Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004972.1 Hibiscus syriacus cultivar Beakdansim tig00011167_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: 75435
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:117 original size:16 final size:16
Alignment explanation
Indices: 87--124 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
77 TGTGTTAGAT
*
87 AAAAAATAAATAATAA
1 AAAAAACAAATAATAA
103 GAAAAAACAAA-AATAA
1 -AAAAAACAAATAATAA
119 AAAAAA
1 AAAAAA
125 GGGAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 5 0.25
17 9 0.45
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAACAAATAATAA
Found at i:198 original size:3 final size:3
Alignment explanation
Indices: 190--276 Score: 126
Period size: 3 Copynumber: 29.7 Consensus size: 3
180 ATTAGGGAGA
190 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
236 AAT -AT AAT AAT AAT AAA AAT AAA AAT ATAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
277 ATAAAAGGGC
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 6 0.08
3 67 0.88
4 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:212 original size:17 final size:16
Alignment explanation
Indices: 189--280 Score: 121
Period size: 17 Copynumber: 5.4 Consensus size: 16
179 CATTAGGGAG
189 AAATAATAATAATAAT
1 AAATAATAATAATAAT
205 ATAATAATAATAATAAT
1 A-AATAATAATAATAAT
222 AATATAATAATAATAAT
1 AA-ATAATAATAATAAT
*
239 ATAATAATAATAAAAAT
1 A-AATAATAATAATAAT
256 AAAAATATATAATAATAAT
1 --AAATA-ATAATAATAAT
275 AAATAA
1 AAATAA
281 AAGGGCTAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
16 3 0.04
17 49 0.72
18 5 0.07
19 11 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:8148 original size:22 final size:21
Alignment explanation
Indices: 8116--8160 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
8106 AAAATATACA
*
8116 ATATATATAGTTTTTGAAGAT
1 ATATATATAGTTTTTGAAAAT
8137 ATATAATATAGTTTTTGAAAAT
1 ATAT-ATATAGTTTTTGAAAAT
8159 AT
1 AT
8161 TGTTGAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAT
Found at i:8182 original size:36 final size:35
Alignment explanation
Indices: 8142--8255 Score: 122
Period size: 36 Copynumber: 3.1 Consensus size: 35
8132 AAGATATATA
*
8142 ATATAGTTTTTGAAAATATTGTTGAAAACATATAAT
1 ATATAGTTTTTAAAAATATT-TTGAAAACATATAAT
**
8178 ATATAGTTTTTTAAAAACCGGTTTTGAAAACATATAAT
1 ATATAG-TTTTTAAAAA--TATTTTGAAAACATATAAT
* *
8216 ATATA-ATTTTAAAAATGGTTTTTGAAAACATATAAT
1 ATATAGTTTTTAAAAAT--ATTTTGAAAACATATAAT
8252 ATAT
1 ATAT
8256 TGTAAAACGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
36 36 0.54
37 9 0.13
38 20 0.30
39 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (35 bp):
ATATAGTTTTTAAAAATATTTTGAAAACATATAAT
Found at i:8211 original size:38 final size:36
Alignment explanation
Indices: 8163--8255 Score: 134
Period size: 36 Copynumber: 2.5 Consensus size: 36
8153 GAAAATATTG
*
8163 TTGAAAACATATAATATATAGTTTTTTAAAAACCGG-TT
1 TTGAAAACATATAATATATA--ATTTTAAAAA-CGGTTT
*
8201 TTGAAAACATATAATATATAATTTTAAAAATGGTTT
1 TTGAAAACATATAATATATAATTTTAAAAACGGTTT
8237 TTGAAAACATATAATATAT
1 TTGAAAACATATAATATAT
8256 TGTAAAACGA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
35 2 0.04
36 30 0.58
38 20 0.38
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (36 bp):
TTGAAAACATATAATATATAATTTTAAAAACGGTTT
Found at i:9338 original size:16 final size:15
Alignment explanation
Indices: 9306--9355 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
9296 CTTTTATTTC
9306 TTTTATTTATTTAAT
1 TTTTATTTATTTAAT
*
9321 TTTTATTTCATTTCAT
1 TTTTATTT-ATTTAAT
* *
9337 TTTTTTTGTATTTTAT
1 TTTTATT-TATTTAAT
9353 TTT
