Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006097.1 Hibiscus syriacus cultivar Beakdansim tig00014450_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: 49431
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:932 original size:19 final size:19
Alignment explanation
Indices: 886--933 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
876 AACTAAATAA
* *
886 ATTAAAACAAAATAAAAAT
1 ATTAAAATAAAAGAAAAAT
*
905 A-AAATAATAAAAGAAAAAT
1 ATTAA-AATAAAAGAAAAAT
924 ATTAAAATAA
1 ATTAAAATAA
934 GTAAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
ATTAAAATAAAAGAAAAAT
Found at i:1126 original size:7 final size:7
Alignment explanation
Indices: 1103--1150 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
1093 ATTATTAATG
1103 AAATAAA
1 AAATAAA
*
1110 AAAT-AG
1 AAATAAA
*
1116 AAATAAC
1 AAATAAA
1123 AAATAAA
1 AAATAAA
1130 TAAATAAA
1 -AAATAAA
*
1138 TAATAAA
1 AAATAAA
1145 AAATAA
1 AAATAA
1151 TAAAGAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 5 0.15
7 22 0.65
8 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:1188 original size:36 final size:36
Alignment explanation
Indices: 1104--1180 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
1094 TTATTAATGA
* * * *
1104 AATAAAAAAT-AGAAATAACAAATAAATAAATAAAT
1 AATAAAAAATAATAAAGAACAAAAAAATAAACAAAT
1139 AATAAAAAATAATAAAGAACAAAAAAAGTAAACAAA-
1 AATAAAAAATAATAAAGAACAAAAAAA-TAAACAAAT
1175 AATAAA
1 AATAAA
1181 GATTAATACT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 10 0.28
36 19 0.53
37 7 0.19
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (36 bp):
AATAAAAAATAATAAAGAACAAAAAAATAAACAAAT
Found at i:10625 original size:29 final size:29
Alignment explanation
Indices: 10593--10699 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
10583 TAAATACACA
10593 TTATTCATT-TTGTAACTTAAAAATATATT
1 TTATTC-TTATTGTAACTTAAAAATATATT
* * *
10622 TTATTCTTATTTTAACTTAGAAATGTATT
1 TTATTCTTATTGTAACTTAAAAATATATT
* * * *
10651 TTAATCTTAGCT-TAAATT-AAAATATAAT
1 TTATTCTTA-TTGTAACTTAAAAATATATT
*
10679 TTATTTTTATCT-TAACTTAAA
1 TTATTCTTAT-TGTAACTTAAA
10700 TATTTATATT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
28 22 0.36
29 38 0.62
30 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (29 bp):
TTATTCTTATTGTAACTTAAAAATATATT
Found at i:10800 original size:30 final size:30
Alignment explanation
Indices: 10733--11083 Score: 154
Period size: 30 Copynumber: 12.2 Consensus size: 30
10723 ATTTTAAATC
* * *
10733 TAAGATAAAAATATAATATGTTTTT-TGGT
1 TAAGATAAAAATAAAATATATTTTTATAGT
10762 TAAGATAAAAATAAAATATATTTTTATAG-
1 TAAGATAAAAATAAAATATATTTTTATAGT
*
10791 T----T-AAAATAAAA-ATATTTTTA-AAT
1 TAAGATAAAAATAAAATATATTTTTATAGT
* *
10814 TAAGATAAGAATAAAAGATATGTTTTA-AGT
1 TAAGATAAAAATAAAATATAT-TTTTATAGT
* * * * *
10844 TAAAATAAGAATTAATTATA-TTTAATAGTT
1 TAAGATAAAAATAAAATATATTTTTATAG-T
* * * * * *
10874 TAAGGTGAGAATAGAATATA-TTTAATAATT
1 TAAGATAAAAATAAAATATATTTTTAT-AGT
* * * * * *
10904 TAAGCTAAGAATATAATTTA-TGTAATCAGT
1 TAAGATAAAAATAAAATATATTTTTAT-AGT
*
10934 TAAG-----AATAAGATATATTTTT-TAAGT
1 TAAGATAAAAATAAAATATATTTTTAT-AGT
* *
10959 TGAGATAAAGATTAAAATATATTTTTA-AGT
1 TAAGATAAA-AATAAAATATATTTTTATAGT
* * *
10989 TAAAATAAGAATAAAATATATTTTTA-GGT
1 TAAGATAAAAATAAAATATATTTTTATAGT
** * * *
11018 TAAGGCAAGAGTAAAATATA-TTTAATAAGT
1 TAAGATAAAAATAAAATATATTTTTAT-AGT
*
11048 TAATATAAAAATAAAATATATTTTTA-ATGT
1 TAAGATAAAAATAAAATATATTTTTATA-GT
11078 TAAGAT
1 TAAGAT
11084 GTAAAATTAA
Statistics
Matches: 246, Mismatches: 52, Indels: 47
0.71 0.15 0.14
Matches are distributed among these distances:
22 1 0.00
23 10 0.04
24 9 0.04
25 16 0.07
26 2 0.01
27 1 0.00
28 16 0.07
29 65 0.26
30 107 0.43
31 19 0.08
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (30 bp):
TAAGATAAAAATAAAATATATTTTTATAGT
Found at i:10816 original size:22 final size:23
Alignment explanation
Indices: 10769--10826 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
10759 GGTTAAGATA
*
10769 AAAATAAAATATATTTTTATAGTT
1 AAAATAAAA-ATATTTTTATAATT
10793 AAAATAAAAATATTTTTA-AATT
1 AAAATAAAAATATTTTTATAATT
* *
10815 AAGATAAGAATA
1 AAAATAAAAATA
10827 AAAGATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 9 0.29
24 9 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATAAAAATATTTTTATAATT
Found at i:10959 original size:25 final size:28
Alignment explanation
Indices: 10931--11021 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
10921 TTATGTAATC
10931 AGTTAAGAATAAGA-T-ATAT-TTTTTA
1 AGTTAAGAATAAGATTAATATATTTTTA
*
10956 AGTTGAG-ATAAAGATTAAAATATATTTTTA
1 AGTTAAGAAT-AAGATT--AATATATTTTTA
*
10986 AGTTAA-AATAAGAATAAAATATATTTTTA
1 AGTTAAGAATAAG-AT-TAATATATTTTTA
*
