Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_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: 2235968
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:624092 original size:33 final size:32
Alignment explanation
Indices: 624033--624123 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 32
624023 CAAAATCGCA
*
624033 TTGCGATTTTCATTTCG-TTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
624064 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGC-TTGCGATTCTGTCG
624097 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGC-TTGCGATT
624124 TGGTTTCGCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 17 0.30
33 39 0.70
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
Found at i:624132 original size:18 final size:18
Alignment explanation
Indices: 624028--624142 Score: 88
Period size: 18 Copynumber: 6.8 Consensus size: 18
624018 GAAACCAAAA
*
624028 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
624047 T--CGTTGCGA-TTC-TT
1 TCGCGTTGCGATTTCATT
624061 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
* *
624078 TCGCATTGCGA-TTC-TG
1 TCGCGTTGCGATTTCATT
624094 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
**
624111 TCGCGTTGCGATTTGGTT
1 TCGCGTTGCGATTTCATT
624129 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
624143 TAAGTTCGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
14 18 0.23
15 3 0.04
16 8 0.10
17 15 0.19
18 19 0.24
19 16 0.20
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:624155 original size:19 final size:18
Alignment explanation
Indices: 624062--624158 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 18
624052 GCGATTCTTT
*
624062 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-AGTTCG
* *
624081 CATTGCGATTCT-G-T--
1 CGTTGCGATTTTAGTTCG
*
624095 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-AGTTCG
*
624114 CGTTGCGA-TTTGGTTTCG
1 CGTTGCGATTTTAG-TTCG
624132 CGTTGCGATTTTAAGTTCG
1 CGTTGCGATTTT-AGTTCG
*
624151 TGTTGCGA
1 CGTTGCGA
624159 AAGTAAACTA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.17
16 1 0.02
17 1 0.02
18 15 0.25
19 32 0.53
20 1 0.02
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (18 bp):
CGTTGCGATTTTAGTTCG
Found at i:626079 original size:14 final size:14
Alignment explanation
Indices: 626060--626095 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
626050 ATTGTTTAAT
626060 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
626074 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
626088 TGATTTGT
1 TGATTTGT
626096 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:626218 original size:19 final size:19
Alignment explanation
Indices: 626202--626303 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
626192 AAAAATGACT
626202 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
626221 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
626240 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
626254 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
626273 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
626293 ATCGCAATGCG
1 ATCGCAATGCG
626304 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:626352 original size:33 final size:33
Alignment explanation
Indices: 626310--626534 Score: 188
Period size: 33 Copynumber: 6.5 Consensus size: 33
626300 TGCGTTTATA
626310 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
626343 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
626381 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATGTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
626421 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
626452 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
626485 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
626519 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
626535 GTATTTTCCG
Statistics
Matches: 164, Mismatches: 15, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 51 0.31
34 29 0.18
35 5 0.03
36 5 0.03
37 2 0.01
38 46 0.28
39 3 0.02
40 9 0.05
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:626356 original size:19 final size:19
Alignment explanation
Indices: 626332--626534 Score: 256
Period size: 19 Copynumber: 11.4 Consensus size: 19
626322 GATTATCTCG
626332 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
626351 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
626370 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
626389 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
626408 TTGCGA--TT-ATGTCG--
1 TTGCGATTTTCATTTCGCA
626422 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
626441 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
626460 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
626474 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
626494 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
626508 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
626527 TTGCGATT
1 TTGCGATT
626535 GTATTTTCCG
Statistics
Matches: 162, Mismatches: 6, Indels: 32
0.81 0.03 0.16
Matches are distributed among these distances:
14 23 0.14
16 16 0.10
17 13 0.08
18 3 0.02
19 95 0.59
20 12 0.07
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:626372 original size:52 final size:54
Alignment explanation
Indices: 626310--626467 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 54
626300 TGCGTTTATA
626310 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTATGTC
*
626362 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATGTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTATGTC
* * * * *
626421 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
626468 CTCTCGTTGC
Statistics
Matches: 91, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
52 41 0.45
54 4 0.04
55 5 0.05
56 2 0.02
57 27 0.30
58 3 0.03
59 9 0.10
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (54 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTATGTC
Found at i:626475 original size:52 final size:52
Alignment explanation
Indices: 626332--626506 Score: 269
Period size: 52 Copynumber: 3.2 Consensus size: 52
626322 GATTATCTCG
*
626332 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
626389 TTGCGATTTTCATTTCGCATTGCGATTATGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
626441 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
626494 TTGCGATTTTCAT
1 TTGCGATTTTCAT
626507 GTTGGGATTT
Statistics
Matches: 113, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
52 65 0.58
53 17 0.15
54 4 0.04
55 2 0.02
57 25 0.22
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:628831 original size:12 final size:12
Alignment explanation
Indices: 628814--628838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
628804 TCTTCGGGGA
628814 CTTTTTCTTCTT
1 CTTTTTCTTCTT
628826 CTTTTTCTTCTT
1 CTTTTTCTTCTT
628838 C
1 C
628839 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:629047 original size:24 final size:24
Alignment explanation
Indices: 629013--629059 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
629003 CTGAAACATC
629013 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
629037 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
629060 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:629770 original size:20 final size:20
Alignment explanation
Indices: 629742--630110 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
629732 AAATTTAAGT
* * * *
629742 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
629762 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
629782 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
629802 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
629822 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
629842 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
629862 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
629882 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
629902 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
629922 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
629942 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
629962 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
629982 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
630002 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
630022 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
630042 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
630062 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
630082 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
630102 GTTGCGATT
1 GTTGCGATT
630111 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:630745 original size:2 final size:2
Alignment explanation
Indices: 630738--630769 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
630728 ACTATACCAT
630738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
630770 CTGTAGATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:638892 original size:20 final size:22