1 TTT
9356 AATCTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 8 0.27
16 21 0.70
17 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTATTTATTTAAT
Found at i:10397 original size:18 final size:18
Alignment explanation
Indices: 10376--10414 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10366 TTTTATTTTC
10376 ATTATTGTTTTGATTATT
1 ATTATTGTTTTGATTATT
10394 ATTATTGTTTTGATTATT
1 ATTATTGTTTTGATTATT
10412 ATT
1 ATT
10415 TTTTACTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (18 bp):
ATTATTGTTTTGATTATT
Found at i:13127 original size:24 final size:24
Alignment explanation
Indices: 13100--13162 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
13090 TCAAGGGGAC
*
13100 TCATCTGCTACAAAAGCACAAGTT
1 TCATCTGCTACAAAAGAACAAGTT
* * *
13124 TCATCTACCACAAAGGAACAAGTT
1 TCATCTGCTACAAAAGAACAAGTT
* *
13148 TCGTCTGCTAAAAAA
1 TCATCTGCTACAAAA
13163 CCATAAGCTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (24 bp):
TCATCTGCTACAAAAGAACAAGTT
Found at i:33418 original size:23 final size:23
Alignment explanation
Indices: 33387--33442 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
33377 AAATTGCACC
* *
33387 AAAGTACCATATAAAATTGTCTCG
1 AAAG-ACCACATAAAATTGTCCCG
* **
33411 AAGGACCACATAGTATTGTCCCG
1 AAAGACCACATAAAATTGTCCCG
33434 AAAGACCAC
1 AAAGACCAC
33443 GTAGAATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (23 bp):
AAAGACCACATAAAATTGTCCCG
Found at i:34676 original size:177 final size:177
Alignment explanation
Indices: 34375--34729 Score: 692
Period size: 177 Copynumber: 2.0 Consensus size: 177
34365 TTCCTAGAAT
34375 TTACCTTCTTTATTTTGAAATTTAACCACAACTTACTTAAATTCCACTCTTTAACTCCTTTGAGT
1 TTACCTTCTTTATTTTGAAATTTAACCACAACTTACTTAAATTCCACTCTTTAACTCCTTTGAGT
34440 CCTTTAAACTCAACTATACTCACCCAAACCAACTTATCTCACTTTAATACTCATAAACATCCAAA
66 CCTTTAAACTCAACTATACTCACCCAAACCAACTTATCTCACTTTAATACTCATAAACATCCAAA
*
34505 ATCTCACTTGCACACTTGGAACCAAAAGTCATACCAATTATTCAACA
131 ATCTCACTTGCACACTTGGAACCAAAAATCATACCAATTATTCAACA
34552 TTACCTTCTTTATTTTGAAATTTAACCACAACTTACTTAAATTCCACTCTTTAACTCCTTTGAGT
1 TTACCTTCTTTATTTTGAAATTTAACCACAACTTACTTAAATTCCACTCTTTAACTCCTTTGAGT
*
34617 CCTTTAAACTCAACTATACTCACCCAAACCAACTTATCTCACTTTAATACTCCTAAACATCCAAA
66 CCTTTAAACTCAACTATACTCACCCAAACCAACTTATCTCACTTTAATACTCATAAACATCCAAA
34682 ATCTCACTTGCACACTTGGAACCAAAAATCATACCAATTATTCAACA
131 ATCTCACTTGCACACTTGGAACCAAAAATCATACCAATTATTCAACA
34729 T
1 T
34730 GTCTCAAATC
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 176 1.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (177 bp):
TTACCTTCTTTATTTTGAAATTTAACCACAACTTACTTAAATTCCACTCTTTAACTCCTTTGAGT
CCTTTAAACTCAACTATACTCACCCAAACCAACTTATCTCACTTTAATACTCATAAACATCCAAA
ATCTCACTTGCACACTTGGAACCAAAAATCATACCAATTATTCAACA
Found at i:40710 original size:22 final size:23
Alignment explanation
Indices: 40675--40740 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
40665 CAATTGCACA
* * *
40675 TGTCCCAAATGACCGCATAGA-T
1 TGTCCCGAAGGACCACATAGAGT
*
40697 TGTCCCGAAGGACCACGTAGAGT
1 TGTCCCGAAGGACCACATAGAGT
* *
40720 TGTCTCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACATAGA
40741 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGTCCCGAAGGACCACATAGAGT
Found at i:40728 original size:23 final size:22
Alignment explanation
Indices: 40692--40740 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
40682 AATGACCGCA
40692 TAGATTGTCCCGAAGGACCACG
1 TAGATTGTCCCGAAGGACCACG
*
40714 TAGAGTTGTCTCGAAGGACCACG
1 TAGA-TTGTCCCGAAGGACCACG
40737 TAGA
1 TAGA
40741 ACCCTCGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (22 bp):
