATCCTCTTTCTATT-AGATTTGGTCTTCCTAAAGAGTAGCAAAG
1 CCCTAAAGAGTAGTGGAGCAGATCTTC-TTCT-TTCAGATTTGGTCTTCCTAAAGAGTAGCGAAG
* * * * * *
782122 CAAATCAAGTTCGATTCAA-TTTTCCATAAAGAGCA-ACGAAGTGAAT-AAAACAATTTCAAGAT
64 CAAATCAAGTTCGATTCAACCTTTCC-TGAAGAGCAGA--AAGTGGATCAAAAAAAATTCGAGAT
* *
782184 ATG-ATTA
126 CTGAACTA
* * * * *
782191 CCCGAAA-A--AGTGGAGCAGACTCTTTTTCTTTCAGATTTGATCTTCCTGAAGAGTAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGA-TCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGCGAAGC
*
782253 AAAT-AATGTTCAATTCAACCTTTCCTGAAGAGCAGTAAAGTGGATCAAAAAAAATTCGAG-TCT
65 AAATCAA-GTTCGATTCAACCTTTCCTGAAGAGCAG-AAAGTGGATCAAAAAAAATTCGAGATCT
*
782316 GAACTC
128 GAACTA
* * *
782322 CCCTAAAGAGTAGTGGATCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAACGAAGC
1 CCCTAAAGAGTAGTGGAGCAGA-TCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGCGAAGC
* ** *
782387 AAATCAAGTTCGATTCAACCTTCCCTGAAGAGCAGCGAGTGGATCAAAAAAAATTTGAGATCTGA
65 AAATCAAGTTCGATTCAACCTTTCCTGAAGAGCAGAAAGTGGATCAAAAAAAATTCGAGATCTGA
782452 TTGATCCCTA
Statistics
Matches: 216, Mismatches: 32, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
129 4 0.02
130 72 0.33
131 27 0.12
132 3 0.01
133 27 0.12
134 81 0.38
135 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (133 bp):
CCCTAAAGAGTAGTGGAGCAGATCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGTAGCGAAGCA
AATCAAGTTCGATTCAACCTTTCCTGAAGAGCAGAAAGTGGATCAAAAAAAATTCGAGATCTGAA
CTA
Found at i:782789 original size:6 final size:6
Alignment explanation
Indices: 782780--782823 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
782770 TATTTGTAAT
* * *
782780 TAAATA TAAATA TAAGTA TAAATA TAAATA TAAACA AAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TA
782824 TATTATGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (6 bp):
TAAATA
Found at i:783400 original size:20 final size:19
Alignment explanation
Indices: 783375--783419 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
783365 CAGAGATATA
783375 AAAAAAATAAAAAAACAAAC
1 AAAAAAAT-AAAAAACAAAC
*
783395 AAAAAAATAAAAAACAAAT
1 AAAAAAATAAAAAACAAAC
783414 AAAAAA
1 AAAAAA
783420 GGGGAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAAAAATAAAAAACAAAC
Found at i:783413 original size:11 final size:10
Alignment explanation
Indices: 783374--783419 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
783364 ACAGAGATAT
783374 AAAAAAAATA
1 AAAAAAAATA
783384 AAAAAACAA-A
1 AAAAAA-AATA
*
783394 CAAAAAAATA
1 AAAAAAAATA
783404 AAAAACAAATA
1 AAAAA-AAATA
783415 AAAAA
1 AAAAA
783420 GGGGAACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 2 0.06
10 17 0.55
11 12 0.39
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:788184 original size:10 final size:10
Alignment explanation
Indices: 788128--788189 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
788118 ATCCCTTCTC
788128 TTTTAATTTCA
1 TTTTAATTT-A
**
788139 TTTTAATTCC
1 TTTTAATTTA
*
788149 TTTTAAATTAGA
1 TTTT-AATT-TA
788161 TCTTTAACTTTA
1 T-TTTAA-TTTA
788173 TTTTAATTTA
1 TTTTAATTTA
788183 TTTTAAT
1 TTTTAAT
788190 CAGTTTTCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 15 0.36
11 17 0.40
12 5 0.12
13 5 0.12
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:792931 original size:37 final size:37
Alignment explanation
Indices: 792889--793066 Score: 109
Period size: 37 Copynumber: 5.1 Consensus size: 37
792879 CGACGAGCTA
792889 TTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGAT
1 TTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGAT
* * * *
792926 TTTTCTAGCTTAACTCAA-CAACA-A--G---G-AGCT
1 TTTTCTAGC-CAACTTAACCCACAGAGGGTTTGTAGAT
*
792956 ATTTTCTAGCCAACTAAACCCACAGAGGGTTTGTAGAT
1 -TTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGAT
* * * * *
792994 TTTTCTAG----CTTAACTCAACA-A-CG--AGAAGCT
1 TTTTCTAGCCAACTTAAC-CCACAGAGGGTTTGTAGAT
*
793024 ATTTTCAAGCCAACTTAACCCACAGAGGGTTTGTAGAT
1 -TTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGAT
793062 TTTTC
1 TTTTC
793067 AAGTCAAATT
Statistics
Matches: 101, Mismatches: 20, Indels: 40
0.63 0.12 0.25
Matches are distributed among these distances:
30 13 0.13
31 21 0.21
32 2 0.02
33 6 0.06
34 10 0.10
35 7 0.07
36 2 0.02
37 27 0.27
38 13 0.13
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (37 bp):
TTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGAT
Found at i:792955 original size:68 final size:68
Alignment explanation
Indices: 792863--793066 Score: 354
Period size: 68 Copynumber: 3.0 Consensus size: 68
792853 TTCCTCAATA
* *
792863 TAGCTTAACTCAATAACGACGAGCTATTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
1 TAGCTTAACTCAACAACGAGGAGCTATTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
792928 TTC
66 TTC
* *
792931 TAGCTTAACTCAACAACAAGGAGCTATTTTCTAGCCAACTAAACCCACAGAGGGTTTGTAGATTT