Alignment explanation
Indices: 638867--638912 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
638857 AAATTCATTT
638867 TAAAAATTT-AGAC-AAAATTA
1 TAAAAATTTGAGACTAAAATTA
638887 TAAAAATTTGAGACTAAAATTA
1 TAAAAATTTGAGACTAAAATTA
638909 -AAAA
1 TAAAA
638913 TATATACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 7 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (22 bp):
TAAAAATTTGAGACTAAAATTA
Found at i:641672 original size:19 final size:19
Alignment explanation
Indices: 641650--641714 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
641640 TACGGTAACA
641650 GAATATTAATGTGTATCAT
1 GAATATTAATGTGTATCAT
* * **
641669 GAATTTTAACTATAAAAATTCAT
1 GAATATTAA-TGT--GTA-TCAT
641692 GAATATTAATGTGTATCAT
1 GAATATTAATGTGTATCAT
641711 GAAT
1 GAAT
641715 TTTATTAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 16 0.47
20 3 0.09
22 3 0.09
23 12 0.35
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (19 bp):
GAATATTAATGTGTATCAT
Found at i:649054 original size:26 final size:26
Alignment explanation
Indices: 649025--649080 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
649015 TATATACAAC
649025 TTAAACTAAAATTAAATAAAAAATAG
1 TTAAACTAAAATTAAATAAAAAATAG
649051 TTAAACTAAAATTAAATAAAAAATAG
1 TTAAACTAAAATTAAATAAAAAATAG
649077 TTAA
1 TTAA
649081 CATATATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
TTAAACTAAAATTAAATAAAAAATAG
Found at i:649483 original size:22 final size:22
Alignment explanation
Indices: 649455--649530 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
649445 ACAACACCCT
* *
649455 CAAGACGTCGGGAGATCCCAAA
1 CAAGACGCCAGGAGATCCCAAA
* *
649477 CAAGACGCCTGAAGATCCCAAA
1 CAAGACGCCAGGAGATCCCAAA
* *
649499 CAAAACGCCAGGAGATCCCAAG
1 CAAGACGCCAGGAGATCCCAAA
*
649521 CAAGATGCCA
1 CAAGACGCCA
649531 AAAAAATCTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.39, C:0.30, G:0.22, T:0.08
Consensus pattern (22 bp):
CAAGACGCCAGGAGATCCCAAA
Found at i:650061 original size:21 final size:21
Alignment explanation
Indices: 650006--650062 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
649996 GCGTTGCATT
*
650006 TCGCGTTGCGATAATTAAAAA
1 TCGCGTTGCGATAGTTAAAAA
*
650027 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTAAAAA
650048 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
650063 CTACAGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTAAAAA
Found at i:650079 original size:22 final size:22
Alignment explanation
Indices: 650051--650103 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
650041 TTGAAAATCG
650051 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
650073 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
650095 CGTTGCGAT
1 CGTTGCGAT
650104 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:650226 original size:6 final size:6
Alignment explanation
Indices: 650210--650241 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
650200 GGTCGGGTCA
650210 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
650242 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:650350 original size:22 final size:22
Alignment explanation
Indices: 650318--650374 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
650308 CTTTTTTTTA
650318 ACTATCGCAACGACAACTGTAC
1 ACTATCGCAACGACAACTGTAC
* * *
650340 ACTTTCGCAACAACAACTGTAG
1 ACTATCGCAACGACAACTGTAC
650362 ACTATCGCAACGA
1 ACTATCGCAACGA
650375 ATTTGGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAC
Found at i:650387 original size:19 final size:19
Alignment explanation
Indices: 650365--650433 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
650355 ACTGTAGACT
650365 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* **
650384 ATCGCAACGACATTGTAGACT
1 ATCGCAACGA-ATT-TGGAAA
*
650405 ATCGCAATGCGAA-ATGGAAA
1 ATCGCAA--CGAATTTGGAAA
650425 ATCGCAACG
1 ATCGCAACG
650434 CGATTTTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 13 0.33
21 10 0.26
22 1 0.03
23 3 0.08
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:650423 original size:41 final size:40
Alignment explanation
Indices: 650357--650502 Score: 158
Period size: 41 Copynumber: 3.6 Consensus size: 40
650347 CAACAACAAC
*
650357 TGTAGACTATCGCAA-CGAATTTGGAAAATCGCAACGAC-AT
1 TGTAGACTATCGCAAGCGAA-ATGGAAAATCGCAACG-CGAT
650397 TGTAGACTATCGCAATGCGAAATGGAAAATCGCAACGCGAT
1 TGTAGACTATCGCAA-GCGAAATGGAAAATCGCAACGCGAT
* *
650438 TTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGTGAT
1 TGT-AGACTATCGCAA-GCGAAATGGAAAATCGCAACGCGAT
650479 T-TCCA-ACTATCGCAACGCGAAATG
1 TGT--AGACTATCGCAA-GCGAAATG
650503 CAACGCGAAT
Statistics
Matches: 97, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
40 17 0.18
41 75 0.77
42 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
TGTAGACTATCGCAAGCGAAATGGAAAATCGCAACGCGAT
Found at i:650430 original size:20 final size:20
Alignment explanation
Indices: 650405--650474 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
650395 ATTGTAGACT
*
650405 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
650425 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
650446 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
650466 ATCGCAACG
1 ATCGCAACG
650475 TGATTTCCAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:650506 original size:21 final size:21
Alignment explanation
Indices: 650402--650506 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
650392 GACATTGTAG
* *
650402 ACTATCGCAATGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
650423 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
650443 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
650464 A-AATCGCAACGTGATTTCCA
1 ACTATCGCAACGCGAAATGCA
650484 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
650505 AC
1 AC
650507 GCGAATTTGC
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:656582 original size:24 final size:24
Alignment explanation
Indices: 656532--656584 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
656522 GTCATCAACA
* *
656532 TCATAATCTCTGTCCCTATCCCTC
1 TCATAATCTCTGTCCCTATCACGC
* * *
656556 TCATTATCTCTTTCTCTATCACGC
1 TCATAATCTCTGTCCCTATCACGC
656580 TCATA
1 TCATA
656585 GTCACGAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.36, G:0.04, T:0.42
Consensus pattern (24 bp):
TCATAATCTCTGTCCCTATCACGC
Found at i:657926 original size:31 final size:31
Alignment explanation
Indices: 657881--657972 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
657871 TTTTTCGGTC
*
657881 GAGTCGAAAAAAATCGGTTTTCAAGTCGAGTT
1 GAGTCG-AAAAAATCGGTTTTCAAGTCGAGTG
*
657913 GAGTCGAAAAAATCGGATTTTCAAGTGGAGTG
1 GAGTCGAAAAAATCGG-TTTTCAAGTCGAGTG
**
657945 GAGTC-AAAAAATCAAATTTTCAAGTCGA
1 GAGTCGAAAAAATC-GGTTTTCAAGTCGA
657973 ATCGAGTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 29 0.55
32 24 0.45
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (31 bp):
GAGTCGAAAAAATCGGTTTTCAAGTCGAGTG
Found at i:671493 original size:29 final size:29
Alignment explanation
Indices: 671434--671566 Score: 121
Period size: 29 Copynumber: 4.6 Consensus size: 29
671424 GACAATTGTT
* * *
671434 TGGTGGAGGTGGAGA-G-GATTTTGGTGA
1 TGGTGGCGGTGGTGATGAGATTTGGGTGA
* *
671461 TGGTGGCTGTGGTGATGAGATTTGGGTGT
1 TGGTGGCGGTGGTGATGAGATTTGGGTGA
*
671490 TGGTGGCGGTGGTGATGAGATTTTGGGTGC
1 TGGTGGCGGTGGTGATGAGA-TTTGGGTGA
* * * *
671520 TGGT-GCGGTGATGACGAGCTTTGGGGTGG
1 TGGTGGCGGTGGTGATGAGATTT-GGGTGA
671549 TGGTGG-GGATGGTGATGA
1 TGGTGGCGG-TGGTGATGA
671567 AGGTGAGGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
27 12 0.14
28 4 0.05
29 51 0.59
30 20 0.23
ACGTcount: A:0.13, C:0.05, G:0.51, T:0.32
Consensus pattern (29 bp):
TGGTGGCGGTGGTGATGAGATTTGGGTGA
Found at i:671553 original size:59 final size:57
Alignment explanation
Indices: 671434--671566 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 57
671424 GACAATTGTT
* * * * *
671434 TGGTGGAGGTGGAGA-G-GATTTTGGTGATGGTGGCTGTGGTGATGAGATTTGGGTGT
1 TGGTGG-GGTGGTGATGAGATTTTGGTGATGGTGGCGGTGATGACGAGATTTGGGTGG
* *
671490 TGGTGGCGGTGGTGATGAGATTTTGGGTGCTGGT-GCGGTGATGACGAGCTTTGGGGTGG
1 TGGTGG-GGTGGTGATGAGATTTT-GGTGATGGTGGCGGTGATGACGAGATTT-GGGTGG
671549 TGGTGGGGATGGTGATGA
1 TGGTGGGG-TGGTGATGA
671567 AGGTGAGGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 13 0.20
57 1 0.02
58 22 0.34
59 28 0.44
ACGTcount: A:0.13, C:0.05, G:0.51, T:0.32
Consensus pattern (57 bp):
TGGTGGGGTGGTGATGAGATTTTGGTGATGGTGGCGGTGATGACGAGATTTGGGTGG
Found at i:672058 original size:30 final size:30
Alignment explanation
Indices: 671974--672108 Score: 136
Period size: 30 Copynumber: 4.6 Consensus size: 30
671964 ACAATTGTTT
* *
671974 TTGGTGGAGGTGGAGA-G-GATTTT-GGTG
1 TTGGTGGCGGTGGTGATGAGATTTTGGGTG
* *
672001 ATGGTGGCTGTGGTGATGAGA-TTTGGGTG
1 TTGGTGGCGGTGGTGATGAGATTTTGGGTG
672030 TTGGTGGCGGTGGTGATGAGATTTTGGGTG
1 TTGGTGGCGGTGGTGATGAGATTTTGGGTG
* * * * *
672060 CTGGTGGCGGTGATGACGAGCTTTGGGGTG
1 TTGGTGGCGGTGGTGATGAGATTTTGGGTG
*
672090 GTGGTGG-GGATGGTGATGA
1 TTGGTGGCGG-TGGTGATGA
672109 AGGTGAGGTG
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