TAGATTGTCCCGAAGGACCACG
Found at i:42930 original size:21 final size:22
Alignment explanation
Indices: 42904--42951 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
42894 AAAAATATAC
42904 AATATATA-TATAGTTTTTGAA
1 AATATATAGTATAGTTTTTGAA
*
42925 GATATATAGTATAGTTTTTGAA
1 AATATATAGTATAGTTTTTGAA
42947 AATAT
1 AATAT
42952 TGTTGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
AATATATAGTATAGTTTTTGAA
Found at i:42979 original size:36 final size:35
Alignment explanation
Indices: 42926--43152 Score: 203
Period size: 36 Copynumber: 6.3 Consensus size: 35
42916 GTTTTTGAAG
* *
42926 ATAT-ATAGTATAGTTTTTGAAAATATTGTTGAAAAC
1 ATATAATA-TATAGTTTTT-AAAAGATTTTTGAAAAC
* * * *
42962 ATATAATATATAATTTTT-AACG-GTTTCGAAAAC
1 ATATAATATATAGTTTTTAAAAGATTTTTGAAAAC
* *
42995 ATATAATATATAGTTTTAAAAACGGTTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAA-GATTTTTGAAAAC
* * *
43031 ATAAAATATATAGTTTTTAAAAAACTTTTTTTAAAAC
1 ATATAATATATAGTTTTTAAAAGA--TTTTTGAAAAC
* * *
43068 GTAT-ATAATATAGTTTGTAAAACATATTTTGAAAAC
1 ATATAAT-ATATAGTTTTTAAAAGAT-TTTTGAAAAC
43104 ATATAA-ATATAGTTTTTAAAACGATTTTTGAAAAC
1 ATATAATATATAGTTTTTAAAA-GATTTTTGAAAAC
43139 ATATATAATATATA
1 --ATATAATATATA
43153 TAATTTTTAG
Statistics
Matches: 154, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
33 24 0.16
34 4 0.03
35 26 0.17
36 58 0.38
37 37 0.24
38 5 0.03
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (35 bp):
ATATAATATATAGTTTTTAAAAGATTTTTGAAAAC
Found at i:43168 original size:24 final size:24
Alignment explanation
Indices: 43141--43197 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
43131 TTGAAAACAT
43141 ATATAATATATATAATTTTT-AGAA
1 ATATAATATATATAATTTTTGA-AA
*
43165 ATAT-AT-TATATAGTTTTTGAAA
1 ATATAATATATATAATTTTTGAAA
43187 ATATAATATAT
1 ATATAATATAT
43198 GTTATATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 17 0.59
23 5 0.17
24 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
ATATAATATATATAATTTTTGAAA
Found at i:43197 original size:29 final size:26
Alignment explanation
Indices: 43165--43224 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 26
43155 ATTTTTAGAA
43165 ATATATTATATAGTTTTTGAAAATATAAT
1 ATATATTATATAGTTTTT--AAATA-AAT
*
43194 ATATGTTATATAGTTTTTAAATAAAT
1 ATATATTATATAGTTTTTAAATAAAT
43220 ATATA
1 ATATA
43225 GTACGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 5 0.17
29 17 0.59
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (26 bp):
ATATATTATATAGTTTTTAAATAAAT
Found at i:43264 original size:19 final size:18
Alignment explanation
Indices: 43238--43311 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 18
43228 CGTATTATAT
43238 TATATTATATATTATTTA
1 TATATTATATATTATTTA
*
43256 TAGTATTATTTATTATTTA
1 TA-TATTATATATTATTTA
*
43275 T-TATT-TTTATTATATTA
1 TATATTATATATTAT-TTA
43292 TATTATTAATAATATTATTT
1 TA-TATT-AT-ATATTATTT
43312 GGTTTATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
16 8 0.17
17 8 0.17
18 2 0.04
19 20 0.43
21 3 0.06
22 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
TATATTATATATTATTTA
Found at i:43265 original size:3 final size:3
Alignment explanation
Indices: 43230--43310 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
43220 ATATAGTACG
*
43230 TAT TA- TAT TA- TAT TAT ATAT TAT T-T ATAG TAT TATT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TA-T TAT TA-T TAT
* * *
43276 TAT TTT TAT TA- TAT TA- TAT TAT TAA TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
43311 TGGTTTATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.14
3 45 0.71
4 9 0.14
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:43269 original size:26 final size:26