11015 GGTTAAG
1 AGTTAAG
11022 GCAAGAGTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
24 2 0.04
25 10 0.19
26 1 0.02
29 24 0.46
30 15 0.29
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (28 bp):
AGTTAAGAATAAGATTAATATATTTTTA
Found at i:12356 original size:20 final size:19
Alignment explanation
Indices: 12333--12379 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
12323 CGATATACCA
12333 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
12353 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
12373 GGTAAAA
1 GGTAAAA
12380 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:12467 original size:181 final size:182
Alignment explanation
Indices: 12121--12593 Score: 687
Period size: 181 Copynumber: 2.6 Consensus size: 182
12111 GATCCAAATT
* * * * * **
12121 AAAAATGTGTCGATCCAAAACGATATAGCAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
12186 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
12251 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
12303 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
12368 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
12432 GTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
** * *
12484 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
12549 AAACCGGTAAAATGATATCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
12594 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 165 0.63
182 97 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:12537 original size:20 final size:19
Alignment explanation
Indices: 12514--12560 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
12504 CGATATAACA
*
12514 GGTAAAAATATGATAAAACT
1 GGTAAAAA-ATGATAAAACC
*
12534 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
12554 GGTAAAA
1 GGTAAAA
12561 TGATATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:14590 original size:23 final size:23
Alignment explanation
Indices: 14559--14631 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
14549 ATAGGTAAAA
*
14559 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
14582 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
14605 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
14628 ATAT
1 ATAT
14632 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:15079 original size:23 final size:23
Alignment explanation
Indices: 15048--15120 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
15038 ATAGGTAAAA
*
15048 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
15071 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
15094 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
15117 ATAT
1 ATAT
15121 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:15567 original size:23 final size:23
Alignment explanation
Indices: 15536--15608 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
15526 ATAGGTAAAA
*
15536 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
15559 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
15582 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
15605 ATAT
1 ATAT
15609 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:15583 original size:488 final size:489
Alignment explanation
Indices: 14343--16984 Score: 5068
Period size: 488 Copynumber: 5.4 Consensus size: 489
14333 GAAGAACCTT
14343 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
14408 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
14473 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
14538 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
196 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
14603 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATA
261 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
14668 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
326 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
14733 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
391 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
14798 CAATAAACATATATATTACATATTTATTATTATC
456 CAATAAACATATATATTACATATTTATTATTATC
14832 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
14897 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
14962 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
*
15027 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT
196 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
15092 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
261 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
15157 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
326 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
*
15222 AGTAATTATATGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