1 TAGCTTAACTCAACAACGAGGAGCTATTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
792996 TTC
66 TTC
* *
792999 TAGCTTAACTCAACAACGAGAAGCTATTTTCAAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
1 TAGCTTAACTCAACAACGAGGAGCTATTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
793064 TTC
66 TTC
793067 AAGTCAAATT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 128 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (68 bp):
TAGCTTAACTCAACAACGAGGAGCTATTTTCTAGCCAACTTAACCCACAGAGGGTTTGTAGATTT
TTC
Found at i:793536 original size:157 final size:159
Alignment explanation
Indices: 793276--793585 Score: 421
Period size: 157 Copynumber: 2.0 Consensus size: 159
793266 CTCAACAACA
* *
793276 ATGAGCTATATTCCAGTAAACTTGACCCATAAAGGGTTGACAGATTATTTTAGTCAAATTTCAAC
1 ATGAGCTATATTCCAGCAAACTTGACCCATAAAGGGTTGACAGATTATTTTAGCCAAATTTCAAC
* * * * * *
793341 TTCATGATGGAGGATATTGAACCCAAAGGACATTCAAATATGACTTAACTCGTAATGGAGGAGTC
66 TTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTAACTCGCAATGAAGGAGTC
*
793406 ATATACAACTTAGCCCAACTCAATAAAAG
131 ATATACAACTCAGCCCAACTCAATAAAAG
* *
793435 ATGAGTTATATTCCAGCAAACTTGACCC-TCAAAGGGTT-AGTAGA-T-TTTTAGCCAAATTTCA
1 ATGAGCTATATTCCAGCAAACTTGACCCAT-AAAGGGTTGA-CAGATTATTTTAGCCAAATTTCA
* * * * *
793496 ACTTTACGAAGAAGGATGTTGGACTCAAAGAACATTCAAATATGACTTAACTTGCAATGAAGGAG
64 ACTTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTAACTCGCAATGAAGGAG
*
793561 TCATATACAACTCAGCTCAACTCAA
129 TCATATACAACTCAGCCCAACTCAA
793586 CGAAGAGGAG
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
157 92 0.70
158 3 0.02
159 37 0.28
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (159 bp):
ATGAGCTATATTCCAGCAAACTTGACCCATAAAGGGTTGACAGATTATTTTAGCCAAATTTCAAC
TTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTAACTCGCAATGAAGGAGTC
ATATACAACTCAGCCCAACTCAATAAAAG
Found at i:793620 original size:157 final size:157
Alignment explanation
Indices: 793323--793671 Score: 385
Period size: 157 Copynumber: 2.2 Consensus size: 157
793313 TGACAGATTA
* * * * *
793323 TTTTAGTCAAATTTCAACTTCATGATGGAGGATATTGAACCCAAAGGACATTCAAATATGACTTA
1 TTTTAGCCAAATTTCAACTTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTA
* * * * *
793388 ACTCGTAATGGAGGAGTCATATACAACTTAGCCCAACTCAATAAAAGATGAGTTATATTCCAGCA
66 ACTCGCAATGAAGGAGTCATATACAACTCAGCCCAACTCAATAAAAGAGGAGTTATATTCCAACA
*
793453 AACTTGACCCTCAAAGGGTTAGTAGAT
131 AACTTAACCCTCAAAGGGTTAGTAGAT
* * * *
793480 TTTTAGCCAAATTTCAACTTTACGAAGAAGGATGTTGGACTCAAAGAACATTCAAATATGACTTA
1 TTTTAGCCAAATTTCAACTTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTA
* * ** *
793545 ACTTGCAATGAAGGAGTCATATACAACTCAGCTCAACTCAA-CGAAGAGGAGTTATTTTCCAAAC
66 ACTCGCAATGAAGGAGTCATATACAACTCAGCCCAACTCAATAAAAGAGGAGTTATATTCC-AAC
** * * * ** *
793609 TGATTTAACCCTTAAGGGGTTAACAAAT
130 AAACTTAACCCTCAAAGGGTTAGTAGAT
* * * * *
793637 TCTGAGTCAGATTTTAACTTCACGAAGAAGGATAT
1 TTTTAGCCAAATTTCAACTTCACGAAGAAGGATAT
793672 CGGGCTTGAA
Statistics
Matches: 156, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
156 15 0.10
157 141 0.90
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (157 bp):
TTTTAGCCAAATTTCAACTTCACGAAGAAGGATATTGAACCCAAAGAACATTCAAATATGACTTA
ACTCGCAATGAAGGAGTCATATACAACTCAGCCCAACTCAATAAAAGAGGAGTTATATTCCAACA
AACTTAACCCTCAAAGGGTTAGTAGAT
Found at i:797106 original size:24 final size:24
Alignment explanation
Indices: 797087--797213 Score: 166
Period size: 24 Copynumber: 5.3 Consensus size: 24
797077 TATCTGATTT
* * *
797087 TTGACTTGAATTCTGATCTGATAC
1 TTGACATGGATTCTGATATGATAC
797111 TTGACATGGATTCTGATATGATA-
1 TTGACATGGATTCTGATATGATAC
*
797134 TCTGACATGGATTCTTATATGATAC
1 T-TGACATGGATTCTGATATGATAC
*
797159 TTGACTTGGATTCTGATATGATAC
1 TTGACATGGATTCTGATATGATAC
* * *
797183 TTGACCTAGATTTTGATATGATAC
1 TTGACATGGATTCTGATATGATAC
797207 TTGACAT
1 TTGACAT
797214 AAATTATGGT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 89 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (24 bp):
TTGACATGGATTCTGATATGATAC
Found at i:797347 original size:35 final size:35
Alignment explanation
Indices: 797297--797363 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
797287 GAATACCTGG
*
797297 AGGCTCCCCGGCTTTGTGCTCAGGGCCTTACTTGA
1 AGGCTCCCCGACTTTGTGCTCAGGGCCTTACTTGA
*
797332 AGGCTCCTCGACTTTGTGCTCAGGGCCTTACT
1 AGGCTCCCCGACTTTGTGCTCAGGGCCTTACT
797364 GTTCGTGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.30
Consensus pattern (35 bp):
AGGCTCCCCGACTTTGTGCTCAGGGCCTTACTTGA
Found at i:799697 original size:39 final size:42
Alignment explanation
Indices: 799612--799697 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
799602 ATTTTATTAT
* * *
799612 TTTTATTGATTGTATATTTTATTTATTTTTATCATGTATTTAA
1 TTTTATTGATTGAATATTTTATTTATATGTATCA-GTATTTAA
799655 TTTTATTG-TTGAATTATTTTATTT-TATGTATCA-TATTT-A