Alignment explanation
Indices: 43230--43311 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 26
43220 ATATAGTACG
43230 TATTATATTA--TATTATATATTATT
1 TATTATATTATTTATTATATATTATT
*
43254 TA-TAGTATTATTTATTATTTATTATTTT
1 TATTA-TATTATTTATTATATATTA--TT
43282 TATTATATTATATTATTAATAATATTATT
1 TATTATATTAT-TTATT-AT-ATATTATT
43311 T
1 T
43312 GGTTTATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
23 2 0.04
24 7 0.15
26 11 0.23
28 10 0.21
29 10 0.21
30 2 0.04
31 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTATATTATTTATTATATATTATT
Found at i:45668 original size:31 final size:31
Alignment explanation
Indices: 45633--45698 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
45623 TCACTGGTTT
* * * *
45633 TTTTCACATATTCACTTCATATAACTTGTAC
1 TTTTCACATATTCACATAATAGAACATGTAC
45664 TTTTCACATATTCACATAATAGAACATGTAC
1 TTTTCACATATTCACATAATAGAACATGTAC
45695 TTTT
1 TTTT
45699 TATTTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (31 bp):
TTTTCACATATTCACATAATAGAACATGTAC
Found at i:45955 original size:24 final size:24
Alignment explanation
Indices: 45928--45974 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45918 TACTTATATG
**
45928 AGAGTGCATGAATACACTAATACA
1 AGAGTGCACAAATACACTAATACA
*
45952 AGAGTGCACAAATGCACTAATAC
1 AGAGTGCACAAATACACTAATAC
45975 TAGATCAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAGTGCACAAATACACTAATACA
Found at i:49291 original size:54 final size:53
Alignment explanation
Indices: 49216--49410 Score: 148
Period size: 54 Copynumber: 3.5 Consensus size: 53
49206 CTCCACTAAG
* *
49216 TTATGTATTT-ATATTTTATTTTAATAATTTAATATTAACATCCTTAAAAATAAT
1 TTAT-TATTTAATAATTTATTTTAATAATTTAAAATTAACAT-CTTAAAAATAAT
* * * * **
49270 TTATTACTTAATAATTTATTTTAATTATTTAAAAATAA-AT-AT-AATTTAAAT
1 TTATTATTTAATAATTTATTTTAATAATTTAAAATTAACATCTTAAAAAT-AAT
*
49321 TCTA-TATTTAATATAATTTATTACTTAATAATTTAACATTAACATCATTAAAAAAAGTAAT
1 T-TATTATTT-A-ATAATTTATT--TTAATAATTTAAAATTAACATC-TT--AAAAA-TAAT
* *
49382 TTATTATTTACTAAATTATTTTAATAATT
1 TTATTATTTAATAATTTATTTTAATAATT
49411 ATTTTGATTA
Statistics
Matches: 109, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
50 3 0.03
51 9 0.08
52 3 0.03
53 16 0.15
54 28 0.26
55 15 0.14
56 2 0.02
57 9 0.08
58 1 0.01
59 8 0.07
60 3 0.03
61 11 0.10
62 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (53 bp):
TTATTATTTAATAATTTATTTTAATAATTTAAAATTAACATCTTAAAAATAAT
Found at i:49646 original size:13 final size:13
Alignment explanation
Indices: 49578--49652 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
49568 TTCTAAACAA
49578 CACTTTTAAAAGT
1 CACTTTTAAAAGT
*
49591 CATTTTTAAAAAGT
1 CACTTTT-AAAAGT
** *
49605 CACTTTT-CTACT
1 CACTTTTAAAAGT
49617 GCACTTTT-AAA--
1 -CACTTTTAAAAGT
49628 CACTTTTAAAAGT
1 CACTTTTAAAAGT
49641 CACTTTTCAAAA
1 CACTTTT-AAAA
49653 TTCCTGCCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
10 7 0.14
11 3 0.06
12 2 0.04
13 21 0.43
14 16 0.33
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (13 bp):
CACTTTTAAAAGT
Found at i:52121 original size:20 final size:21
Alignment explanation
Indices: 52098--52140 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
52088 TAGATACATT
*
52098 TAAATCCATTCAT-ATTTTTA
1 TAAATCCATACATAATTTTTA
*
52118 TAAATCGATACATAATTTTTA
1 TAAATCCATACATAATTTTTA
52139 TA
1 TA
52141 GATCTTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATCCATACATAATTTTTA
Found at i:53145 original size:44 final size:44
Alignment explanation
Indices: 53092--53426 Score: 340
Period size: 44 Copynumber: 7.6 Consensus size: 44