391 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
*
15287 TAATAAACATATATA-TACATATTTATTATTATC
456 CAATAAACATATATATTACATATTTATTATTATC
15320 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
15385 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
15450 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
15515 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
196 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
15580 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
261 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
15645 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
326 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
*
15710 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAA
391 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
15775 CAATAAACATATATATTACATATTTATTATTATC
456 CAATAAACATATATATTACATATTTATTATTATC
15809 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
15874 A-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACCATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
15938 AAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
130 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
16002 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
195 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
16067 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
260 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
16132 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
325 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
16197 TAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAATTAAAA
390 TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAA
*
16261 ACAATAAACATATATA-TATATATTTATTATTATC
455 ACAATAAACATATATATTACATATTTATTATTATC
16295 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
16360 A-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
16424 AAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
130 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
* *
16488 ATTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTGATAGGTAGC
195 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGC
*
16552 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
259 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
16617 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
324 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
16682 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
389 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
16747 AACAATAAACATATATATTACATATTTATTATTATC
454 AACAATAAACATATATATTACATATTTATTATTATC
16783 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
16848 ATTTTTTGTACAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
16912 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGAC
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGAC
16977 ACTTTCAA
195 ACTTTCAA
16985 CATATTATAA
Statistics
Matches: 2125, Mismatches: 20, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
485 2 0.00
486 425 0.20
487 135 0.06
488 905 0.43
489 658 0.31
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
CAATAAACATATATATTACATATTTATTATTATC
Found at i:16055 original size:23 final size:23
Alignment explanation
Indices: 16024--16096 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
16014 ATAGGTAAAA
*
16024 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
16047 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
16070 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
16093 ATAT
1 ATAT
16097 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:16278 original size:977 final size:975
Alignment explanation
Indices: 14343--16984 Score: 5055
Period size: 977 Copynumber: 2.7 Consensus size: 975
14333 GAAGAACCTT
14343 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
14408 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
14473 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
14538 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
196 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
14603 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATA
261 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
14668 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
326 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
14733 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
391 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
14798 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
456 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
