Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003029.1 Hibiscus syriacus cultivar Beakdansim tig00006306_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: 32317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2218 original size:30 final size:30
Alignment explanation
Indices: 2182--2245 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
2172 AGAACCGGAA
* *
2182 GAACCGGTTGAGAACCGACAAAACCAGG-GT
1 GAACCGGCTGAAAACCGACAAAACC-GGTGT
*
2212 GAACCGGCTGAAAACCGGCAAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGGTGT
2242 GAAC
1 GAAC
2246 TGTCAGTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.36, C:0.25, G:0.30, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGTGT
Found at i:3463 original size:2 final size:2
Alignment explanation
Indices: 3458--3490 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3448 TAAAAAATGT
3458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3491 TAATATTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8576 original size:2 final size:2
Alignment explanation
Indices: 8569--8621 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
8559 TCGTCCCATT
8569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8610 TA TA TA TA TA TA
1 TA TA TA TA TA TA
8622 GTTTAAAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8878 original size:101 final size:99
Alignment explanation
Indices: 8692--8971 Score: 306
Period size: 102 Copynumber: 2.8 Consensus size: 99
8682 TTATATATTG
* * * *
8692 TATAGTTTTTAAAACATTTTGAAAATA-ATATAATATAGT--TTTTAAAA-CATTTTTGAAAATA
1 TATAATTTTAAAAACATTTTAAAAAAATATATAATATA-TAATTTTAAAATCATTTTTGAAAATA
* * *
8753 TATATTATATAGTTTTTAAGCA-TTTTGAAAA-TA
65 TATAATATATAGTTTTAAAACATTTTTGAAAACTA
*
8786 TATAATTTTTAAAAACATTTTAAAAAACATATATATAATATATAATTTTGAAATCA-TTTTGAAA
1 TATAA-TTTTAAAAACATTTT-AAAAA-A-ATATATAATATATAATTTTAAAATCATTTTTGAAA
8850 ACT-TATAATATATAGTTTTAAAAACATTTTTGAAAACTA
62 A-TATATAATATATAGTTTT-AAAACATTTTTGAAAACTA
* * *
8889 TATAATTTTGAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATATATTTTTTTAAAAT
1 TATAATTTTAAAAACATTTTAAAAAAATATATAATATATAATTTTAAAAT-CA-TTTTTGAAAAT
*
8954 ATATATTATATAGGTTTT
64 ATATAATATATA-GTTTT
8972 TGGAAAATAT
Statistics
Matches: 156, Mismatches: 13, Indels: 25
0.80 0.07 0.13
Matches are distributed among these distances:
94 4 0.03
95 14 0.09
96 4 0.03
98 2 0.01
99 33 0.21
100 33 0.21
101 13 0.08
102 41 0.26
103 12 0.08
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (99 bp):
TATAATTTTAAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATCATTTTTGAAAATAT
ATAATATATAGTTTTAAAACATTTTTGAAAACTA
Found at i:8907 original size:63 final size:66
Alignment explanation
Indices: 8824--8946 Score: 180
Period size: 63 Copynumber: 1.9 Consensus size: 66
8814 ATATATATAA
* * * *
8824 TATATAATTTTGAAATCATTTT-GAAAACT-TATAATATATAGTTTTAAAA-ACATTTTTGAAAA
1 TATATAATTTTGAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATACATTTTTGAAAA
8886 C
66 C
*
8887 TATATAATTTTGAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATATATTTTT
1 TATATAATTTTGAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATACATTTTT
8947 TTAAAATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 21 0.40
64 5 0.10
65 19 0.37
66 7 0.13
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (66 bp):