53082 AATCTTGAAT
* * **
53092 GATTCCATCACATAAGAAGTTGGATCAACATCATTATTTTGCTC
1 GATTTCATCACATAAGGAGTTGGATCAACATCATCCTTTTGCTC
** * * * *
53136 GATAACATCACATAAGGTGCTCGATCAACATCACCCTTTTGCTC
1 GATTTCATCACATAAGGAGTTGGATCAACATCATCCTTTTGCTC
* * * *
53180 -ATTTACATCACATAAGAAGTTGGATCAACATCACCCTTTTGTTT
1 GATTT-CATCACATAAGGAGTTGGATCAACATCATCCTTTTGCTC
* *
53224 GA-TTCAATCACATAAGGATTTGGAT-AAGCATCA-CACTTTTGCTT
1 GATTTC-ATCACATAAGGAGTTGGATCAA-CATCATC-CTTTTGCTC
* * *
53268 GATTCCATCACATAAGGAGTTGGATCAACATCA-CTTTTTTGCTT
1 GATTTCATCACATAAGGAGTTGGATCAACATCATC-CTTTTGCTC
* *
53312 GATTTCATCATATAAGGAGTTGGACCAACATCATCCTTTTGCTC
1 GATTTCATCACATAAGGAGTTGGATCAACATCATCCTTTTGCTC
* * *
53356 GATTTCATCACATAAGGAGGTGGATTAACATCGA-CCTTTTGCTA
1 GATTTCATCACATAAGGAGTTGGATCAACATC-ATCCTTTTGCTC
* *
53400 GATTTCATCACAAAAGGAGGTGGATCA
1 GATTTCATCACATAAGGAGTTGGATCA
53427 GCACAATCAA
Statistics
Matches: 246, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
43 6 0.02
44 233 0.95
45 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
GATTTCATCACATAAGGAGTTGGATCAACATCATCCTTTTGCTC
Found at i:53308 original size:132 final size:130
Alignment explanation
Indices: 53050--53426 Score: 366
Period size: 132 Copynumber: 2.9 Consensus size: 130
53040 TACAAACTCG
* * * ** * * *
53050 ATTTCATCTCAGAAGCAG-TGGATCAACATCACAATCTTGAATGATTCCATCACATAAGAAGTTG
1 ATTTCATCACATAAGAAGTTGGATCAACATCACCCTTTTGATTGATT-CATCACATAAGGAGTTG
* * * * *
53114 GATCAACATCATTA-TTTTGCTCGATAACATCACATAAGGTGCTCGATCAACATCACCCTTTTGC
65 GAT-AACATCA-CACTTTTGCTAGATTACATCACATAAGGAGCTGGATCAACATCACCCTTTTGC
53178 -TC
128 TTC
* *
53180 ATTTACATCACATAAGAAGTTGGATCAACATCACCCTTTTGTTTGATTCAATCACATAAGGATTT
1 ATTT-CATCACATAAGAAGTTGGATCAACATCACCCTTTTGATTGATTC-ATCACATAAGGAGTT
* * * **
53245 GGATAAGCATCACACTTTTGCTTGATTCCATCACATAAGGAGTTGGATCAACATCACTTTTTTGC
64 GGATAA-CATCACACTTTTGCTAGATTACATCACATAAGGAGCTGGATCAACATCACCCTTTTGC
*
53310 TTG
128 TTC
* * * * * * *
53313 ATTTCATCATATAAGGAGTTGGACCAACATCATCCTTTTGCTCGATTTCATCACATAAGGAGGTG
1 ATTTCATCACATAAGAAGTTGGATCAACATCACCCTTTTGATTGA-TTCATCACATAAGGAGTTG
* * *
53378 GATTAACATCGAC-CTTTTGCTAGATTTCATCACAAAAGGAGGTGGATCA
65 GA-TAACATC-ACACTTTTGCTAGATTACATCACATAAGGAGCTGGATCA
53427 GCACAATCAA
Statistics
Matches: 206, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
130 4 0.02
131 15 0.07
132 174 0.84
133 13 0.06
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (130 bp):
ATTTCATCACATAAGAAGTTGGATCAACATCACCCTTTTGATTGATTCATCACATAAGGAGTTGG
ATAACATCACACTTTTGCTAGATTACATCACATAAGGAGCTGGATCAACATCACCCTTTTGCTTC
Found at i:55148 original size:29 final size:31
Alignment explanation
Indices: 55101--55161 Score: 99
Period size: 29 Copynumber: 2.0 Consensus size: 31
55091 CATCACGTAC
55101 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
1 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
*
55132 ACAAAG-AA-AAAAAAGGAGATGAGTTGAAA
1 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
55161 A
1 A
55162 AGGATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 21 0.72
30 2 0.07
31 6 0.21
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.11
Consensus pattern (31 bp):
ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
Found at i:56786 original size:139 final size:137
Alignment explanation
Indices: 56465--56983 Score: 571
Period size: 138 Copynumber: 3.8 Consensus size: 137
56455 CCCCGACCCT
* ** *
56465 TTTAATTTAGGTGAATTTTT-TTTGGTCCTCACATTTATGCATGAGGTTTCATTTTGATTATTTT
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * *
56529 CTTTAATTATTGGATAAAATTGGTTAGGATGAATAACTA-AGCCTCAATTTTAGTTTAATTTCAC