1 TTTTATTGATTGAA-TATTTTATTTATATGTATCAGTATTTAA
799694 TTTT
1 TTTT
799698 GTATTTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 5 0.13
40 5 0.13
42 11 0.28
43 18 0.46
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (42 bp):
TTTTATTGATTGAATATTTTATTTATATGTATCAGTATTTAA
Found at i:801658 original size:45 final size:45
Alignment explanation
Indices: 801592--801820 Score: 327
Period size: 45 Copynumber: 5.1 Consensus size: 45
801582 CTTGTATCAA
* * *
801592 TTATCCCATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCAT
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
** *
801637 TTAAACCATCAA-CTCGTAAGC-TATTTTAACAATATACTTACCAT
1 TTATTCCAT-AAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* *
801681 TTGTTCCATAAGCTCGTAAGCTTATTTTAACAATATACTTACCAT
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* * *
801726 TTGTTCCATAAGCTCGTAAACTTGTTTTACCAATATACTTACCAT
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
*
801771 TTATTTCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
801816 TTATT
1 TTATT
801821 AAGCAATAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
43 2 0.01
44 36 0.22
45 126 0.76
46 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (45 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
Found at i:806257 original size:28 final size:27
Alignment explanation
Indices: 806214--806281 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
806204 TAATTTACTC
806214 CAAACCCTATAAATTACA-CTATAAACAT
1 CAAACCCTATAAATTACATC-ATAAAC-T
* *
806242 CAAACCCTATACATTATATCATAAACT
1 CAAACCCTATAAATTACATCATAAACT
806269 CTAAACCCTATAA
1 C-AAACCCTATAA
806282 TTTTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 32 0.91
29 1 0.03
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (27 bp):
CAAACCCTATAAATTACATCATAAACT
Found at i:806293 original size:28 final size:27
Alignment explanation
Indices: 806214--806300 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
806204 TAATTTACTC
* *
806214 CAAACCCTATAAATTACACT-ATAAACAT
1 CAAACCCTATACATTATA-TAATAAAC-T
*
806242 CAAACCCTATACATTATATCATAAACT
1 CAAACCCTATACATTATATAATAAACT
* *
806269 CTAAACCCTATA-ATTTTTATAATAATCT
1 C-AAACCCTATACA-TTATATAATAAACT
806297 CAAA
1 CAAA
806301 ACTCTATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 7 0.14
28 44 0.86
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
CAAACCCTATACATTATATAATAAACT
Found at i:806302 original size:28 final size:28
Alignment explanation
Indices: 806210--806307 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
806200 TTTGTAATTT
* * *
806210 ACTCCAAACCCTATAAATTACACT-ATAA
1 ACTCAAAACCCTATACATTATA-TAATAA
*
806238 ACATC-AAACCCTATACATTATATCATAA
1 AC-TCAAAACCCTATACATTATATAATAA
* *
806266 ACTCTAAACCCTATA-ATTTTTATAATAA
1 ACTCAAAACCCTATACA-TTATATAATAA
* *
806294 TCTCAAAACTCTAT
1 ACTCAAAACCCTAT
806308 TAACTGTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.07
28 53 0.90
29 2 0.03
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (28 bp):
ACTCAAAACCCTATACATTATATAATAA
Found at i:807644 original size:14 final size:14
Alignment explanation
Indices: 807625--807701 Score: 82
Period size: 14 Copynumber: 5.4 Consensus size: 14
807615 GTGTAAAAAA
807625 TTAAAAGCTGAAAT
1 TTAAAAGCTGAAAT
*
807639 TTAAAATACTGAAAT
1 TTAAAA-GCTGAAAT
* *
807654 ATAAATGCTGAAAT
1 TTAAAAGCTGAAAT
807668 TTAAAAGCTGAAAT
1 TTAAAAGCTGAAAT
* * *
807682 TAAAAATACAGAAAT
1 TTAAAA-GCTGAAAT
807697 TTAAA
1 TTAAA
807702 GGGAAAACAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
14 30 0.59
15 21 0.41
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (14 bp):
TTAAAAGCTGAAAT
Found at i:807663 original size:29 final size:28
Alignment explanation
Indices: 807622--807701 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
807612 ATAGTGTAAA
*
807622 AAAT-TAAAAGCTGAAATTTAAAATACTG
1 AAATATAAATGCTGAAATTTAAAA-ACTG
*
807650 AAATATAAATGCTGAAATTTAAAAGCTG
1 AAATATAAATGCTGAAATTTAAAAACTG
* * *
807678 AAATTAAAAATACAGAAATTTAAA
1 AAA-TATAAATGCTGAAATTTAAA
807702 GGGAAAACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.22
29 35 0.78
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (28 bp):
AAATATAAATGCTGAAATTTAAAAACTG
Found at i:810163 original size:23 final size:24
Alignment explanation
Indices: 810123--810172 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
810113 AGAGAAACTA
* * *
810123 TTTCAAGTGAGGTGAAAT-TTTTG
1 TTTCAAGTGAGATAAAATCTTCTG
810146 TTTCAAGTGAGATAAAATCTTCTG
1 TTTCAAGTGAGATAAAATCTTCTG
810170 TTT
1 TTT
810173 TAGTGAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTCAAGTGAGATAAAATCTTCTG
Found at i:810330 original size:104 final size:104
Alignment explanation
Indices: 810148--810567 Score: 264
Period size: 104 Copynumber: 4.1 Consensus size: 104
810138 AATTTTTGTT
* * * *