27 12 0.13
28 4 0.04
29 27 0.30
30 46 0.52
ACGTcount: A:0.13, C:0.04, G:0.51, T:0.32
Consensus pattern (30 bp):
TTGGTGGCGGTGGTGATGAGATTTTGGGTG
Found at i:674806 original size:20 final size:20
Alignment explanation
Indices: 674783--674846 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
674773 TAGTATTTAG
674783 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
674803 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
674823 ATAAATATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
674842 TTAAA
1 ATAAA
674847 CTTTATTGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 17 0.46
20 13 0.35
21 7 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:674844 original size:31 final size:31
Alignment explanation
Indices: 674759--674845 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
674749 TTTGATAATA
* * *
674759 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAAATATTTTATAATTTTTTA-ATAAATT
* *
674790 T-ATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAAT-ATTTTATAATTTTTTAATAAATT
674821 TAATAAATATTTTATAATTTTTTAA
1 TAATAAATATTTTATAATTTTTTAA
674846 ACTTTATTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.09
31 32 0.70
32 10 0.22
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (31 bp):
TAATAAATATTTTATAATTTTTTAATAAATT
Found at i:675580 original size:19 final size:18
Alignment explanation
Indices: 675556--675645 Score: 56
Period size: 19 Copynumber: 4.5 Consensus size: 18
675546 TATCAATAAT
675556 TTAAATTATAAAATACTTA
1 TTAAATTATAAAATA-TTA
*
675575 TTAAATTTATTAAAAGATTA
1 TTAAA-TTA-TAAAATATTA
*
675595 TAAAATTATTAATAA-ATTTA
1 TTAAATTA-TAA-AATA-TTA
675615 TCTAAATACTATAAAATAATTA
1 T-TAAAT--TATAAAAT-ATTA
*
675637 TTATATTAT
1 TTAAATTAT
675646 CGAACTTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
19 16 0.28
20 16 0.28
21 16 0.28
22 7 0.12
23 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (18 bp):
TTAAATTATAAAATATTA
Found at i:675595 original size:31 final size:30
Alignment explanation
Indices: 675560--675639 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
675550 AATAATTTAA
675560 ATTATAAAATACTTATTAAATTTAT-TAAAAG
1 ATTATAAAATA-TTATTAAATTTATCT-AAAG
* *
675591 ATTATAAAATTATTAATAAATTTATCTAAAT
1 ATTATAAAA-TATTATTAAATTTATCTAAAG
*
675622 ACTATAAAATAATTATTA
1 ATTATAAAAT-ATTATTA
675640 TATTATCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 38 0.90
32 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (30 bp):
ATTATAAAATATTATTAAATTTATCTAAAG
Found at i:682025 original size:33 final size:33
Alignment explanation
Indices: 681974--682078 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 33
681964 TGATGAACAC
* * **
681974 GAATGCTCCAAGTTCAATGACATCGATTCCGGT
1 GAATGCTCCAACTCCAATGACATCGATTCCGAA
* *
682007 GAATGCTCTAACTCCAATGACATTGATTCCGAA
1 GAATGCTCCAACTCCAATGACATCGATTCCGAA
* ** * *
682040 GAATTCTCCAACTCCAACAACATCGAATCCAAA
1 GAATGCTCCAACTCCAATGACATCGATTCCGAA
682073 G-ATGCT
1 GAATGCT
682079 AATGATTATT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
32 4 0.07
33 54 0.93
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (33 bp):
GAATGCTCCAACTCCAATGACATCGATTCCGAA
Found at i:686897 original size:10 final size:11
Alignment explanation
Indices: 686882--686910 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
686872 AATGTTTGTA
686882 TTATTTTAT-T
1 TTATTTTATAT
686892 TTATTTTATAT
1 TTATTTTATAT
686903 TTATTTTA
1 TTATTTTA
686911 AAGATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:690064 original size:20 final size:20
Alignment explanation
Indices: 690041--690087 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
690031 CGGTTGCAAT
690041 CTAAAATATTAATTTTAAAC
1 CTAAAATATTAATTTTAAAC
690061 CTAAAATATTAATTTTAAAC
1 CTAAAATATTAATTTTAAAC
690081 CTAAAAT
1 CTAAAAT
690088 TTACACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (20 bp):
CTAAAATATTAATTTTAAAC
Found at i:690511 original size:6 final size:6
Alignment explanation
Indices: 690428--690493 Score: 80
Period size: 6 Copynumber: 11.0 Consensus size: 6
690418 CCTTCCTCCT
* * * *
690428 CCTTCC CCATCC CTCGTCC CCGTCC CCGT-C CCTTCC CCTTCC CCTTCC
1 CCTTCC CCTTCC C-CTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
690476 CCTTCC CCTTCC CCTTCC
1 CCTTCC CCTTCC CCTTCC
690494 AGCCTTCTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
5 4 0.07
6 46 0.84
7 5 0.09
ACGTcount: A:0.02, C:0.65, G:0.05, T:0.29
Consensus pattern (6 bp):
CCTTCC
Found at i:691189 original size:15 final size:15
Alignment explanation
Indices: 691169--691221 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
691159 TTGAGACATT
*
691169 ACCCGCCCCGTATCC
1 ACCCGCCCCGCATCC
*
691184 ACCCGCCCCGCATCT
1 ACCCGCCCCGCATCC
*
691199 ACCCGCCCCACATCC
1 ACCCGCCCCGCATCC
*
691214 TCCCGCCC
1 ACCCGCCC
691222 AGCTAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.13, C:0.64, G:0.11, T:0.11
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:698269 original size:59 final size:60
Alignment explanation
Indices: 698168--698344 Score: 153
Period size: 59 Copynumber: 3.0 Consensus size: 60
698158 AGTTCATGAG
* * *
698168 GAAATTAGAACATTCAAAAGTTTAGAGACCAGTTTAGAATGAGGGTAATAGTTTG-GAAT
1 GAAATTAGAACATTCAAAAGTTCAGAGACCAATTTAGAATGAGAGTAATAGTTTGAGAAT
* * * * * *
698227 GAAATTGGAATATTCAAAAGTTCAGGGGCCAATTTATG-ATGAGAGTCATAGTTTGAGGAT
1 GAAATTAGAACATTCAAAAGTTCAGAGACCAATTTA-GAATGAGAGTAATAGTTTGAGAAT
* * * * * * * *
698287 GAAATTAAAACA-TCTAAAATTTTAAAGATCAATTTAAAATGAGAATAATTGGTTTGAG
1 GAAATTAGAACATTC-AAAAGTTCAGAGACCAATTTAGAATGAGAGTAA-TAGTTTGAG
698345 GACATATGAT
Statistics
Matches: 91, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
59 47 0.52
60 36 0.40
61 8 0.09
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (60 bp):
GAAATTAGAACATTCAAAAGTTCAGAGACCAATTTAGAATGAGAGTAATAGTTTGAGAAT
Found at i:708369 original size:24 final size:24
Alignment explanation
Indices: 708342--708393 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
708332 AAAAGATATA
*
708342 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
708366 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
708390 TCAA
1 TCAA
708394 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:708394 original size:24 final size:24
Alignment explanation
Indices: 708358--708459 Score: 111
Period size: 24 Copynumber: 4.2 Consensus size: 24
708348 ATCAAAACAT
708358 AAATCAGGTCAAGTATCATATCAG
1 AAATCAGGTCAAGTATCATATCAG
* *
708382 AAATCAGGTCAAGTAACAGATCAG
1 AAATCAGGTCAAGTATCATATCAG
*
708406 -AATCCAAGTC-AGATATCATATCAG
1 AAAT-CAGGTCAAG-TATCATATCAG
* *
708430 -AATCCATGTCAAGTATCAAATCAG
1 AAAT-CAGGTCAAGTATCATATCAG
708454 AAATCA
1 AAATCA
708460 AATCGAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
23 5 0.07
24 57 0.85
25 5 0.07
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (24 bp):
AAATCAGGTCAAGTATCATATCAG
Found at i:709575 original size:18 final size:18
Alignment explanation
Indices: 709554--709589 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
709544 CTTCCATCCG
*
709554 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
709572 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
709590 GTCATTTCGA
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:710053 original size:17 final size:18
Alignment explanation
Indices: 710021--710057 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
710011 TATAACTATC
710021 ATTTTTATGCACATCAAT
1 ATTTTTATGCACATCAAT
*
710039 ATTTTTAT-CAGATCAAT
1 ATTTTTATGCACATCAAT
710056 AT
1 AT
710058 GTCTGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTTTATGCACATCAAT
Found at i:710936 original size:18 final size:18
Alignment explanation
Indices: 710909--710980 Score: 91
Period size: 18 Copynumber: 4.3 Consensus size: 18
710899 CAACGGTCAA
*
710909 CGGGTCAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
710927 CGGGTAAA-----CGGGT
1 CGGGTAAACGGGTCGGGT
710940 CGGGTAAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
*
710958 CGGGTCAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
710976 CGGGT
1 CGGGT
710981 TGTGACCGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 13 0.28
18 34 0.72
ACGTcount: A:0.14, C:0.19, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTAAACGGGTCGGGT
Found at i:710950 original size:31 final size:31
Alignment explanation
Indices: 710909--710975 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
710899 CAACGGTCAA
*
710909 CGGGTCAACGGGTCGGGTCGGGTAAACGGGT
1 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
*
710940 CGGGTAAACGGGTCGGGTCGGGTCAACGGGT
1 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
710971 CGGGT
1 CGGGT
710976 CGGGTTGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.49, T:0.16
Consensus pattern (31 bp):
CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
Found at i:710976 original size:13 final size:13
Alignment explanation
Indices: 710922--710957 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
710912 GTCAACGGGT
710922 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