66 ATTCAATAATTGGATAAAATTGGTTAGGAT-AATAATTAGAACCTCAATTTTAGTTTAATTTCAC
* *
56593 TCTGGTCC
130 TTTAGTCC
**
56601 TTTAATTTAGGTGACATTTTTATTTGGTCCT-AGCATTTATATATGAGGTTCCATTTCAATTATT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTCCTCA-CATTTATGCATGAGGTTCCATTTCAATTATT
* * * *
56665 TGATTCATTAATTGGATAAAATTGGTTAGGAATAATGATTAGATCCTCCATTTTAGTTTAATTTC
64 TGATTCAATAATTGGATAAAATTGGTTAGG-ATAATAATTAGAACCTCAATTTTAGTTTAATTTC
*
56730 ATTTTAGTCC
128 ACTTTAGTCC
* * * * *
56740 TTTAATTTAGATGAATTTTTGATTTGATACTCGCATTTATGCATGAGGTTCCATTTCAATGATTT
1 TTTAATTTAGGTGAATTTTT-ATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTT
* * * * * * * ** ** *
56805 GATCCAATAATTGGTTAAAATAGATCAGGGTAAT-ATTAAAACCTTTACCTTAGGTTTAATTTTA
65 GATTCAATAATTGGATAAAATTGGTTAGGATAATAATTAGAACCTCAATTTTA-GTTTAATTTCA
56869 CTTTAGTCC
129 CTTTAGTCC
* * **
56878 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCCTGAGGTTTCATTTCAATTATCCG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
*
56943 ATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTAGA
66 ATTCAATAATTGGA-TAAAATTGGTTAGGA-TAATAATTAGA
56984 GCTTTGATAA
Statistics
Matches: 316, Mismatches: 56, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
136 14 0.04
137 77 0.24
138 117 0.37
139 108 0.34
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (137 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
ATTCAATAATTGGATAAAATTGGTTAGGATAATAATTAGAACCTCAATTTTAGTTTAATTTCACT
TTAGTCC
Found at i:57312 original size:19 final size:19
Alignment explanation
Indices: 57288--57324 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
57278 ATTCAAACAC
57288 TTTAGATTTTATTATTTTA
1 TTTAGATTTTATTATTTTA
57307 TTTAGATTTTATTATTTT
1 TTTAGATTTTATTATTTT
57325 TATTACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTAGATTTTATTATTTTA
Found at i:59375 original size:65 final size:64
Alignment explanation
Indices: 59254--59463 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
59244 TTTTTCAAAG
* * * * **
59254 TGATGCACCGATGCACCAATCCATGCATCAATGCAC-CATGGAATAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTCA-AG-CTATTTTGAAACATCGAATGCA
59317 TT
63 TT
* * * *
59319 TTATGTATCGATGCA-CATACCATGCATCGATGCACTCAAGGT-TTTATGAAAACATCGAATACA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCAAGCTATTT-TG-AAACATCGAATGCA
59382 TT
63 TT
* *
59384 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCAAGCTATTTTGAAACATCAAATGCATT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCAAGCTATTTTGAAACATCGAATGCATT
* * *
59448 TCATGCGTCGGTGCAC
1 TGATGCATCGATGCAC
59464 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 45 0.38
65 66 0.55
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCAAGCTATTTTGAAACATCGAATGCATT
Found at i:61552 original size:18 final size:18
Alignment explanation
Indices: 61529--61579 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
61519 TTTAAAATGT
61529 AATTGATATCTATTTAAC
1 AATTGATATCTATTTAAC
61547 AATTGATATCTATTTAAC
1 AATTGATATCTATTTAAC
*
61565 AATTGATATCGATTT
1 AATTGATATCTATTT
61580 TTCAAGAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (18 bp):
AATTGATATCTATTTAAC
Found at i:64926 original size:44 final size:44
Alignment explanation
Indices: 64876--64972 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
64866 TTGTGCTTAA
* *
64876 TGCATCGATACACT-T-AACAGTGCATCGATGCAT-CCATTTGAATG
1 TGCATCGATAAACTATGAA-AGTGCACCGATGCATGCC--TTGAATG
*
64920 TGCATCGATAAACTATGAAGGTGCACCGATGCATGCCTTGAATG
1 TGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAATG
64964 TGCATCGAT
1 TGCATCGAT