810148 TCAAGTGAGATAAAATCTTCTGTTTTAGTGAAATGATTTTAAAATTTGTGTTTCAAGGGAAACTA
1 TCAAGTGAGATAAAATCTTCT-TTTTAGTGAAATGATTTCAAAACTTGTATTTCAAGAGAAACTA
* * * ****
810213 TCTTAAGCGAGATAAAATTTTTGTTTTGGGAGAAA-AATC
65 TATCAAGCAAGATAAAATTTTTGTTACAAGAGAAACAATC
* * ** *
810252 TCAAGTGAGGTAAAATCTTCTTTTTGAGTGAAATGATTTCAAAGCTTGTATTTCATTAGAAACTG
1 TCAAGTGAGATAAAATCTTCTTTTT-AGTGAAATGATTTCAAAACTTGTATTTCAAGAGAAACTA
* **
810317 TATCAGGCAAGATAATTTTTTTGTTACAAGAGAAACAATC
65 TATCAAGCAAGATAAAATTTTTGTTACAAGAGAAACAATC
* * * * *
810357 TCAAGTGAGAT-AAA-CAT-TTTTTAATGAAATGATTTCAAAA-TT-TATGCTTCAGGGGAAAAT
1 TCAAGTGAGATAAAATCTTCTTTTTAGTGAAATGATTTCAAAACTTGTAT--TTCAAGAGAAACT
* *** *
810417 -TATCTCAG-ATGAGCCGAAATTTAT-TT-CAAGAG-AACAATC
64 ATATC-AAGCA--AGATAAAATTTTTGTTACAAGAGAAACAATC
* * * * * * * *
810456 ACAAATGAGATAAAA--TTC-TTCTAGAGAAATTATTTTAAAATTTGTGTTTCAAGAGAAACTAT
1 TCAAGTGAGATAAAATCTTCTTTTTAGTGAAATGATTTCAAAACTTGTATTTCAAGAGAAACTAT
* * * *
810518 CTTAAGCGAGATAAAATTTGTT-TT--AATA-AAACAATC
66 ATCAAGCAAGATAAAATTT-TTGTTACAAGAGAAACAATC
*
810554 TTAAGTGAGATAAA
1 TCAAGTGAGATAAA
810568 TATTTTTTTT
Statistics
Matches: 242, Mismatches: 59, Indels: 36
0.72 0.18 0.11
Matches are distributed among these distances:
98 29 0.12
99 52 0.21
100 20 0.08
101 30 0.12
102 12 0.05
103 6 0.02
104 79 0.33
105 14 0.06
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (104 bp):
TCAAGTGAGATAAAATCTTCTTTTTAGTGAAATGATTTCAAAACTTGTATTTCAAGAGAAACTAT
ATCAAGCAAGATAAAATTTTTGTTACAAGAGAAACAATC
Found at i:810564 original size:35 final size:37
Alignment explanation
Indices: 810491--810577 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 37
810481 GAAATTATTT
*
810491 TAAAATTTGTGTTTCAAGAGAAACTATCTTAAGCGAGA
1 TAAAATTTGT-TTTCAAGAGAAACAATCTTAAGCGAGA
* *
810529 TAAAATTTGTTTT-AATA-AAACAATCTTAAGTGAGA
1 TAAAATTTGTTTTCAAGAGAAACAATCTTAAGCGAGA
*
810564 TAAATATTTTTTTT
1 TAAA-ATTTGTTTT
810578 GAAGTGGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
35 20 0.45
36 11 0.25
37 3 0.07
38 10 0.23
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (37 bp):
TAAAATTTGTTTTCAAGAGAAACAATCTTAAGCGAGA
Found at i:815209 original size:36 final size:37
Alignment explanation
Indices: 815156--815226 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
815146 AGTATATATA
*
815156 TTCTGATCTGAATGCACTTTGTGTGCATAT-TGTTAT
1 TTCTGATCTGAATGCACTGTGTGTGCATATCTGTTAT
* *
815192 TTCTGATGTG-ATAGCACTGTGTGTGCTTATCTGTT
1 TTCTGATCTGAAT-GCACTGTGTGTGCATATCTGTT
815227 CCGATTCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 2 0.07
36 24 0.80
37 4 0.13
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.46
Consensus pattern (37 bp):
TTCTGATCTGAATGCACTGTGTGTGCATATCTGTTAT
Found at i:831431 original size:44 final size:44
Alignment explanation
Indices: 831383--831557 Score: 116
Period size: 44 Copynumber: 4.0 Consensus size: 44
831373 ATGTCGGTGC
* *
831383 TGATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTGATGT
1 TGATCCACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGT
* * * * * * ** * ***
831427 TGATCCAACTCTTTATGTGTTGGATTTGAGTGAAATGAAAATGT
1 TGATCCACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGT
* * * ** * * * *
831471 CGATCCCCCTCTTTCTGTGATGGAATTAAACAAGATGTCGATGT
1 TGATCCACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGT
* * *
831515 TGATCTACCTCCTTCTATGATAGAATCGAGCAAAAAGTTGATG
1 TGATCCACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATG
831558 CTAATCCAAC
Statistics
Matches: 91, Mismatches: 40, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
TGATCCACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGT
Found at i:831738 original size:120 final size:121
Alignment explanation
Indices: 831461--831794 Score: 427
Period size: 120 Copynumber: 2.8 Consensus size: 121
831451 TTTGAGTGAA
* * ** * * *
831461 ATGAAAATGTCGATCCCCCTCTTTCTGTGATGGAATTAAACAAGATGTCGATGTTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* ** *
831526 CTTCTATGATAGAATCGAGCAAAAAGTTGATGCTAATCCAACTCCTTATGTGCTTG
66 CTTCTATGATAGAATCGAGCAAAAAGTTGATACTAATCCAACTCCTTATGCACTGG
** * * *
831582 ATGAAAGCGTCGATCCACCTCCTTCTGTGATGGAATCGAATGAGATATTGGTGTTGATCTACCTT
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* * * * * *
831647 CTTCTGTGATAAAATTGTGCAAAAAGTTGATATTGA-CCAACTCCTTATGCACTGG
66 CTTCTATGATAGAATCGAGCAAAAAGTTGATACTAATCCAACTCCTTATGCACTGG
* * * *
831702 ATGAAAATGTCGATCAACCTCCTTCTATGATGGAATCGAACGATATGTTGGTGCTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
831767 CTTCTATGATAGAATCGAGCAAAAAGTT
66 CTTCTATGATAGAATCGAGCAAAAAGTT
831795 AAACAAGTTC
Statistics
Matches: 178, Mismatches: 35, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
120 96 0.54
121 82 0.46
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (121 bp):
ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