710935 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
710948 CGGGTCGGGT
1 CGGGTCGGGT
710958 CGGGTCAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:720927 original size:19 final size:19
Alignment explanation
Indices: 720900--720939 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
720890 ATCCATAAAA
* *
720900 TATATTTTTATGAATTTTT
1 TATACTTTTAGGAATTTTT
*
720919 TATACTTTTAGGATTTTTT
1 TATACTTTTAGGAATTTTT
720938 TA
1 TA
720940 CAACTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (19 bp):
TATACTTTTAGGAATTTTT
Found at i:721138 original size:29 final size:29
Alignment explanation
Indices: 721101--721156 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
721091 AATATCAAAA
*
721101 TTAATAATATAGTACAGTTACTAAAACTT
1 TTAATAATATAGTACAGGTACTAAAACTT
721130 TTAATAATATAGTACAGGTACTAAAAC
1 TTAATAATATAGTACAGGTACTAAAAC
721157 ATGTATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (29 bp):
TTAATAATATAGTACAGGTACTAAAACTT
Found at i:724279 original size:19 final size:20
Alignment explanation
Indices: 724255--724301 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
724245 GAGTATTATT
724255 TAAAATGTTATTTT-TTACC
1 TAAAATGTTATTTTCTTACC
* *
724274 TAAAATATTATTTTCGTTACT
1 TAAAATGTTATTTTC-TTACC
724295 TAAAATG
1 TAAAATG
724302 AATATTTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (20 bp):
TAAAATGTTATTTTCTTACC
Found at i:725101 original size:105 final size:105
Alignment explanation
Indices: 724919--725130 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
724909 TGCCTTTTGG
724919 TTAGGTCAGGTGTAGGGAACTAGGGATTTGTTATGTTCCTGGCCCGTACAAGAGTTGGGCGAATG
1 TTAGGTCAGGTGTAGGGAACTAGGGATTTGTTATGTTCCTGGCCCGTACAAGAGTTGGGCGAATG
724984 GCATGCATGCACTAATCACCCATAACCAGGAGCCATAAGC
66 GCATGCATGCACTAATCACCCATAACCAGGAGCCATAAGC
725024 TTAGGTCAGGTGTAGGGAACTAGGGATTTGTTATGTTCCTGGCCCGTACAAGAGTTGGGCGAATG
1 TTAGGTCAGGTGTAGGGAACTAGGGATTTGTTATGTTCCTGGCCCGTACAAGAGTTGGGCGAATG
725089 GCATGCATGCACTAATCACCCATAACCAGGAGCCATAAGC
66 GCATGCATGCACTAATCACCCATAACCAGGAGCCATAAGC
725129 TT
1 TT
725131 CGTTGAACAG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (105 bp):
TTAGGTCAGGTGTAGGGAACTAGGGATTTGTTATGTTCCTGGCCCGTACAAGAGTTGGGCGAATG
GCATGCATGCACTAATCACCCATAACCAGGAGCCATAAGC
Found at i:726721 original size:18 final size:18
Alignment explanation
Indices: 726698--726734 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
726688 TTTAAACAAA
726698 TAAAATTAATATATATTT
1 TAAAATTAATATATATTT
* *
726716 TAAAATTACTTTATATTT
1 TAAAATTAATATATATTT
726734 T
1 T
726735 TAGAAAATTA
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:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAAATTAATATATATTT
Found at i:727525 original size:18 final size:19
Alignment explanation
Indices: 727492--727532 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
727482 TTTAAGGGTC
727492 AATTAATAATTTATCATGA
1 AATTAATAATTTATCATGA
*
727511 AATTAGTAA-TTATCATGA
1 AATTAATAATTTATCATGA
727529 AATT
1 AATT
727533 TAATGAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTAATAATTTATCATGA
Found at i:729033 original size:48 final size:48
Alignment explanation
Indices: 728970--729131 Score: 209
Period size: 48 Copynumber: 3.4 Consensus size: 48
728960 ACGTCACTTT
* * * * *
728970 TGTGACGATGGTGCTACCATTAAAGATAATTAGCACGTCTGACGTCTG
1 TGTGACGGTGATGCTACTATTAATGATAATTAGCACGTTTGACGTCTG
*
729018 TGTGACGGTGATGCTACTATTAATGATAATTAGCACGTTTGACGTCCG
1 TGTGACGGTGATGCTACTATTAATGATAATTAGCACGTTTGACGTCTG
* * * **
729066 TGTGACGGTGGTGTTACTATTAATGGTACCTAGCACGTTTGACGTCTG
1 TGTGACGGTGATGCTACTATTAATGATAATTAGCACGTTTGACGTCTG
729114 TGTGACGGT-AGTGCTACT
1 TGTGACGGTGA-TGCTACT
729132 TTCAATCGTA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (48 bp):
TGTGACGGTGATGCTACTATTAATGATAATTAGCACGTTTGACGTCTG
Found at i:729143 original size:48 final size:46
Alignment explanation
Indices: 729000--729148 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 46
728990 TAAAGATAAT
* **
729000 TAGCACGTCTGACGTCTGTGTGACGGTGATGCTACTATTAATGATAAT
1 TAGCACGTTTGACGTCTGTGTGACGGTG-TGCTACTATTAATG-TACC
* *
729048 TAGCACGTTTGACGTCCGTGTGACGGTGGTGTTACTATTAATGGTACC
1 TAGCACGTTTGACGTCTGTGTGACGGT-GTGCTACTATTAAT-GTACC
729096 TAGCACGTTTGACGTCTGTGTGACGGTAGTGCTACT-TTCAATCGTACC
1 TAGCACGTTTGACGTCTGTGTGACGGT-GTGCTACTATT-AAT-GTACC
729144 TAGCA
1 TAGCA
729149 TGTCCGACGT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
47 2 0.02
48 85 0.96
49 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (46 bp):
TAGCACGTTTGACGTCTGTGTGACGGTGTGCTACTATTAATGTACC
Found at i:729285 original size:34 final size:34
Alignment explanation
Indices: 729239--729317 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
729229 TACATTGTGC
* *
729239 TATGAAAAGAATAAAATGAAAGGCACATGTTTGA
1 TATGAAATGAATAAAATGAAAGGCACAAGTTTGA
* * *
729273 TGTGAAATGAATAAAGTGAAAGGTACAAGTTTGA
1 TATGAAATGAATAAAATGAAAGGCACAAGTTTGA
729307 TATGAAATGAA
1 TATGAAATGAA
729318 AATATACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (34 bp):
TATGAAATGAATAAAATGAAAGGCACAAGTTTGA
Found at i:729596 original size:2 final size:2
Alignment explanation
Indices: 729587--729620 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
729577 TAATGTTTTC
729587 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
729621 CTATTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:730209 original size:19 final size:19
Alignment explanation
Indices: 730186--730223 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
730176 TTACTTTTTA
730186 AATTATT-T-TTATAA-AT
1 AATTATTATCTTATAATAT
730202 AATTATTATCTTATAATAT
1 AATTATTATCTTATAATAT
730221 AAT
1 AAT
730224 ATTTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 6 0.32
19 5 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTATTATCTTATAATAT
Found at i:731716 original size:11 final size:11
Alignment explanation
Indices: 731700--731740 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
731690 TATTAATTAT
731700 TAAAATATTTA
1 TAAAATATTTA
731711 TAAAATATTTA
1 TAAAATATTTA
*
731722 T-TAATATTTA
1 TAAAATATTTA
731732 TAATAATAT
1 TAA-AATAT
731741 AATATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATATTTA
Found at i:731740 original size:12 final size:12
Alignment explanation
Indices: 731703--731740 Score: 55
Period size: 10 Copynumber: 3.4 Consensus size: 12
731693 TAATTATTAA
731703 AATATTTATAA-
1 AATATTTATAAT
731714 AATATTTAT--T
1 AATATTTATAAT
731724 AATATTTATAAT
1 AATATTTATAAT
731736 AATAT
1 AATAT
731741 AATATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.38
11 9 0.38
12 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTATAAT
Found at i:731743 original size:8 final size:8
Alignment explanation
Indices: 731730--731815 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 8
731720 TATTAATATT
731730 TATAATAA
1 TATAATAA
*
731738 TATAATAT
1 TATAATAA
*
731746 TAT-AT-T
1 TATAATAA
* *
731752 TTTAATAT
1 TATAATAA
731760 TATAATAA
1 TATAATAA
*
731768 AATAATCAA
1 TATAAT-AA
731777 TTATAATAA
1 -TATAATAA
*
731786 AATAATCAA
1 TATAAT-AA
*
731795 T-T-ATAT
1 TATAATAA
731801 TATAATAA
1 TATAATAA
731809 TATAATA
1 TATAATA
731816 TAATATAAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 5 0.08
7 7 0.11
8 38 0.62
9 6 0.10
10 5 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
TATAATAA
Found at i:731755 original size:24 final size:21
Alignment explanation
Indices: 731703--731752 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
731693 TAATTATTAA
*
731703 AATATTTATAAAATATTTATT
1 AATATTTATAAAATATATATT
731724 AATATTTATAATAATATAATATT
1 AATATTTATAA-AATAT-ATATT
731747 -ATATTT
1 AATATTT
731753 TTAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTATAAAATATATATT
Found at i:731765 original size:30 final size:32
Alignment explanation
Indices: 731715--731773 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
731705 TATTTATAAA
*
731715 ATATTTATTAATATTTATAATAATATAATATT
1 ATATTTATTAATATTTATAATAAAATAATATT
731747 ATATTT-TTAATA-TTATAATAAAATAAT
1 ATATTTATTAATATTTATAATAAAATAAT
731774 CAATTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 6 0.23
32 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATTTATTAATATTTATAATAAAATAATATT
Found at i:731781 original size:18 final size:18
Alignment explanation
Indices: 731758--731809 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
731748 TATTTTTAAT
731758 ATTATAATAAAATAATCA
1 ATTATAATAAAATAATCA
731776 ATTATAATAAAATAATCA
1 ATTATAATAAAATAATCA
* *
731794 ATTATATTATAATAAT
1 ATTATAATAAAATAAT
731810 ATAATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATAATAAAATAATCA
Found at i:731787 original size:83 final size:83
Alignment explanation
Indices: 731712--731871 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
731702 AAATATTTAT
* *
731712 AAAATATT-TATTAATAT-TTATAATAATATA-ATATTATATTTTTAATATTATAATAA-A-ATA
1 AAAATATTATAATAATATAATATAAT-ATA-AGATATTATATTTTT-AT-TT-TAATAATATATA
*
731772 ATCAATTA-TAATAAAATAATCA
61 ATAAATTATTAATAAAATAATCA
**
731794 ATTATATTATAATAATATAATATAATATAAGATATTATATTTTTATTTTAATAATATATAATAAA