64973 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 29 0.62
45 14 0.30
46 4 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
TGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAATG
Found at i:66414 original size:18 final size:18
Alignment explanation
Indices: 66393--66427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66383 TCGGTCTAAA
* *
66393 CATCTCTCTCGAAAATCC
1 CATCCCTCTCCAAAATCC
66411 CATCCCTCTCCAAAATC
1 CATCCCTCTCCAAAATC
66428 AAATCAATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.43, G:0.03, T:0.26
Consensus pattern (18 bp):
CATCCCTCTCCAAAATCC
Found at i:67369 original size:14 final size:15
Alignment explanation
Indices: 67337--67369 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
67327 GGGGGAGTAA
67337 TTTTCAAAATTTAAT
1 TTTTCAAAATTTAAT
67352 TTTTCAAAATTT-AT
1 TTTTCAAAATTTAAT
67366 TTTT
1 TTTT
67370 AAAGAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTCAAAATTTAAT
Found at i:67834 original size:66 final size:63
Alignment explanation
Indices: 67719--67873 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 63
67709 GAATAAATTG
* * * * *
67719 AACATCGAATGCTTTTTATACATCGATGTAATACCATGCATCGATGCACTCAGGGT-TTTATAAA
1 AACATCGAATGCATTTCATGCATCAATGTAATACCATGCATCGATGCACTCAGGCTATTT-T--A
67783 A
63 A
* *
67784 AACATCGAATGCATTTGATGCATCAATGTACCAT-CCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCAATGTA--ATACCATGCATCGATGCACTCAGGCTATTTTAA
*
67848 AACATCGAATGCATTTCATGAATCAA
1 AACATCGAATGCATTTCATGCATCAA
67874 ATGCACTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 25 0.32
65 26 0.33
66 23 0.29
67 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCAATGTAATACCATGCATCGATGCACTCAGGCTATTTTAA
Found at i:67873 original size:64 final size:64
Alignment explanation
Indices: 67719--67873 Score: 174
Period size: 64 Copynumber: 2.4 Consensus size: 64
67709 GAATAAATTG
* * * *
67719 AACATCGAATGCTTTTTAT-ACATCGATGTAATACCATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTTCATGA-ATCAATGTAATACCATGCATCGATGCACTCAGGCTTTTAT-AA
67783 A
64 A
* *
67784 AACATCGAATGCATTTGATGCATCAATGTACCAT-CCATGCATCGATGCACTCAGGCTATTT-T-
1 AACATCGAATGCATTTCATGAATCAATGTA--ATACCATGCATCGATGCACTCAGGCT-TTTATA
*
67846 GA
63 AA
67848 AACATCGAATGCATTTCATGAATCAA
1 AACATCGAATGCATTTCATGAATCAA
67874 ATGCACTAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
64 25 0.32
65 25 0.32
66 23 0.29
67 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGAATCAATGTAATACCATGCATCGATGCACTCAGGCTTTTATAAA
Found at i:68984 original size:139 final size:138
Alignment explanation
Indices: 68843--69365 Score: 502
Period size: 139 Copynumber: 3.8 Consensus size: 138
68833 TCCCAGACCT
* * ** **
68843 TTTTAATTTAGGTGAATTTTTTATTTGATCCTTGTATTT-TGCAGAGGTTTTATTTTGATTATTT
1 TTTTAATTTAGGTGAATTTTTTATTTGATCCTAGTATTTATGCTGAGGTTCCATTTCAATTATTT
*
68907 GATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTATAGCCTCCATTTTAGTTTAATTTCA
66 GATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTAGAGCCTCCATTTTAGTTTAATTTCA
*
68972 CTATGGTTC
131 CTATAG-TC
* * * * *
68981 TTTT-ATTTAGGTGACTTTTTTATTTGGTCATAGTATTTATATCTGATGTTCCATTTCAATTATT
1 TTTTAATTTAGGTGAATTTTTTATTTGATCCTAGTATTTAT-GCTGAGGTTCCATTTCAATTATT
* * * * * *
69045 TGATTCATTAATTGGATAAAATTGGTTAGGATTAATGATTAGATCCTTCATTTTAGTTTAATTTC
65 TGATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTAGAGCCTCCATTTTAGTTTAATTTC
*
69110 ACTTTAGTC
130 ACTATAGTC
* * * * * *
69119 CTTTAATTTAGATGAATTTTTGATTTGATACTCGTATTTATGCCTGAGGTTCCATTTCAATGATT
1 TTTTAATTTAGGTGAATTTTTTATTTGATCCTAGTATTTATG-CTGAGGTTCCATTTCAATTATT
* * * * * * * * ** **