14863 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
521 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
14928 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
586 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
14993 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
651 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
15058 ATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCTTATATTG
716 ATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCTTATATTG
15123 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
781 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
*
15188 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTT
846 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
*
15253 TACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATACATATTTATTATTA
911 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATAT--ATATTTATTATTA
15318 TC
974 TC
15320 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
15385 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
15450 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
131 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
15515 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
196 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
15580 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
261 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
15645 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
326 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
*
15710 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAA
391 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
15775 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
456 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
15840 ATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTAA
521 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
*
15904 TATTGTAGGTGGAAAACATGAAACACCATTAAAAAAAATTGAAACATAAATTACATAACTTT-AA
586 TATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAA
15968 AAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGT
650 AAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGT
*
16033 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
715 AATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCTTATATT
16098 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
780 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
16163 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTT
845 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
16227 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATATATATTTATTATT
910 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC--ATATATATATATTTATTATT
16292 ATC
973 ATC
16295 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
16360 A-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
66 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
16424 AAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
130 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
* *
16488 ATTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTGATAGGTAGC
195 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGC
*
16552 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
259 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
16617 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
324 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
16682 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
389 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
16747 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCT
454 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCT
*
16812 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATT
519 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATT
16877 AATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAA
584 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAA
*
16941 AAAAAGTATCGATCTTTTTTATAAAAAAGTATAGACACTTTCAA
649 AAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTTCAA
16985 CATATTATAA
Statistics
Matches: 1643, Mismatches: 14, Indels: 18
0.98 0.01 0.01
Matches are distributed among these distances:
973 32 0.02
974 471 0.29
975 235 0.14
976 314 0.19
977 591 0.36
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (975 bp):
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
ATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCTTATATTG
TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATATATTTATTATTATC
Found at i:16492 original size:21 final size:21
Alignment explanation
Indices: 16449--16492 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