1 AAAATATTATAATAATATAATATAATATAAGATATTATATTTTTATTTTAATAATATATAATAAA
731859 TTATTAATAAAAT
66 TTATTAATAAAAT
731872 TTATATTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
80 6 0.09
81 3 0.04
82 19 0.28
83 33 0.49
84 6 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (83 bp):
AAAATATTATAATAATATAATATAATATAAGATATTATATTTTTATTTTAATAATATATAATAAA
TTATTAATAAAATAATCA
Found at i:731817 original size:18 final size:18
Alignment explanation
Indices: 731756--731823 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 18
731746 TATATTTTTA
*
731756 ATATTATAATAAAATAAT
1 ATATTATAATAATATAAT
731774 CA-ATTATAATAAAATAATCAATT
1 -ATATTATAAT--AAT-AT-AA-T
731797 ATATTATAATAATATAAT
1 ATATTATAATAATATAAT
*
731815 ATAATATAA
1 ATATTATAA
731824 GATATTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
18 17 0.41
19 3 0.07
20 4 0.10
21 5 0.12
22 3 0.07
23 9 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATTATAATAATATAAT
Found at i:731904 original size:27 final size:26
Alignment explanation
Indices: 731861--731948 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
731851 ATAATAAATT
*
731861 ATTAATAA-AATTTATATTATTTATTA
1 ATTAATAAGAA-TAATATTATTTATTA
* * *
731887 ATTTCAT-AGAAATAATATTATTAAATA
1 A-TTAATAAG-AATAATATTATTTATTA
731914 ATTAATAATGAATAATATTATTTATATA
1 ATTAATAA-GAATAATATTATTTAT-TA
*
731942 TTTAATA
1 ATTAATA
731949 TTAATCTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
26 6 0.12
27 31 0.65
28 11 0.23
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTAATAAGAATAATATTATTTATTA
Found at i:732000 original size:23 final size:23
Alignment explanation
Indices: 731974--732018 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
731964 AATAATATTT
*
731974 TAATAAAGGTATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
731997 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
732019 ATATAATACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:732162 original size:20 final size:19
Alignment explanation
Indices: 732115--732166 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
732105 AATAAAATTA
732115 TAAAAATAATATTTAATAAT
1 TAAAAATAAT-TTTAATAAT
* *
732135 AAATAAATAATTTTAATATTT
1 TAA-AAATAATTTTAATA-AT
732156 TAAAAATAATT
1 TAAAAATAATT
732167 ATATTAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAATAATTTTAATAAT
Found at i:733949 original size:68 final size:68
Alignment explanation
Indices: 733816--733957 Score: 205
Period size: 68 Copynumber: 2.1 Consensus size: 68
733806 TTAGTTTGAA
* * *
733816 TAAAGGGAGGTGCATTTTGGAATGACAGATTCTTAAGGGATCAGTGGTGCTAAAAAAGGACGATA
1 TAAATGGAGGTGCATTTTGGAATGACAGATCCTTAAGGAATCAGTGGTGCTAAAAAAGGACGATA
733881 TAT
66 TAT
* **
733884 TAAATGGAGGTGCATTTTGGAATGACAGATCCTTAAGGAATCAGTGTTGCTCAAAACGGGA-GAT
1 TAAATGGAGGTGCATTTTGGAATGACAGATCCTTAAGGAATCAGTGGTGCT-AAAAAAGGACGAT
*
733948 ATCT
65 ATAT
733952 TAAATG
1 TAAATG
733958 AAATCGTATG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 59 0.89
69 7 0.11
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (68 bp):
TAAATGGAGGTGCATTTTGGAATGACAGATCCTTAAGGAATCAGTGGTGCTAAAAAAGGACGATA
TAT
Found at i:733974 original size:39 final size:39
Alignment explanation
Indices: 733931--734010 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
733921 GAATCAGTGT
*
733931 TGCTCAAAACGGGAGATATCTTAAATGAAATCGTATGCA
1 TGCTCAAAACGGGAGATATCTTAAATGAAAGCGTATGCA
733970 TGCTCAAAACGGGAGATATCTTAAATGAAAGCGTATGCA
1 TGCTCAAAACGGGAGATATCTTAAATGAAAGCGTATGCA
734009 TG
1 TG
734011 TGAAACGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (39 bp):
TGCTCAAAACGGGAGATATCTTAAATGAAAGCGTATGCA
Found at i:746968 original size:6 final size:6
Alignment explanation
Indices: 746957--746982 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
746947 TCTACATTAA
746957 TGGAGT TGGAGT TGGAGT TGGAGT TG
1 TGGAGT TGGAGT TGGAGT TGGAGT TG
746983 AAAAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGAGT
Found at i:749956 original size:37 final size:36
Alignment explanation
Indices: 749914--750032 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
749904 GGTAATTAAT
749914 TTTGAAAAAATGTTTTTCAAAGTTTGATAAATGTTTC
1 TTTG-AAAAATGTTTTTCAAAGTTTGATAAATGTTTC
** *
749951 TTTG-AAAATGGCTTTCAAAGTTTGGTAAATGTTTC
1 TTTGAAAAATGTTTTTCAAAGTTTGATAAATGTTTC
*
749986 TTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT-
1 TTTGAAAAAT-GTTTTTCAAAGTTTGATAAATGTTTC
*
750022 GTTGAAAAATG
1 TTTGAAAAATG
750033 ATAATGAGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 33 0.46
36 14 0.19
37 25 0.35
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
TTTGAAAAATGTTTTTCAAAGTTTGATAAATGTTTC
Found at i:754539 original size:35 final size:34
Alignment explanation
Indices: 754488--754580 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
754478 GGAGATTGTT
754488 AAAATGGTTTTC-AAGTTTGGTAA-CCAACTTTG
1 AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
****
754520 AAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 --AAAATGGTTTTCAAAGTTTGGT-AATCCAACTTTG
754557 AAAATGGTTTTCAAAGTTTGGTAA
1 AAAATGGTTTTCAAAGTTTGGTAA
754581 ATGTTTCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 14 0.27
35 31 0.60
36 2 0.04
37 5 0.10
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (34 bp):
AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
Found at i:754547 original size:21 final size:21
Alignment explanation
Indices: 754523--754583 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
754513 AACTTTGAAA
754523 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
754544 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
754558 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
754579 AAATG
1 AAATG
754584 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:754629 original size:36 final size:36
Alignment explanation
Indices: 754515--754634 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
754505 TGGTAACCAA
754515 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
754552 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
754587 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
754624 -GTTGAAAAATG
1 CTTTGAAAAATG
754635 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:755627 original size:19 final size:19
Alignment explanation
Indices: 755603--755646 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
755593 TGGTGAATCT
755603 ATGTGTAGTTGGAATGGGC
1 ATGTGTAGTTGGAATGGGC
*
755622 ATGTGTAGTTGGAGTGGGC
1 ATGTGTAGTTGGAATGGGC
755641 ATGTGT
1 ATGTGT
755647 TTATCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.43, T:0.34
Consensus pattern (19 bp):
ATGTGTAGTTGGAATGGGC
Found at i:756772 original size:31 final size:30
Alignment explanation
Indices: 756715--756772 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
756705 ATCACTAAAA
* *
756715 TTTTAAAAATTATAAAATAATTATTAACTT
1 TTTTAAAAATAATAAAATAATCATTAACTT
*
756745 TTTTAAATAATAATCAAATAATCATTAA
1 TTTTAAA-AATAATAAAATAATCATTAA
756773 ATTACATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTAAAAATAATAAAATAATCATTAACTT
Found at i:757127 original size:30 final size:30
Alignment explanation
Indices: 757087--757144 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
757077 TAAGTATTAT
757087 GGAAAAAAAT-ATAGTTTAAATACTAAAAC
1 GGAAAAAAATAATAGTTTAAATACTAAAAC
*
757116 GGAACAAAAATAATAGTTTAAGTACTAAA
1 GGAA-AAAAATAATAGTTTAAATACTAAA
757145 CGTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 6 0.23
31 16 0.62
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.24
Consensus pattern (30 bp):
GGAAAAAAATAATAGTTTAAATACTAAAAC
Found at i:757203 original size:11 final size:11
Alignment explanation
Indices: 757189--757264 Score: 52
Period size: 11 Copynumber: 7.3 Consensus size: 11
757179 TAACGAAATT
*
757189 ATTTTATAATA
1 ATTTAATAATA
757200 ATTTAAT-A-A
1 ATTTAATAATA
* *
757209 ACTTAATAATT
1 ATTTAATAATA
**
757220 ATTTTGTAATA
1 ATTTAATAATA
757231 ATTTAAT-A-A
1 ATTTAATAATA
* *
757240 ATTTAATGATT
1 ATTTAATAATA
*
757251 ATTTTATAATA
1 ATTTAATAATA
757262 ATT
1 ATT
757265 AAAAATGGCC
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
9 15 0.31
10 4 0.08
11 29 0.60
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:757222 original size:31 final size:31
Alignment explanation
Indices: 757185--757264 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
757175 CTTATAACGA
757185 AATTATTTTATAATAATTTAATAAACTTAAT
1 AATTATTTTATAATAATTTAATAAACTTAAT
* *
757216 AATTATTTTGTAATAATTTAATAAATTTAAT
1 AATTATTTTATAATAATTTAATAAACTTAAT
*
757247 GATTATTTTATAATAATT
1 AATTATTTTATAATAATT
757265 AAAAATGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (31 bp):
AATTATTTTATAATAATTTAATAAACTTAAT
Found at i:767969 original size:14 final size:15
Alignment explanation
Indices: 767952--768068 Score: 54
Period size: 14 Copynumber: 8.2 Consensus size: 15
767942 CACATTGGTC
*
767952 ATATCTCATA-GCAT
1 ATATCACATATGCAT
767966 ATATCACATATGCAT
1 ATATCACATATGCAT
*
767981 ATAATCATATATGTCAT
1 AT-ATCACATATG-CAT
* *
767998 -T-TCATATATTCAT