CTTCTATGATAGAATCGAGCAAAAAGTTGATACTAATCCAACTCCTTATGCACTGG
Found at i:831950 original size:91 final size:90
Alignment explanation
Indices: 831796--831967 Score: 220
Period size: 91 Copynumber: 1.9 Consensus size: 90
831786 CAAAAAGTTA
831796 AACAAGTTCTTCTCATTATAAATTCTTCCCCTTCATCGGATAAGTTATTCTAATTAGGAACTCTC
1 AACAAGTTCTTCTCATTATAAATTCTTCCCCTTCATCGGATAAGTTATTCTAATTAGGAACTCTC
831861 CACTGGAAATGTTGATGCAAGGTTG
66 CACTGGAAATGTTGATGCAAGGTTG
* * * * * * **
831886 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT-GTTGGATGAGTTATTCTTATTTTGAACTC
1 AACAAGTTCTTCTCATTAT-AAATTCTTC-CCCTTCATCGGATAAGTTATTCTAATTAGGAACTC
* * *
831950 TCCATTTGAAATTTTGAT
64 TCCACTGGAAATGTTGAT
831968 CAGTTTATCT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 19 0.28
91 46 0.67
92 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (90 bp):
AACAAGTTCTTCTCATTATAAATTCTTCCCCTTCATCGGATAAGTTATTCTAATTAGGAACTCTC
CACTGGAAATGTTGATGCAAGGTTG
Found at i:832279 original size:36 final size:37
Alignment explanation
Indices: 832239--832329 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
832229 GTTTGAAGAT
* * * * *
832239 AAACTATCTCAAGTGAGATAAAA-TTTGTTTTGAGGG
1 AAACTGTCTCAAGAGAGACAAAACTTTGTTTTCAGAG
* *
832275 AAACTGTCTCTAGAGAGACAAAACTTTGTTTTCAGAT
1 AAACTGTCTCAAGAGAGACAAAACTTTGTTTTCAGAG
*
832312 AAACTGTCTCAAGGGAGA
1 AAACTGTCTCAAGAGAGA
832330 AACTTTGTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 19 0.42
37 26 0.58
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTTGTTTTCAGAG
Found at i:832303 original size:37 final size:36
Alignment explanation
Indices: 832223--832329 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
832213 GAATCAAAAG
** * * * *
832223 AAATTTGTTTGAAGATAAACTATCTCAAGTGAGATA
1 AAATTTGTTTTCAGAGAAACTGTCTCAAGAGAGACA
* * *
832259 AAATTTGTTTTGAGGGAAACTGTCTCTAGAGAGACA
1 AAATTTGTTTTCAGAGAAACTGTCTCAAGAGAGACA
* *
832295 AAACTTTGTTTTCAGATAAACTGTCTCAAGGGAGA
1 AAA-TTTGTTTTCAGAGAAACTGTCTCAAGAGAGA
832330 AACTTTGTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
36 31 0.54
37 26 0.46
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (36 bp):
AAATTTGTTTTCAGAGAAACTGTCTCAAGAGAGACA
Found at i:832416 original size:36 final size:36
Alignment explanation
Indices: 832366--832980 Score: 498
Period size: 36 Copynumber: 17.6 Consensus size: 36
832356 AAAGATTTTA
*
832366 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
832402 TGTTTCAAGGGAAA------CAA-ATGCA-A-AGAATT
1 TGTTTCAAGGGAAACTGTCTCAAGA-G-AGACAAAATT
* * *
832431 TGTTTTAACGGAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
832468 TGTTTCAAGAGAAATTGTCTAAAG-GAAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAG-AGACAAAATT
* *
832504 TGTTTAAAGGGAAACATAT-TC-A-A-AG-----ATT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT
* * * *
832532 TTTTCTCAAGGGAAATTGCCTCAAGGGAGACGAAAA-T
1 TGTT-TCAAGGGAAACTGTCTCAAGAGAGAC-AAAATT
* *
832569 TGTTTCAAGGGAAACAGAT-TC-A-A-AG----ATTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* *
832598 TGTTTCAAGGGAAACTGTCTCAAGAAAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* *
832635 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * **
832671 TGTTTCAAGAGAAACTGTCTCAAGGGAGACGCAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
832707 TGTTTCAAGGGAAACTGTATCAAGGGAGATAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * *
832743 TGTTTCAAGGGAAACTACCTTAAGGGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
832779 TGTTTCAAGGGAAAATGTTTCAAGGGAGATAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
832815 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
832851 TGATTCAAGGGAAACTGTATCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
832887 TGTTTCAAGAGAAAC-GTCTCAAGAGAGATAAAATC
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
832922 CGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
832958 CGTTTCAAGGGAAAC-GTTCTCAA
1 TGTTTCAAGGGAAACTG-TCTCAA
832981 ACTTTATATT
Statistics
Matches: 465, Mismatches: 75, Indels: 78
0.75 0.12 0.13
Matches are distributed among these distances:
28 9 0.02
29 48 0.10
30 7 0.02
31 2 0.00
32 4 0.01
33 4 0.01
34 1 0.00
35 38 0.08
36 285 0.61
37 66 0.14
38 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:832445 original size:65 final size:67
Alignment explanation
Indices: 832304--832481 Score: 206
Period size: 65 Copynumber: 2.7 Consensus size: 67
832294 AAAACTTTGT
* * * * * * *
832304 TTTC-AGATAAACTGTCTCAAG-G-GAGAAACTTTGTTTCAAGGGAAATAGATTCAAAGATTTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATGCAAAGATATTA
832366 TG
66 TG
832368 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATGCAAAGA-ATT-
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATGCAAAGATATTA
832431 TG
66 TG
* * *
832433 TTTTAACG-GAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGAGAAA
1 TTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAA
832482 TTGTCTAAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
64 4 0.04
65 46 0.46
66 19 0.19
67 30 0.30
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (67 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATGCAAAGATATTA
TG
Found at i:832459 original size:167 final size:167
Alignment explanation
Indices: 832260--832685 Score: 495
Period size: 167 Copynumber: 2.6 Consensus size: 167
832250 AGTGAGATAA
* * * * *
832260 AATTTGTTTTGAGGGAAACTGTCTCTAGAGAGACAAAACTTTGTTTTC-AGATAAACTGTCTCAA
1 AATTTGTTTTAAGGGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTTCAAGAGAAACTGTCTAAA
* * * *
832324 GG-GA-GAAACTTTGTTTCAAGGGAAATAGATTCAAAGATTTTATGTTTCAAGAGAAACTGTCTC
66 GGAGACGAAA-TTTGTTTAAAGGGAAACAGATTCAAAGATTTT-T-TCTCAAGAGAAACTGCCTC
832387 AAGAGAGAC-AAAATTTGTTTCAAGGGAAACAAATGCAAAG
128 AAGAGAGACGAAAA-TTGTTTCAAGGGAAACAAATGCAAAG
* * *
832427 AATTTGTTTTAACGGAAACTGTCTCAAGAGAGATAAAACTTTG-TTTCAAGAGAAATTGTCTAAA
1 AATTTGTTTTAAGGGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTTCAAGAGAAACTGTCTAAA
* * *
832491 GGAAGACGAAATTTGTTTAAAGGGAAACATATTCAAAGATTTTTTCTCAAGGGAAATTGCCTCAA
66 GG-AGACGAAATTTGTTTAAAGGGAAACAGATTCAAAGATTTTTTCTCAAGAGAAACTGCCTCAA
* * *
832556 GGGAGACGAAAATTGTTTCAAGGGAAACAGATTCAAAG
130 GAGAGACGAAAATTGTTTCAAGGGAAACAAATGCAAAG
* * * * * * *
832594 ATTTTGTTTCAAGGGAAACTGTCTCAAGAAAGAAAAAATTTTG-TTTCAAGGGAAACTATCTCAA
1 AATTTGTTTTAAGGGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTTCAAGAGAAACTGTCTAAA
* * * *
832658 GAGAGACAAAACTTGTTTCAAGAGAAAC
66 G-GAGACGAAATTTGTTTAAAGGGAAAC
832686 TGTCTCAAGG
Statistics
Matches: 222, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
166 4 0.02
167 177 0.80
168 6 0.03
169 31 0.14
170 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (167 bp):
AATTTGTTTTAAGGGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTTCAAGAGAAACTGTCTAAA
GGAGACGAAATTTGTTTAAAGGGAAACAGATTCAAAGATTTTTTCTCAAGAGAAACTGCCTCAAG
AGAGACGAAAATTGTTTCAAGGGAAACAAATGCAAAG
Found at i:832503 original size:20 final size:20
Alignment explanation
Indices: 832474--832513 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
832464 ACTTTGTTTC
832474 AAGAGAAA-TTGTCTAAAGG
1 AAGAGAAATTTGTCTAAAGG
*
832493 AAGACGAAATTTGTTTAAAGG
1 AAGA-GAAATTTGTCTAAAGG
832514 GAAACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (20 bp):
AAGAGAAATTTGTCTAAAGG
Found at i:832579 original size:65 final size:65
Alignment explanation
Indices: 832466--832721 Score: 239
Period size: 65 Copynumber: 3.8 Consensus size: 65
832456 GAGATAAAAC
* * * *
832466 TTTGTTTCAAGAGAAATTGTCTAAAGGAAGACGAAATTTGTTTAAAGGGAAACATATTCAAAGAT
1 TTTGTTTCAAGGGAAATTGTCTCAAGGAAGACGAAAATTGTTTCAAGGGAAACATATTCAAAGAT
* * *
832531 TTT-TTCTCAAGGGAAATTGCCTCAAGGGAGACGAAAATTGTTTCAAGGGAAACAGATTCAAAGA
1 TTTGTT-TCAAGGGAAATTGTCTCAAGGAAGACGAAAATTGTTTCAAGGGAAACATATTCAAAGA
832595 T
65 T
* * *
832596 TTTGTTTCAAGGGAAACTGTCTCAAGAAAGA-AAAAATTTTGTTTCAAGGGAAAC-TATCTCAAG
1 TTTGTTTCAAGGGAAATTGTCTCAAGGAAGACGAAAA--TTGTTTCAAGGGAAACATAT-TC-A-
*
832659 AGAGACAAAA
61 A-AG----AT
* * * * * *
832669 CTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGCAATTTGTTTCAAGGGAAAC
1 TTTGTTTCAAGGGAAATTGTCTCAAGGAAGACGAAAATTGTTTCAAGGGAAAC
832722 TGTATCAAGG
Statistics
Matches: 157, Mismatches: 21, Indels: 19
0.80 0.11 0.10
Matches are distributed among these distances:
64 6 0.04
65 81 0.52
66 20 0.13
67 1 0.01
68 1 0.01
69 2 0.01
72 16 0.10
73 28 0.18
74 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (65 bp):
TTTGTTTCAAGGGAAATTGTCTCAAGGAAGACGAAAATTGTTTCAAGGGAAACATATTCAAAGAT
Found at i:832751 original size:21 final size:20
Alignment explanation
Indices: 832654--832826 Score: 80
Period size: 21 Copynumber: 9.4 Consensus size: 20
832644 GGAAACTATC
*
832654 TCAAGAGAGACAAAACTTGTT
1 TCAAGGGAGA-AAAACTTGTT
*
832675 TCAA--GAG--AAAC-TGTC
1 TCAAGGGAGAAAAACTTGTT
** *
832690 TCAAGGGAGACGCAATTTGTT
1 TCAAGGGAGA-AAAACTTGTT
*
832711 TCAA-GG-G--AAAC-TGTA
1 TCAAGGGAGAAAAACTTGTT
832726 TCAAGGGAGATAAAACTTGTT
1 TCAAGGGAGA-AAAACTTGTT
***
832747 TCAA-GG-G--AAACTACCT
1 TCAAGGGAGAAAAACTTGTT
832763 T-AAGGGAGACAAAACTTGTT
1 TCAAGGGAGA-AAAACTTGTT
832783 TCAA-GG-G-AAAA--TGTT
1 TCAAGGGAGAAAAACTTGTT
832798 TCAAGGGAGATAAAACTTGTT
1 TCAAGGGAGA-AAAACTTGTT
832819 TCAAGGGA
1 TCAAGGGA
832827 AATTGTCTCA
Statistics
Matches: 114, Mismatches: 14, Indels: 48
0.65 0.08 0.27
Matches are distributed among these distances:
15 24 0.21
16 19 0.17
17 10 0.09
19 10 0.09
20 19 0.17
21 32 0.28
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (20 bp):
TCAAGGGAGAAAAACTTGTT
Found at i:832859 original size:21 final size:21
Alignment explanation
Indices: 832834--832898 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
832824 GGAAATTGTC
832834 TCAAGAGAGACAAAATTTGAT