16439 ATTACATAAC
* *
16449 TTTAAAAAAGTATCGATCCTT
1 TTTAAAAAAGTATAGATCATT
16470 TTTATAAAAAGTATAGA-CATT
1 TTTA-AAAAAGTATAGATCATT
16491 TT
1 TT
16493 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTAAAAAAGTATAGATCATT
Found at i:16541 original size:23 final size:23
Alignment explanation
Indices: 16509--16573 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
16499 AATAGGTAAA
*
16509 AATATGATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
16532 AATATAATGTGATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
16555 TATATAATGTAATAGGTAG
1 AATATAATGTAATAGGTAG
16574 TGCTTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (23 bp):
AATATAATGTAATAGGTAGCGTT
Found at i:16580 original size:23 final size:22
Alignment explanation
Indices: 16510--16582 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
16500 ATAGGTAAAA
*
16510 ATATGATGTAATAGGTAGCGTT
1 ATATAATGTAATAGGTAGCGTT
*
16532 AATATAATGTGATAGGTAGCGTTT
1 -ATATAATGTAATAGGTAGCG-TT
*
16556 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCG-TT
16579 ATAT
1 ATAT
16583 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:17148 original size:22 final size:23
Alignment explanation
Indices: 17113--17155 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
17103 TATTGTACTT
**
17113 TATAATATTTCCGGT-TAAATAA
1 TATAATATAACCGGTCTAAATAA
17135 TATAATATAACCGGTCTAAAT
1 TATAATATAACCGGTCTAAAT
17156 TTTAACCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (23 bp):
TATAATATAACCGGTCTAAATAA
Found at i:19167 original size:20 final size:20
Alignment explanation
Indices: 19144--19196 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
19134 AAAGGAGTAA
19144 TACCGATACCATTATGCAAG
1 TACCGATACCATTATGCAAG
19164 TACCGATACCATTATGCAAG
1 TACCGATACCATTATGCAAG
19184 TACCGATACCATT
1 TACCGATACCATT
19197 TTTATAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (20 bp):
TACCGATACCATTATGCAAG
Found at i:22134 original size:16 final size:16
Alignment explanation
Indices: 22113--22146 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22103 TTAATATTCA
*
22113 TGTGAATAGTGAATTT
1 TGTGAATAGTGAAATT
22129 TGTGAATAGTGAAATT
1 TGTGAATAGTGAAATT
22145 TG
1 TG
22147 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.41
Consensus pattern (16 bp):
TGTGAATAGTGAAATT
Found at i:23412 original size:21 final size:21
Alignment explanation
Indices: 23383--23424 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23373 GTCGACGGTA
*
23383 GCGGTAAGAGGTTACGTAATG
1 GCGGCAAGAGGTTACGTAATG
23404 GCGGCAAGAGGTTACGTAATG
1 GCGGCAAGAGGTTACGTAATG
23425 AAGGCAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (21 bp):
GCGGCAAGAGGTTACGTAATG
Found at i:23430 original size:21 final size:21
Alignment explanation
Indices: 23388--23432 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
23378 CGGTAGCGGT
**
23388 AAGAGGTTACGTAATGGCGGC
1 AAGAGGTTACGTAATGAAGGC
23409 AAGAGGTTACGTAATGAAGGC
1 AAGAGGTTACGTAATGAAGGC
23430 AAG
1 AAG
23433 TAAGATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.18
Consensus pattern (21 bp):
AAGAGGTTACGTAATGAAGGC
Found at i:26364 original size:20 final size:20
Alignment explanation
Indices: 26341--26515 Score: 79
Period size: 20 Copynumber: 8.8 Consensus size: 20
26331 TACAGTTTCC
26341 GAATTCGCAACTCGAATTTA
1 GAATTCGCAACTCGAATTTA
* * ** *
26361 GAATTCGCAACACAAAAGTC
1 GAATTCGCAACTCGAATTTA
*
26381 GAATTCGCAACTCGAATTTC
1 GAATTCGCAACTCGAATTTA
*** *
26401 TTTTTCGCAACTCGATTTTTA
1 GAATTCGCAACTCGA-ATTTA
* * * *
26422 -AATTCACAACACGAGTTTC
1 GAATTCGCAACTCGAATTTA
**
26441 GTTTTCGCAACTCGATTATTT-
1 GAATTCGCAACTCGA--ATTTA
* *
26462 -AATTCGCAACGCGAGTTTCA
1 GAATTCGCAACTCGAATTT-A
* * *
26482 -ATTTCGCAACACGAATTTT
1 GAATTCGCAACTCGAATTTA
**
26501 GTTTTCGCAACTCGA
1 GAATTCGCAACTCGA
26516 TTATACAGAC
Statistics
Matches: 113, Mismatches: 35, Indels: 14
0.70 0.22 0.09
Matches are distributed among these distances:
18 3 0.03
19 3 0.03
20 101 0.89
21 3 0.03
22 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (20 bp):
GAATTCGCAACTCGAATTTA
Found at i:26426 original size:40 final size:39
Alignment explanation
Indices: 26382--26515 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 39
26372 ACAAAAGTCG
* *
26382 AATTCGCAACTCGAATTTCTTTTTCGCAACTCGATTTTT
1 AATTCGCAACTCGAGTTTCATTTTCGCAACTCGATTTTT
* * *
26421 AAATTCACAACACGAGTTTCGTTTTCGCAACTCGATTATTT
1 -AATTCGCAACTCGAGTTTCATTTTCGCAACTCGATT-TTT
* * *
26462 AATTCGCAACGCGAGTTTCAATTTCGCAACACGAATTTTGT
1 AATTCGCAACTCGAGTTTCATTTTCGCAACTCG-ATTTT-T
*
26503 -TTTCGCAACTCGA
1 AATTCGCAACTCGA
26516 TTATACAGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 73 0.91