1 ATATCACATATGCAT
* ** *
768011 ATAGCTTAT-TTCAT
1 ATATCACATATGCAT
*
768025 -T-TCACAT-TG-GT
1 ATATCACATATGCAT
*
768036 CATATCTCATA-GCAT
1 -ATATCACATATGCAT
768051 ATATCACATATGCAT
1 ATATCACATATGCAT
768066 ATA
1 ATA
768069 ATCATGTATA
Statistics
Matches: 79, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
11 1 0.01
12 4 0.05
13 5 0.06
14 38 0.48
15 18 0.23
16 10 0.13
17 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATCACATATGCAT
Found at i:768000 original size:85 final size:85
Alignment explanation
Indices: 767884--768091 Score: 352
Period size: 85 Copynumber: 2.5 Consensus size: 85
767874 ATTTCATATC
767884 ATATCACATATTGCATAT--TC--ATATGTCATTTCATATATTCATATAGCTTATTTCATTTCAC
1 ATATCACATA-TGCATATAATCATATATGTCATTTCATATATTCATATAGCTTATTTCATTTCAC
767945 ATTGGTCATATCTCATAGCAT
65 ATTGGTCATATCTCATAGCAT
767966 ATATCACATATGCATATAATCATATATGTCATTTCATATATTCATATAGCTTATTTCATTTCACA
1 ATATCACATATGCATATAATCATATATGTCATTTCATATATTCATATAGCTTATTTCATTTCACA
768031 TTGGTCATATCTCATAGCAT
66 TTGGTCATATCTCATAGCAT
* * *
768051 ATATCACATATGCATATAATCATGTATATCATATCATATAT
1 ATATCACATATGCATATAATCATATATGTCATTTCATATAT
768092 CTTATGTTTC
Statistics
Matches: 119, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
81 7 0.06
82 10 0.08
83 2 0.02
85 100 0.84
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (85 bp):
ATATCACATATGCATATAATCATATATGTCATTTCATATATTCATATAGCTTATTTCATTTCACA
TTGGTCATATCTCATAGCAT
Found at i:771471 original size:182 final size:182
Alignment explanation
Indices: 771248--772580 Score: 1268
Period size: 181 Copynumber: 7.5 Consensus size: 182
771238 TAATTAAAGA
* * * **
771248 TCAACATATCTGGTATCTATTTACCGGTTTTGTCA-TTTTGAGACCGGTTTTATCATATTTTTAC
1 TCAACATATCTGATAACT-TTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTAC
* * *
771312 CTGTTATATTATTTTGGATCGATACATTTTCATAAAGTGTCGACATTTTTTAAGCGCTATAACTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* * * * *
771377 ATTTTTTTTTAAATTCATAAAGTGTCGATATTTATATTAAATTATTGACACTT
130 ATTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
*
771430 TCAACATATCTGATAACTTTTTCCGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACC
1 TCAACATATCTGATAACTTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTACC
* * *
771495 TGTTATATTGGTAAT-GATCGATACATTTTAATAAAGTGTCGACACTTTCTAAGCGCTATAACTT
66 TGTTATATT-GTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
*
771559 CTTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
130 ATTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
* * * *
771612 TCAATATATC-CAGTAACTTTTTCTGGTTTTGTCATTTTTTAGACAAGTTTTATCATATTTTTAC
1 TCAACATATCTGA-TAACTTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTAC
*
771676 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTT-A--G-T-T---TA
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
** * * * * *
771733 ATT-TC--AGAAAGTATC-GATACT-T--ATATTAA-ATTATCGACACT-TTCA-AC-T
130 ATTATCTTTTAAA-T-TCAGAAAGTGTCGATACTAATATTA---A-ATTATTGACACTT
* * * ** * * **
771781 T----AT-TC-GGTATCGTTTTACTAGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTAC
1 TCAACATATCTGATAAC-TTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTAC
* * * ** * * *
771840 ATGTTATATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* * * * *
771904 CTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTT
130 ATTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
* * * * * * **
771957 TC-A-ATATCCGGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTAC
1 TCAACATATCTGATAAC-TTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTAC
* * *
772020 CTATTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAATTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* * * *
772085 TTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTT
130 ATTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
* * * * ** *
772138 TTAACATATCCGGTAAC-TTTTCTGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACA
1 TCAACATATCTGATAACTTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTACC
* * * *
772202 TGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTC
66 TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTA
* *
772267 TTCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTT
131 TTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
* * * * *
772319 TCAATATATCCGGTAACTTTTTCCTGTTTTATCATTTTTGAGACCAA-TTTTATCATATTTTTAC
1 TCAACATATCTGATAACTTTTTCCGGTTTTGTCATTTTTGAGA-CAAGTTTTATCATATTTTTAC
* * * ** * * *
772383 TTGTTATATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* * * * *
772447 -CTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC--
130 ATTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
* * * * * * * * *
772497 TCGACACATATCCGGTAGCGTTTTACCGGTTTTGTTA-TTTTGGGAC-CGATTTTGTCATATTTG
1 TC-A-ACATATCTGATAAC-TTTTTCCGGTTTTGTCATTTTTGAGACAAG-TTTTATCATATTTT
* *
772560 TACCTGTAATATTGCTATGGA
62 TACCTGTTATATTGTTATGGA
772581 GTGATCCATT
Statistics
Matches: 982, Mismatches: 125, Indels: 90
0.82 0.10 0.08
Matches are distributed among these distances:
163 24 0.02
164 64 0.07
165 2 0.00
166 1 0.00
167 1 0.00
168 5 0.01
169 8 0.01
170 2 0.00
171 11 0.01
172 11 0.01
173 11 0.01
174 10 0.01
175 2 0.00
176 7 0.01
177 5 0.01
178 5 0.01
179 5 0.01
180 167 0.17
181 321 0.33
182 306 0.31
183 14 0.01
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (182 bp):
TCAACATATCTGATAACTTTTTCCGGTTTTGTCATTTTTGAGACAAGTTTTATCATATTTTTACC
TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTA
TTATCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTT
Found at i:771884 original size:163 final size:163
Alignment explanation
Indices: 771566--771887 Score: 432
Period size: 163 Copynumber: 2.0 Consensus size: 163
771556 CTTCTTATCT
* *
771566 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATTGACACTTTCAATATATCCAGTAACTT
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCAGTAACTT
* * * * *
771631 TTTCTGGTTTTGTCATTTTTTAGACAAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
66 TTACTAGTTTTGTCAATTTTGAGACAAGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
*
771696 GATACATTTTCATAAAGTGTCGACACTTTTTAG
131 GATACATTTTCATAAAGTATCGACACTTTTTAG
* * * * *
771729 TTTAATTTCAGAAAGTATCGATACTTATATTAAATTATCGACACTTTCAACT-TATTCGGTATCG
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAA-TATATCCAGTAAC-
* ** *
771793 TTTTACTAGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTACATGTTATATTGTTGTGGA
64 TTTTACTAGTTTTGTCAATTTTGAGACAAGTTTTATCATATTTTTACATGTTATATTGTTATGGA
* **
771858 TCGATA-TTTTTTTTAAAGTATCGACACTTT
129 TCGATACATTTTCATAAAGTATCGACACTTT
771888 ATAGGCGCTA
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
163 74 0.54
164 63 0.46
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (163 bp):
TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCAGTAACTT
TTACTAGTTTTGTCAATTTTGAGACAAGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
GATACATTTTCATAAAGTATCGACACTTTTTAG
Found at i:773057 original size:2 final size:2
Alignment explanation
Indices: 773050--773075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
773040 CTTACCAAGG
773050 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
773076 CATTTTAATA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:782635 original size:31 final size:31
Alignment explanation
Indices: 782592--782659 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
782582 AAATCATCAG
*
782592 AAAACAAAAGAAAAATAAACATCAAACATTGT
1 AAAA-AAAAGAAAAACAAACATCAAACATTGT
*
782624 AAAAAAAAGAAAAACAAATATCAAACATTGT
1 AAAAAAAAGAAAAACAAACATCAAACATTGT
782655 AAAAA
1 AAAAA
782660 CTAACCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.15
Consensus pattern (31 bp):
AAAAAAAAGAAAAACAAACATCAAACATTGT
Found at i:783132 original size:19 final size:20
Alignment explanation
Indices: 783108--783158 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
783098 AATGACCAAT
783108 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
783127 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
783147 AAAATCGCAACG
1 AAAATCGCAACG
783159 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:783152 original size:20 final size:20
Alignment explanation
Indices: 783108--783488 Score: 178
Period size: 20 Copynumber: 18.6 Consensus size: 20
783098 AATGACCAAT
*
783108 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
783127 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
783147 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
783167 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
* **
783187 AAAATTGCAACGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
783208 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
783231 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * *
783251 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * * *
783271 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTGAG
* *
783291 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
783311 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T-G-AG