69184 TGATACAATAATTGGTTAAAATTGATCAGGGT-AAT-ATTAAAACCTTTACCTTAGGTTTAATTT
65 TGATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTAGAGCCTCCATTTTA-GTTTAATTT
*
69247 CACTTTAGTC
129 CACTATAGTC
* * * * *
69257 GTTTAATTTAGGTGAA-TTTTTATTTGGTCCTCACT-TTTATGCCAGAGGCTCCATTTCAATTAT
1 TTTTAATTTAGGTGAATTTTTTATTTGATCCT-AGTATTTATG-CTGAGGTTCCATTTCAATTAT
* * * *
69320 TCGATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTAGAGC
64 TTGATTCAATAATTGGA-TAAAATTGGTTAGGATGAATAACTAGAGC
69366 TTTGATAAGT
Statistics
Matches: 315, Mismatches: 61, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
137 105 0.33
138 50 0.16
139 160 0.51
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (138 bp):
TTTTAATTTAGGTGAATTTTTTATTTGATCCTAGTATTTATGCTGAGGTTCCATTTCAATTATTT
GATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTAGAGCCTCCATTTTAGTTTAATTTCA
CTATAGTC
Found at i:69694 original size:19 final size:19
Alignment explanation
Indices: 69666--69703 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
69656 AAATTCAAAC
69666 ATTTAGATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
*
69685 ATTTATATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
69704 TATTAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTAGATTTTATTATTTT
Found at i:71885 original size:138 final size:137
Alignment explanation
Indices: 71637--72144 Score: 526
Period size: 136 Copynumber: 3.7 Consensus size: 137
71627 CCCCGAACTT
* * * * **
71637 TTTAATTTAGGTGATTTTTTATTTGGTCCTCGCAGTTATGCATGA-GTTTCATTTTGATTATTTG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTAGCATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * * *
71701 ATTCAATTATTGGATAAAATTGGCTAGGATGAATAACTGTAGCCTCCATTTTAGTTTAATTTCAC
66 ATTCAATAATTGGATAAAATTGGTTAGGATTAA-AATTATATCCTCCATTTTAGTTTAATTTCAC
* *
71766 TCTGGTCC
130 TTTAGTCC
* ** *
71774 TTTAATTTAGGTGACTTTTTTATTTGGTCCTAGCATTTATATATGAGGTTCCATTTCAGTTATTT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTCCTAGCATTTATGCATGAGGTTCCATTTCAATTATTT
* *
71839 GATTCATTAATTGGAT-AAATTGGTTAGGATTAACGATTATATCCTCCATTTTAGTTTAATTTCA
65 GATTCAATAATTGGATAAAATTGGTTAGGATTAA-AATTATATCCTCCATTTTAGTTTAATTTCA
* *
71903 GTTTCGTCC
129 CTTTAGTCC
* * ** * *
71912 TTTAATTTAGATGAATTTTTATTTGGTACTCTCATTTATGCCTGAGG-TCCATTTCAATGATTTG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTAGCATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * * * * ** **
71976 ATCCAATAATTGGTTAAAATTGATCAGG-GTAATATTAAAAT-CTTTACCTTAGGTTTAATTTCA
66 ATTCAATAATTGGATAAAATTGGTTAGGATTAAAATT-ATATCCTCCATTTTA-GTTTAATTTCA
72039 CTTTAGTCC
129 CTTTAGTCC
* *
72048 TTTAATTTAGGTGAATTTTTATTTGGTCCTCA-CATTTATGCCTGAGGTTCCATTTCAATTATTC
1 TTTAATTTAGGTGAATTTTTATTTGGTCCT-AGCATTTATGCATGAGGTTCCATTTCAATTATTT
*
72112 GATTCAATAATT-TACTAAAATTGGTTAGGATTA
65 GATTCAATAATTGGA-TAAAATTGGTTAGGATTA
72145 TTAATTAGAG
Statistics
Matches: 307, Mismatches: 55, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
135 9 0.03
136 94 0.31
137 87 0.28
138 89 0.29
139 28 0.09
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (137 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCCTAGCATTTATGCATGAGGTTCCATTTCAATTATTTG
ATTCAATAATTGGATAAAATTGGTTAGGATTAAAATTATATCCTCCATTTTAGTTTAATTTCACT
TTAGTCC
Found at i:72479 original size:19 final size:20
Alignment explanation
Indices: 72452--72492 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
72442 ATTCAAACAC
72452 TTTAGATTTTATTATTT-TA
1 TTTAGATTTTATTATTTGTA
*
72471 TTTATATTTTATTATTTGTA
1 TTTAGATTTTATTATTTGTA
72491 TT
1 TT
72493 AGGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTAGATTTTATTATTTGTA
Done.