41 7 0.09
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (39 bp):
AATTCGCAACTCGAGTTTCATTTTCGCAACTCGATTTTT
Found at i:26448 original size:60 final size:61
Alignment explanation
Indices: 26384--26519 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 61
26374 AAAAGTCGAA
* * * * *
26384 TTCGCAACTCGAATT-TCTT-TTTCGCAACTCGATTTTTAAATTCACAACACGAGTTTCGTT
1 TTCGCAACTCGAATTAT-TTAATTCGCAACGCGAGTTTCAAATTCACAACACGAATTTCGTT
* * *
26444 TTCGCAACTCG-ATTATTTAATTCGCAACGCGAGTTTCAATTTCGCAACACGAATTTTGTT
1 TTCGCAACTCGAATTATTTAATTCGCAACGCGAGTTTCAAATTCACAACACGAATTTCGTT
26504 TTCGCAACTCG-ATTAT
1 TTCGCAACTCGAATTAT
26520 ACAGACTTGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
59 5 0.08
60 61 0.92
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (61 bp):
TTCGCAACTCGAATTATTTAATTCGCAACGCGAGTTTCAAATTCACAACACGAATTTCGTT
Found at i:27096 original size:15 final size:15
Alignment explanation
Indices: 27076--27170 Score: 133
Period size: 15 Copynumber: 6.5 Consensus size: 15
27066 TTCCAGAAAA
27076 TGAATTACTGGAATT
1 TGAATTACTGGAATT
27091 TGAATTACTGGAATT
1 TGAATTACTGGAATT
27106 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
27121 TGAATTACT--AAAA
1 TGAATTACTGGAATT
27134 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
27149 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
27163 TGAATTAC
1 TGAATTAC
27171 ATTTCTGTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.15
14 12 0.17
15 48 0.68
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:27110 original size:30 final size:30
Alignment explanation
Indices: 27071--27170 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
27061 TGATTTTCCA
27071 GAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
**
27101 GAATTTGAATTACTGGAATTTGAATTACT-
1 GAAAATGAATTACTGGAATTTGAATTACTG
27130 -AAAATGAATTACTGGAATTTGAATT-CTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
27158 GAAAATGAATTAC
1 GAAAATGAATTAC
27171 ATTTCTGTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 12 0.19
30 27 0.42
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (30 bp):
GAAAATGAATTACTGGAATTTGAATTACTG
Found at i:27176 original size:20 final size:20
Alignment explanation
Indices: 27153--27222 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
27143 GGAATTTGAA
27153 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
27173 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
27193 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
27213 TTCTGGAAAA
1 TTCTGGAAAA
27223 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:27444 original size:24 final size:28
Alignment explanation
Indices: 27387--27445 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
27377 TTTACTAAAA
27387 TATTATTGAAATATATAAATAATATTATT
1 TATTATTGAAATATATAAATAATA-TATT
*
27416 CATTATT-AAATATATAAA-AA-A-ATT
1 TATTATTGAAATATATAAATAATATATT
27440 TATTAT
1 TATTAT
27446 ATTTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 8 0.29
26 1 0.04
27 2 0.07
28 11 0.39
29 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATTGAAATATATAAATAATATATT
Found at i:27508 original size:29 final size:29
Alignment explanation
Indices: 27470--27548 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 29
27460 AAATATAATC
*
27470 TTATATTATTATAATATAATTGATTAT-TTA
1 TTATAATATTATAATATAA-T-ATTATATTA
*
27500 -TATAATATTAAAATATAATATTATATTA
1 TTATAATATTATAATATAATATTATATTA
27528 TTATAAATATTAATAAATATA
1 TTAT-AATATT-AT-AATATA
27549 TTTTAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 5 0.12
28 4 0.10
29 19 0.46
30 6 0.15
31 1 0.02
32 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TTATAATATTATAATATAATATTATATTA
Found at i:27546 original size:32 final size:31
Alignment explanation
Indices: 27472--27548 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
27462 ATATAATCTT
*
27472 ATATTATTATAATATAATTGATTATTTATATA
1 ATATTAATA-AATATAATTGATTATTTATATA
27504 ATATT-A-AAATATAA-T-ATTATATTATTATAA
1 ATATTAATAAATATAATTGATTAT-TTA-TAT-A
27534 ATATTAATAAATATA
1 ATATTAATAAATATA
27549 TTTTAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 5 0.13
28 4 0.10
29 10 0.26
30 7 0.18
31 1 0.03
32 12 0.31
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
ATATTAATAAATATAATTGATTATTTATATA
Found at i:27550 original size:21 final size:22
Alignment explanation
Indices: 27504--27559 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
27494 TATTTATATA
*
27504 ATATTA-AAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
27524 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
27546 ATATTTTAAATATT
1 ATATTATAAATATT
27560 TTAATAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.55