* *
783334 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * * *
783354 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTGAG
* *
783374 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
783394 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T-G-AG
* *
783417 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
783437 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * ***
783457 AGAATCGCAACGCTAAAAAG
1 AAAATCGCAACGCGATTGAG
783477 AAAATCGCAACG
1 AAAATCGCAACG
783489 GTCAAAAGAA
Statistics
Matches: 294, Mismatches: 51, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.05
20 213 0.72
21 19 0.06
22 6 0.02
23 40 0.14
24 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:783340 original size:83 final size:83
Alignment explanation
Indices: 783253--783466 Score: 383
Period size: 83 Copynumber: 2.6 Consensus size: 83
783243 CGATTGATAG
* *
783253 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
783318 CAACGCGATCTAGAAGAA
66 CAACGCGATCTAGAAGAA
783336 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
783401 CAACGCGATCTAGAAGAA
66 CAACGCGATCTAGAAGAA
* * *
783419 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAA
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAA
783467 CGCTAAAAAG
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 126 1.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.19
Consensus pattern (83 bp):
AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
CAACGCGATCTAGAAGAA
Found at i:783344 original size:103 final size:106
Alignment explanation
Indices: 783212--783466 Score: 360
Period size: 103 Copynumber: 2.5 Consensus size: 106
783202 GCTTCCAAGT
* * *
783212 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAGAATC
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
* * * * *
783277 GCAATGCGATTTATAGAATCGCAATGCGAT-T-G-AGAGAG
66 GCAATGCGATTGAGAGAATCGCAACGCGATCTAGAAGAAAA
*
783315 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
*
783380 GCAATGCGATTGAGAGAGTCGCAACGCGATCTAGAAGAAAA
66 GCAATGCGATTGAGAGAATCGCAACGCGATCTAGAAGAAAA
* *
783421 TCGCAATGCGA-CT-G-AGAGAATCGCAATGCGACTGAGAGAATCGCAA
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAA
783467 CGCTAAAAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
103 118 0.86
104 2 0.01
105 3 0.02
106 14 0.10
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (106 bp):
TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
GCAATGCGATTGAGAGAATCGCAACGCGATCTAGAAGAAAA
Found at i:783485 original size:83 final size:83
Alignment explanation
Indices: 783228--783488 Score: 341
Period size: 83 Copynumber: 3.2 Consensus size: 83
783218 CGCGATTTAG
* * *
783228 AAGAAAATCGCAATGCGAT-T-GATAG--AATCGCAATGCGATTGATAGAATCGCAATGCGATTT
1 AAGAAAATCGCAACGCGATCTAGA-AGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTT
783289 ATAGAATCGCAATGCGATT
65 ATAGAATCGCAATGCGATT
* * *
783308 GAGAGAGTCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTA
1 AAGAAAATCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTA
783373 TAGAATCGCAATGCGATT
66 TAGAATCGCAATGCGATT
* * * * *
783391 GAGAGAGTCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGA
1 AAGAAAATCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTA
* * * **
783456 GAGAATCGCAACGCTAAA
66 TAGAATCGCAATGCGATT
783474 AAGAAAATCGCAACG
1 AAGAAAATCGCAACG
783489 GTCAAAAGAA
Statistics
Matches: 161, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 15 0.09
81 3 0.02
82 2 0.01
83 141 0.88
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (83 bp):
AAGAAAATCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTA
TAGAATCGCAATGCGATT
Found at i:783495 original size:20 final size:20
Alignment explanation
Indices: 783459--783498 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
783449 CGACTGAGAG
783459 AATCGCAACGCTAAAAAGAA
1 AATCGCAACGCTAAAAAGAA
* *
783479 AATCGCAACGGTCAAAAGAA
1 AATCGCAACGCTAAAAAGAA
783499 TAGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (20 bp):
AATCGCAACGCTAAAAAGAA
Found at i:783586 original size:6 final size:6
Alignment explanation
Indices: 783575--783638 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
783565 AGACACGTAT
783575 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
783623 GACCAC GACCAC GACC
1 GACCAC GACCAC GACC
783639 CGAGACGAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:784342 original size:6 final size:6
Alignment explanation
Indices: 784326--784477 Score: 297
Period size: 6 Copynumber: 25.5 Consensus size: 6
784316 TCTCGTCTCG
784326 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
784373 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
784421 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
784469 GGTCGT GGT
1 GGTCGT GGT
784478 AATACGTGTC
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.03
6 141 0.97
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:784637 original size:20 final size:20
Alignment explanation
Indices: 784612--784665 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
784602 TGGAAGCTCG
*
784612 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
784632 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
784652 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
784666 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:784676 original size:40 final size:39
Alignment explanation
Indices: 784632--784722 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 39
784622 TTCTTTTGAC
***
784632 CGTTGCGATTTTCTTTTTAACGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATAACGTTGCGATTTT-TAAATCG
** *
784672 CGTTGCGATTTTCTAAATCGCGTTGCGATTTTTATATCG
1 CGTTGCGATTTTCTAAATAACGTTGCGATTTTTAAATCG
784711 CGTTGCGATTTT
1 CGTTGCGATTTT
784723 ATTGGTCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
39 18 0.40
40 27 0.60
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (39 bp):
CGTTGCGATTTTCTAAATAACGTTGCGATTTTTAAATCG
Found at i:784712 original size:19 final size:20
Alignment explanation
Indices: 784652--784722 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
784642 TTCTTTTTAA
784652 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
784672 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
*
784692 CGTTGCGATTTT-TATATCG
1 CGTTGCGATTTTCTAAATCG
784711 CGTTGCGATTTT
1 CGTTGCGATTTT
784723 ATTGGTCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:785739 original size:22 final size:22
Alignment explanation
Indices: 785687--785739 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
785677 GCTTTAATTC
785687 ATAAAC-TTTTTAACAAGAATA
1 ATAAACATTTTTAACAAGAATA
* *
785708 ACAAAGATTTTTAACAAG-ATCA
1 ATAAACATTTTTAACAAGAAT-A
*
785730 TTAAACATTT
1 ATAAACATTT
785740 ATTTTCATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAACATTTTTAACAAGAATA
Found at i:794168 original size:16 final size:17
Alignment explanation
Indices: 794147--794183 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
794137 TAGCTCCCAA
*
794147 ATTACATGT-AATAAAT
1 ATTACATCTAAATAAAT
794163 ATTACATCTAAATAAAT
1 ATTACATCTAAATAAAT
794180 ATTA
1 ATTA
794184 TTTTATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTACATCTAAATAAAT
Found at i:794221 original size:14 final size:14
Alignment explanation
Indices: 794194--794231 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
794184 TTTTATTCTC
794194 AAAATAAAATTTTA
1 AAAATAAAATTTTA
794208 AAAACTAAAA-TTTA
1 AAAA-TAAAATTTTA
*
794222 AAAAGAAAAT
1 AAAATAAAAT
794232 AGAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.19
14 12 0.57
15 5 0.24
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATAAAATTTTA
Found at i:794618 original size:20 final size:21
Alignment explanation
Indices: 794590--794628 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
794580 TAGAAGTTAC
*
794590 AAATTATAATTT-TTTATTAA
1 AAATAATAATTTATTTATTAA
794610 AAATAATAATTTATTTATT
1 AAATAATAATTTATTTATT
794629 TATTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATAATAATTTATTTATTAA
Found at i:805832 original size:21 final size:19
Alignment explanation
Indices: 805798--805992 Score: 138
Period size: 21 Copynumber: 9.5 Consensus size: 19
805788 TTGGTTATTT
*
805798 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
*
805817 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
*
805840 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
805859 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* *
805878 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
*
805901 TTCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* *
805920 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
* * *
805943 TCTAAATTCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGA--TAG
* *
805964 TCCAAATTTGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
*
805983 TCGAAGTTCG
1 TCCAAGTTCG
805993 CGTTGCGATT
Statistics
Matches: 143, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
19 51 0.36
21 67 0.47
23 25 0.17