1 TCAAGAGAGACAAAATTTGAT
* *
832855 TCAAG-G-G--AAACTGT-A-
1 TCAAGAGAGACAAAATTTGAT
*
832870 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGAT
832891 TCAAGAGA
1 TCAAGAGA
832899 AACGTCTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 5 0.15
16 2 0.06
17 6 0.18
19 6 0.18
20 1 0.03
21 13 0.39
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.23
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGAT
Found at i:833044 original size:65 final size:65
Alignment explanation
Indices: 832924--833052 Score: 152
Period size: 65 Copynumber: 2.0 Consensus size: 65
832914 ATAAAATCCG
* * * **
832924 TTTCAAGGGAAACAGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGTTCTCAAACTTTATA
1 TTTCAAGAGAAACAGCCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAATCTCAAACTTTATA
* * * * *
832989 TTTCAAGAGAAACTGCCTCAAG-GAAGACAAATTTTGTTTCAAGATAAACAATCTCAAAGTTTAT
1 TTTCAAGAGAAACAGCCTCAAGAG-AGACAAAATTCGTTTCAAGAGAAACAATCTCAAACTTTAT
833053 CAATTTTGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 1 0.02
65 52 0.98
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (65 bp):
TTTCAAGAGAAACAGCCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAATCTCAAACTTTATA
Found at i:835608 original size:14 final size:15
Alignment explanation
Indices: 835586--835622 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
835576 ATAAATGCAA
*
835586 AGATGCAAAAATGGG
1 AGATGCAAAAATGCG
835601 AG-TGC-AAAATGCG
1 AGATGCAAAAATGCG
835614 AGATGCAAA
1 AGATGCAAA
835623 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.14
Consensus pattern (15 bp):
AGATGCAAAAATGCG
Found at i:836035 original size:137 final size:137
Alignment explanation
Indices: 835803--836053 Score: 360
Period size: 137 Copynumber: 1.8 Consensus size: 137
835793 TCATAAATCT
* * * *
835803 TTCGAGCTGGTTCGCGATCTTCAACTGTTGGTTTTAGCGTTGAATCGTCTCAAGTACAACTTGTT
1 TTCGAGATGGTTCGCGATCTTCAACTGTTGGCTTTAGCATTGAATCATCTCAAGTACAACTTGTT
835868 ACCTCAGCAGGCAAATATCTGGATCATCTCCTTGGT-AGATAGACTCCCTCTAGCTCCTACTTCT
66 ACCTCAGCAGGCAAATATCTGGATCATCTCCTTGGTAAG-TAGACTCCCTCTAGCTCCTACTTCT
835932 AGAAACCC
130 AGAAACCC
* * *
835940 TTCGAGATGGTTCGTGATCTTCAACTGTTGGCTTTAGCATTGAATCATCTCGAGTCCAACTTGTT
1 TTCGAGATGGTTCGCGATCTTCAACTGTTGGCTTTAGCATTGAATCATCTCAAGTACAACTTGTT
* * * * * **
836005 ACCTCAGTAGGCAGATGTTTGGCTTGTCTCCTTGGTAAGTAGACTCCCT
66 ACCTCAGCAGGCAAATATCTGGATCATCTCCTTGGTAAGTAGACTCCCT
836054 GTTGACACTA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 97 0.98
138 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (137 bp):
TTCGAGATGGTTCGCGATCTTCAACTGTTGGCTTTAGCATTGAATCATCTCAAGTACAACTTGTT
ACCTCAGCAGGCAAATATCTGGATCATCTCCTTGGTAAGTAGACTCCCTCTAGCTCCTACTTCTA
GAAACCC
Found at i:837748 original size:29 final size:29
Alignment explanation
Indices: 837691--837748 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
837681 GTCAAATGAT
*
837691 TAAAATAAAATAACTAAAATTATGAGATC
1 TAAAATAAAATAACTAAAATTAAGAGATC
*
837720 TAAATATAAAAT-CCTAAAACTTAAG-GATC
1 TAAA-ATAAAATAACTAAAA-TTAAGAGATC
837749 CAGATCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (29 bp):
TAAAATAAAATAACTAAAATTAAGAGATC
Found at i:839000 original size:16 final size:15
Alignment explanation
Indices: 838980--839020 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
838970 CTTACATTGC
838980 TTTTTTCTTTACTTT
1 TTTTTTCTTTACTTT
*
838995 TATTTTTCTTTTGCTTT
1 T-TTTTTC-TTTACTTT
839012 TTTTTTCTT
1 TTTTTTCTT
839021 CTTTGAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 8 0.35
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTACTTT
Found at i:839139 original size:16 final size:16
Alignment explanation
Indices: 839118--839157 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
839108 CGATGGCCTA
839118 CCGGGTCGGGTAAGTT
1 CCGGGTCGGGTAAGTT
839134 CCGGGTCGGGTAAGTT
1 CCGGGTCGGGTAAGTT
*
839150 CTGGGTCG
1 CCGGGTCG
839158 TACCTTGGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.20, G:0.45, T:0.25
Consensus pattern (16 bp):
CCGGGTCGGGTAAGTT
Found at i:840438 original size:32 final size:32
Alignment explanation
Indices: 840396--840457 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
840386 TTTAAATATG
840396 TTTTAGTATTTTAAT-TTAGTTTTAGGATATTAT
1 TTTTAGTATTTT-ATCTTAGTTTTAGG-TATTAT
*
840429 TTTTA-TATTTTATCTTTGTTTTAGGTATT
1 TTTTAGTATTTTATCTTAGTTTTAGGTATT
840458 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 6 0.22
32 16 0.59
33 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.65
Consensus pattern (32 bp):
TTTTAGTATTTTATCTTAGTTTTAGGTATTAT
Found at i:840466 original size:76 final size:70
Alignment explanation
Indices: 840377--840565 Score: 195
Period size: 76 Copynumber: 2.6 Consensus size: 70
840367 TTTTATCTTT
* * * * *
840377 GTATTTTATTTTAAATATGTTTTAGTATTTTAATTTA-GTTTTAGGATATTATTTTTATATTTTA