22 8 0.26
23 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:27807 original size:42 final size:42
Alignment explanation
Indices: 27748--27909 Score: 297
Period size: 42 Copynumber: 3.9 Consensus size: 42
27738 ATAAATTACA
*
27748 TTCCGGAAAACGAATTACGTGAAACAAATACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
27790 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
*
27832 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
*
27874 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
27910 TTCGGGAAAA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 117 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
Found at i:27814 original size:14 final size:15
Alignment explanation
Indices: 27753--27897 Score: 67
Period size: 14 Copynumber: 10.3 Consensus size: 15
27743 TTACATTCCG
27753 GAAAACGAATTACGT
1 GAAAACGAATTACGT
* *
27768 G-AAAC-AAATACGG
1 GAAAACGAATTACGT
** *
27781 GAAAACGTTTTCCG-
1 GAAAACGAATTACGT
27795 GAAAACGAATTACGT
1 GAAAACGAATTACGT
** *
27810 G-AAAC-AAACACGG
1 GAAAACGAATTACGT
** *
27823 GAAAACGTTTTCCG-
1 GAAAACGAATTACGT
27837 GAAAACGAATTACGT
1 GAAAACGAATTACGT
** *
27852 G-AAAC-AAACACGG
1 GAAAACGAATTACGT
* *
27865 GAAAAC-ATTTTCCG-
1 GAAAACGA-ATTACGT
27879 GAAAACGAATTACGT
1 GAAAACGAATTACGT
27894 GAAA
1 GAAA
27898 CAAACACAGG
Statistics
Matches: 91, Mismatches: 29, Indels: 20
0.65 0.21 0.14
Matches are distributed among these distances:
13 19 0.21
14 57 0.63
15 15 0.16
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (15 bp):
GAAAACGAATTACGT
Found at i:38903 original size:137 final size:137
Alignment explanation
Indices: 38188--39162 Score: 1117
Period size: 139 Copynumber: 7.0 Consensus size: 137
38178 GTATAATTGC
* * * * *
38188 CCTATCATGTTTGAGGGGATGTAACAATGTGGTGAAAGCGCTTTTTATGGGACGTGTCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCC--
* * * *
38253 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTAATACGTGAT-AT-CCCCCGGTAGTTAGGTACT
64 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTG-TCATGTCCCCGGTAG---GGCACT
*
38316 ATTCACGTC-ACA
125 ATTCATGTCAACA
* * *
38328 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGT-GGATGTGCCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCC--
* * * **
38392 TTTTTTTGTTAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCTCTGGCGGGGCACTAT
64 -TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCC-CCGGTAGGGCACTAT
*
38457 T-ATGTTAACA
127 TCATGTCAACA
* * * ** *
38467 CCTATCA-GTTTGA-GGGATGCAACAATGTGGTGAAATCGCTTTCTTGGGGGGGGCG-CATTTTC
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGC-TTCTTGTGGGACGCGTC-TTTCC
* * * *
38529 TTTTTCGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATATCCCCCAG-AGGGGAACTAT
64 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGT-CCCCGGTA-GGGCACTAT
**
38593 TCACATCAACA
127 TCATGTCAACA
* * * * * * *
38604 CCTGTCATTTTTTAGGGGACACAACAATGTGGTGAAAGCGCTTCTTGTGGGAAGCGACTTTTCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTC-TTTCCT
* * * *
38669 TTTTTATCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCG-ACGGGGCGCTATT
65 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTA--GGGCACTATT
38733 CATGTCAACA
128 CATGTCAACA
* *
38743 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCACTTCTTGTGGGACACGTCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTT
38808 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAT
66 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAT
*
38873 ATCAACA
131 GTCAACA
**** * *
38880 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAATATTTCTTGTGGGACGCGCCTTTACTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTT
* **
38945 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTCA
66 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGT-CCCCGGTAGGGCACTATTCA
39010 TGTCAACA
130 TGTCAACA
* ** **
39018 CCTATCATGTTTGAAGGGATACAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCACCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTT-C--
*
39083 TCTTTTTTGTCAGAAAATAGGTTATAATTG-CCTATTATGTGTCATGACCCCGGTAGGGCACTAT
63 -CTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTAT
**
39147 TCACATCAACA
127 TCATGTCAACA
39158 CCTAT
1 CCTAT
39163 TATTCGTTAT
Statistics
Matches: 720, Mismatches: 94, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
136 53 0.07
137 158 0.22
138 169 0.23
139 176 0.24
140 114 0.16
141 17 0.02
142 33 0.05
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (137 bp):
CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTT
TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAT
GTCAACA
Found at i:38980 original size:275 final size:276
Alignment explanation