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (19 bp):
TCCAAGTTCGTTGCGATAG
Found at i:805853 original size:42 final size:40
Alignment explanation
Indices: 805797--806010 Score: 175
Period size: 42 Copynumber: 5.2 Consensus size: 40
805787 TTTGGTTATT
805797 TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGATTTA
805839 TTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGA--TA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATTTA
* * * * *
805877 GTCGAAGTTCGCGTTGCGATTTATTTCAAGTTCGTTGCGA--TA
1 TTCCAAATT--CGTTGCGA--TAGTCCAAGTTCGTTGCGATTTA
* * * * * *
805919 GTCGAAGTTCGCGTTGCGATTTATTCTAAATTCGTTGCGATTTA
1 TTCCAAATT--CGTTGCGA--TAGTCCAAGTTCGTTGCGATTTA
* *
805963 TTCCAAATTTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGATTTA
806005 TTCCAA
1 TTCCAA
806011 GTTCCTGGTG
Statistics
Matches: 149, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
38 8 0.05
40 24 0.16
42 109 0.73
44 8 0.05
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (40 bp):
TTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATTTA
Found at i:805893 original size:61 final size:62
Alignment explanation
Indices: 805798--806001 Score: 254
Period size: 61 Copynumber: 3.3 Consensus size: 62
805788 TTGGTTATTT
*
805798 TCCAAATT-CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* * *
805859 TCCAAGTT-CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAGTTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* * * * *
805920 TCGAAGTTCGCGTTGCGATTTATTCTAAATT--CGTTGCGATTTATTCCAAATTTGTTGCGATAG
1 TCCAAGTTC-CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
805983 TCGAAGTTCGCGTTGCGAT
1 TCCAAGTTC-CGTTGCGAT
806002 TTATTCCAAG
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
61 65 0.51
63 55 0.43
65 8 0.06
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (62 bp):
TCCAAGTTCCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:805963 original size:63 final size:64
Alignment explanation
Indices: 805827--806007 Score: 255
Period size: 63 Copynumber: 2.9 Consensus size: 64
805817 TCCAAGTTCG
* * *
805827 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGA--TAGTCGAAGTTC
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAATTC
* * *
805887 GCGTTGCGATTTATTTCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAATT-
1 -CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAATTC
*
805951 CGTTGCGATTTATTCCAAATTTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTC
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTC
806008 CAAGTTCCTG
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
61 37 0.35
63 62 0.58
65 8 0.07
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (64 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAATTC
Found at i:806757 original size:6 final size:6
Alignment explanation
Indices: 806746--806772 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
806736 GTCCGTCTCG
806746 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
806773 AATACTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:806914 original size:21 final size:21
Alignment explanation
Indices: 806862--806944 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
806852 CGTTGCGATT
*
806862 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
806881 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
806904 TTGGACTATCGCAACTCGAAC
1 TTGGACTATCGCAACGCGAAC
* * *
806925 TTTGACTATAGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
806945 TATGTAAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.12
21 36 0.69
23 10 0.19
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:807455 original size:23 final size:23
Alignment explanation
Indices: 807412--807456 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
807402 TTACCTTTAA
*
807412 AATTTTATAATTTTATATTTCTG
1 AATTTTATAATTTAATATTTCTG
*
807435 AATTTT-TAATATTAATTTTTCT
1 AATTTTATAAT-TTAATATTTCT
807457 CGTATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
AATTTTATAATTTAATATTTCTG
Found at i:810778 original size:24 final size:24
Alignment explanation
Indices: 810747--810810 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
810737 GTTTGTTGGT
* * * *
810747 TTTATAAGTTCGTTTGTTGACTTG
1 TTTATAAGCTCGTTTATCGACTCG
*
810771 TTTATAAGCTCTTTTATCGACTCG
1 TTTATAAGCTCGTTTATCGACTCG
*
810795 TTTATAAGCTCATTTA
1 TTTATAAGCTCGTTTA
810811 CTCGGTTCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (24 bp):
TTTATAAGCTCGTTTATCGACTCG
Found at i:814386 original size:17 final size:17
Alignment explanation
Indices: 814364--814397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
814354 GATTTTAGTA
814364 TTATTTAATAACTAAAT
1 TTATTTAATAACTAAAT
*
814381 TTATTTAATAAGTAAAT
1 TTATTTAATAACTAAAT
814398 ACTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATTTAATAACTAAAT
Found at i:814434 original size:16 final size:17
Alignment explanation
Indices: 814413--814454 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
814403 TTTATACAAT
814413 AAATTTTATGG-AATTA
1 AAATTTTATGGTAATTA
* *
814429 AAATTTTTTGGTGATTA
1 AAATTTTATGGTAATTA
814446 AATATTTTA
1 AA-ATTTTA
814455 ACTCTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
17 6 0.29
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
AAATTTTATGGTAATTA
Found at i:816085 original size:6 final size:6
Alignment explanation
Indices: 816074--816100 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
816064 ACCTTGGCTT
816074 CTAAGC CTAAGC CTAAGC CTAAGC CTA
1 CTAAGC CTAAGC CTAAGC CTAAGC CTA
816101 GGTTTTGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.19
Consensus pattern (6 bp):
CTAAGC
Found at i:820060 original size:19 final size:19
Alignment explanation
Indices: 820008--820068 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
819998 GAAAGTTCTG
*
820008 AATAAATAAT-ATATT-AC
1 AATAAATAATAATATTAAA
* * *
820025 AATAACCTTATACTATTAAA
1 AATAA-ATAATAATATTAAA
*
820045 AATAAATAATAATATTAAT
1 AATAAATAATAATATTAAA
820064 AATAA
1 AATAA
820069 TAAGAGGATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 19 0.58
20 6 0.18
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATAATAATATTAAA
Found at i:824058 original size:30 final size:31
Alignment explanation
Indices: 824024--824087 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
824014 TTCTTTCACA
*
824024 CAACTTTACTTTCTT-TTCAATTTATTCC-CT
1 CAACTTTA-TATCTTATTCAATTTATTCCTCT
824054 CAACTTTATATCTTATTCAATTTATTCCTCT
1 CAACTTTATATCTTATTCAATTTATTCCTCT
824085 CAA
1 CAA
824088 TCCAAAGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 5 0.16
30 21 0.68
31 5 0.16
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (31 bp):
CAACTTTATATCTTATTCAATTTATTCCTCT
Found at i:835609 original size:2 final size:2
Alignment explanation
Indices: 835602--835629 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
835592 GCACGTGGAT
835602 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
835630 CAATTAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:844118 original size:12 final size:12
Alignment explanation
Indices: 844101--844131 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
844091 TATTAATAAA
844101 AAAATAAAAAAT
1 AAAATAAAAAAT
844113 AAAATAAAAAAT
1 AAAATAAAAAAT
*
844125 ATAATAA
1 AAAATAA
844132 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:844580 original size:2 final size:2
Alignment explanation
Indices: 844573--844636 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
844563 TCTATCCCTA
844573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
844615 AT AC AT AT AT AT -T AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
844637 CTTATACCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:844729 original size:11 final size:11
Alignment explanation
Indices: 844702--844741 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
844692 TTACACTATT
*
844702 TATATATATATA
1 TATATAT-TACA
844714 TATATATTACA
1 TATATATTACA
844725 TATATATTACA
1 TATATATTACA
844736 TATATA
1 TATATA
844742 CTTATACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATTACA
Found at i:844779 original size:105 final size:106
Alignment explanation
Indices: 844596--844809 Score: 421
Period size: 105 Copynumber: 2.0 Consensus size: 106
844586 TATATATATA
844596 TATATATATATATATATATATACATATATATTACATATATACTTATACCTTAAGTTCAAACTAAA
1 TATATATATATATATATATATACATATATATTACATATATACTTATACCTTAAGTTCAAACTAAA
844661 ATTAACACTAACTATTTTTTAATAGGATAAATTACACTATT
66 ATTAACACTAACTATTTTTTAATAGGATAAATTACACTATT
844702 TATATATATATATATATAT-TACATATATATTACATATATACTTATACCTTAAGTTCAAACTAAA
1 TATATATATATATATATATATACATATATATTACATATATACTTATACCTTAAGTTCAAACTAAA
844766 ATTAACACTAACTATTTTTTAATAGGATAAATTACACTATT
66 ATTAACACTAACTATTTTTTAATAGGATAAATTACACTATT
844807 TAT
1 TAT
844810 CACTCAACTA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 89 0.82
106 19 0.18
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (106 bp):
TATATATATATATATATATATACATATATATTACATATATACTTATACCTTAAGTTCAAACTAAA
ATTAACACTAACTATTTTTTAATAGGATAAATTACACTATT
Done.