1 GTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTTAGGATTTAGAATATTA--TTTAGA--ATA
*
840441 TCTTTGTTTTAG
61 T-TAT-TTTTAG
*
840453 GTATTTTAGTTTAAAAAAGTTTTAGTATTTTAA-TTAGGATTTAGAATATTATTTAGAATATTAT
1 GTATTTTAGTTT-AAATAGTTTTAGTATTTTAATTTAGGATTTAGAATATTATTTAGAATATTAT
840517 TTTTAG
65 TTTTAG
* *
840523 GTATTTTAGTTTAAATAGTTTTAAGTGTTTTAA-TTATGATTTA
1 GTATTTTAGTTTAAATAGTTTT-AGTATTTTAATTTAGGATTTA
840566 AGATGTTTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
69 9 0.09
70 36 0.36
71 2 0.02
72 3 0.03
74 5 0.05
75 3 0.03
76 38 0.38
77 4 0.04
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (70 bp):
GTATTTTAGTTTAAATAGTTTTAGTATTTTAATTTAGGATTTAGAATATTATTTAGAATATTATT
TTTAG
Found at i:840506 original size:12 final size:12
Alignment explanation
Indices: 840491--840518 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
840481 TTTAATTAGG
840491 ATTTAGAATATT
1 ATTTAGAATATT
840503 ATTTAGAATATT
1 ATTTAGAATATT
840515 ATTT
1 ATTT
840519 TTAGGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTAGAATATT
Found at i:841103 original size:4 final size:4
Alignment explanation
Indices: 841094--841133 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
841084 TCTCTTTAAA
* *
841094 TTAT TTAT TTAA TTAT TTAT TTAA TTAT TTAT TTAAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTA
841134 ATTCTTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:841109 original size:12 final size:12
Alignment explanation
Indices: 841092--841131 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
841082 AATCTCTTTA
841092 AATTATTTATTT
1 AATTATTTATTT
841104 AATTATTTATTT
1 AATTATTTATTT
841116 AATTATTTATTT
1 AATTATTTATTT
841128 AATT
1 AATT
841132 TAATTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:841225 original size:19 final size:19
Alignment explanation
Indices: 841176--841228 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
841166 ATTTTACTAC
* *
841176 TATTATTTATTAT-TTTAT
1 TATTATCTATTTTATTTAT
* **
841194 TATTTTCCCTTTTATTTAT
1 TATTATCTATTTTATTTAT
841213 TATTATCTATTTTATT
1 TATTATCTATTTTATT
841229 AAATCATTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTATCTATTTTATTTAT
Found at i:846781 original size:5 final size:5
Alignment explanation
Indices: 846771--846874 Score: 61
Period size: 5 Copynumber: 20.2 Consensus size: 5
846761 TTCTATTTTA
* *
846771 TATTT TATTT TATTT TATTTT TGTTT TATTT CGT-TTT TATTA TATTTT
1 TATTT TATTT TATTT TA-TTT TATTT TATTT --TATTT TATTT TA-TTT
*** * * *
846819 TAACA AACTT TATTT TCATTC TA-TT TATTT TATTT T-TATT TATTT TATTT
1 TATTT TATTT TATTT T-ATTT TATTT TATTT TATTT TAT-TT TATTT TATTT
846869 TATTT T
1 TATTT T
846875 TTCTTTAACC
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
4 5 0.07
5 53 0.71
6 16 0.21
7 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:846797 original size:11 final size:11
Alignment explanation
Indices: 846764--846875 Score: 65
Period size: 11 Copynumber: 10.1 Consensus size: 11
846754 CATTTCGTTC
846764 TATTTTATATTT
1 TATTTTAT-TTT
846776 TATTTTA-TTT
1 TATTTTATTTT
846786 TATTTT-TGTTT
1 TATTTTAT-TTT
**
846797 TATTTCGTTTT
1 TATTTTATTTT
*
846808 TATTATATTTT
1 TATTTTATTTT
*
846819 TAACAAACTTTATTTT
1 T-----ATTTTATTTT
* *
846835 CATTCTA--TT
1 TATTTTATTTT
846844 TATTTTATTTT
1 TATTTTATTTT
846855 TA-TTTA-TTT
1 TATTTTATTTT
846864 TATTTTATTTT
1 TATTTTATTTT
846875 T
1 T
846876 TCTTTAACCA
Statistics
Matches: 77, Mismatches: 11, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
9 12 0.16
10 17 0.22
11 32 0.42
12 8 0.10
16 8 0.10
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:846807 original size:16 final size:16
Alignment explanation
Indices: 846773--846817 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
846763 CTATTTTATA
*
846773 TTTTATTTTATTTTAT
1 TTTTATTTTATTTCAT
* *
846789 TTTTGTTTTATTTCGT
1 TTTTATTTTATTTCAT
*
846805 TTTTATTATATTT
1 TTTTATTTTATTT
846818 TTAACAAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTCAT
Found at i:846875 original size:20 final size:20
Alignment explanation
Indices: 846827--846875 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
846817 TTTAACAAAC
*
846827 TTTATTTTCATTCTATTTAT
1 TTTATTTTTATTCTATTTAT
846847 TTTATTTTTATT-TATTTTAT
1 TTTATTTTTATTCTA-TTTAT
846867 TTTATTTTT
1 TTTATTTTT
846876 TCTTTAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATTCTATTTAT
Found at i:847065 original size:28 final size:28
Alignment explanation
Indices: 847029--847094 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
847019 AAAACAAATA
847029 GTGCAGAAAAACAAATTTGGTTCAAACT
1 GTGCAGAAAAACAAATTTGGTTCAAACT
* **
847057 GTGTAGAAAAACAAATTTGGTTTGAACT
1 GTGCAGAAAAACAAATTTGGTTCAAACT
847085 GTGCAGAAAA
1 GTGCAGAAAA
847095 GTTCGAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (28 bp):
GTGCAGAAAAACAAATTTGGTTCAAACT
Done.