Indices: 38188--39162 Score: 1281
Period size: 275 Copynumber: 3.5 Consensus size: 276
38178 GTATAATTGC
* * * **
38188 CCTATCATGTTTGAGGGGATGTAACAATGTGGTGAAAGCGCTTTTTATGGGACGTGTCTTTCCTT
1 CCTATCATGTTTGAGGGGATGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACACGTCTTTCC--
* * * *
38253 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTAATACGTGAT-AT-CCCCCGGTAGTTAGGTACT
64 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTG-TCATGTCCCCGGTAG---GGCACT
*
38316 ATTCACGTC-ACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGT-GGA
125 ATTCACATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGA
* * * * * *
38379 TGTGCCTTTCCTTTTTTTTTGTTAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCTCT
190 AGCGCCTTTAC--TTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCC
*
38444 GGCGGGGCACTATT-ATGTTAACA
253 GGCGGGGCACTATTCATGTCAACA
* * *** *
38467 CCTATCA-GTTTGA-GGGATGCAACAATGTGGTGAAATCGCTTTCTTGGGGGGGGCG-CATTTTC
1 CCTATCATGTTTGAGGGGATGCAACAATGTGGTGAAAGCGC-TTCTTGTGGGACACGTC-TTTCC
* * * *
38529 TTTTTCGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATATCCCCCAG-AGGGGAACTAT
64 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGT-CCCCGGTA-GGGCACTAT
* * * *
38593 TCACATCAACACCTGTCATTTTTTAGGGGACACAACAATGTGGTGAAAGCGCTTCTTGTGGGAAG
127 TCACATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGAAG
* * * *
38658 CGACTTTTCTTTTTTTATCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGACG
192 CGCCTTTACTTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCG
*
38723 GGGCGCTATTCATGTCAACA
257 GGGCACTATTCATGTCAACA
* *
38743 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCACTTCTTGTGGGACACGTCTTTCCTT
1 CCTATCATGTTTGAGGGGATGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACACGTCTTTCCTT
*
38808 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAT
66 TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAC
**** *
38873 ATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAATATTTCTTGTGGGACGCGCC
131 ATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGAAGCGCC
38938 TTTAC-TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGC
196 TTTACTTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGC
39002 ACTATTCATGTCAACA
261 ACTATTCATGTCAACA
* * *
39018 CCTATCATGTTTGAAGGGATACAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCACCTTTCCTT
1 CCTATCATGTTTGAGGGGATGCAACAATGTGGTGAAAGCGCTTCTTGTGGGA--CA-C-GT-CTT
*
39083 T-CTTTTTTGTCAGAAAATAGGTTATAATTG-CCTATTATGTGTCATGACCCCGGTAGGGCACTA
61 TCCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTA
39146 TTCACATCAACACCTAT
126 TTCACATCAACACCTAT
39163 TATTCGTTAT
Statistics
Matches: 613, Mismatches: 65, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
275 194 0.32
276 176 0.29
277 104 0.17
278 98 0.16
279 37 0.06
280 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (276 bp):
CCTATCATGTTTGAGGGGATGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACACGTCTTTCCTT
TTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCGGTAGGGCACTATTCAC
ATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGAAGCGCC
TTTACTTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGC
ACTATTCATGTCAACA
Found at i:40056 original size:21 final size:21
Alignment explanation
Indices: 40006--40057 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
39996 GGTGTCATAA
* *
40006 AACCCTGTGGGCTGGGTATGT
1 AACCCTGTGGGCTAGGAATGT
* *
40027 -ACCTATGTGGTCTAGGAATGT
1 AACC-CTGTGGGCTAGGAATGT
40048 AACCCTGTGG
1 AACCCTGTGG
40058 AGATGGAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 3 0.12
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
AACCCTGTGGGCTAGGAATGT
Found at i:40156 original size:41 final size:44
Alignment explanation
Indices: 40056--40161 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 44
40046 GTAACCCTGT
*
40056 GGAGATGGA-ATA-TGAAATGGTGGG-TTGAGCATATACCCATAC
1 GGAGAT-GACATACTGAACTGGTGGGCTTGAGCATATACCCATAC
** *
40098 GGAGATGACATAC--AACTGGTGGGCTTG-GCATATACCTTTGC
1 GGAGATGACATACTGAACTGGTGGGCTTGAGCATATACCCATAC
40139 GGAGATG-CAT-CTGAACT-GTGGGC
1 GGAGATGACATACTGAACTGGTGGGC
40162 GAGCCATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
39 1 0.02
40 9 0.16
41 33 0.60
42 12 0.22
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (44 bp):
GGAGATGACATACTGAACTGGTGGGCTTGAGCATATACCCATAC
Found at i:45703 original size:12 final size:12
Alignment explanation
Indices: 45688--45717 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45678 TCTCTCTCTC
45688 TCTCTCCCTTTA
1 TCTCTCCCTTTA
*
45700 TCTCTCCCTTTC
1 TCTCTCCCTTTA
45712 TCTCTC
1 TCTCTC
45718 TCGTGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTCCCTTTA
Done.