TATATAATTTTGAAAACATTTTAAAAAAATATATAATATATAATTTTAAAATACATTTTTGAAAA
C
Found at i:8914 original size:29 final size:29
Alignment explanation
Indices: 8822--8923 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 29
8812 ACATATATAT
* *
8822 AATATATAATTTTGAAATCATTTTGAAAACTTA
1 AATATATAATTTTAAAAACATTTT-AAAA---A
* **
8855 TAATATATAGTTTTAAAAACATTTTTGAAA
1 -AATATATAATTTTAAAAACATTTTAAAAA
* *
8885 ACTATATAATTTTGAAAACATTTTAAAAA
1 AATATATAATTTTAAAAACATTTTAAAAA
8914 AATATATAAT
1 AATATATAAT
8924 ATATAATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 33 0.58
30 1 0.02
33 2 0.04
34 21 0.37
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (29 bp):
AATATATAATTTTAAAAACATTTTAAAAA
Found at i:8921 original size:134 final size:138
Alignment explanation
Indices: 8607--8926 Score: 320
Period size: 134 Copynumber: 2.3 Consensus size: 138
8597 TATATTATAT
* * *
8607 ATATATATATATATAGTTTAAAAACATTTTTAAAACATATATAATATATAGTTTTGAAAACATGT
1 ATATATAT-TATATA-TTTGAAAACA-TTTTAAAA-AAATAT-ATATATAGTTTTAAAAACATGT
* * * * * * *
8672 TTGAAAACATTTATATATTGTATAGTTTTTAAAACATTTTGAAAATAATATAATATAGTTTTTAA
61 TTAAAAACATATATATAATATATAATTTTGAAAACATTTTGAAAATAATATAATATAGTTTTAAA
8737 AACATTTTTGAAA
126 AACATTTTTGAAA
** * *
8750 ATATATATTATATAGTTTTTAAGCATTTT--GAAAATATATA-AT--TTTTAAAAACAT-TTTAA
1 ATATATATTATATA-TTTGAAAACATTTTAAAAAAATATATATATAGTTTTAAAAACATGTTT-A
* *
8809 AAAACATATATATAATATATAATTTTGAAATCATTTTGAAAACTTATA-ATATATAGTTTTAAAA
64 AAAACATATATATAATATATAATTTTGAAAACATTTTGAAAA-TAATATA-ATATAGTTTTAAAA
8873 ACATTTTTGAAA
127 ACATTTTTGAAA
*
8885 A-CTATA-TA-AT-TTTGAAAACATTTTAAAAAAATATATAATATA
1 ATATATATTATATATTTGAAAACATTTTAAAAAAATATAT-ATATA
8927 TAATTTTAAA
Statistics
Matches: 149, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
130 11 0.07
132 11 0.07
133 6 0.04
134 54 0.36
135 30 0.20
136 2 0.01
137 3 0.02
138 5 0.03
139 1 0.01
141 4 0.03
142 14 0.09
143 8 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (138 bp):
ATATATATTATATATTTGAAAACATTTTAAAAAAATATATATATAGTTTTAAAAACATGTTTAAA
AACATATATATAATATATAATTTTGAAAACATTTTGAAAATAATATAATATAGTTTTAAAAACAT
TTTTGAAA
Found at i:8941 original size:15 final size:15
Alignment explanation
Indices: 8921--8958 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8911 AAAAATATAT
8921 AATATATAATTTTAA
1 AATATATAATTTTAA
**
8936 AATATATTTTTTTAA
1 AATATATAATTTTAA
8951 AATATATA
1 AATATATA
8959 TTATATAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATATAATTTTAA
Found at i:9004 original size:4 final size:4
Alignment explanation
Indices: 8995--9041 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
8985 TATTATTGTC
8995 ATTT ATTT ATTT ATTT A-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
9042 TTATTGTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 39 0.93
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:10245 original size:21 final size:20
Alignment explanation
Indices: 10202--10269 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
10192 TTTTATTTTA
*
10202 TATTTTATATT-TTATTCTCT
1 TATTTT-TATTATTATTATCT
10222 TATTTTTATTATTATTATCAT
1 TATTTTTATTATTATTATC-T
10243 TATATTTTACTTATTTATTAT-T
1 TAT-TTTTA-TTA-TTATTATCT
10265 TATTT
1 TATTT
10270 AATCTTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.10
20 13 0.31
21 6 0.14
22 9 0.21
23 3 0.07
24 7 0.17
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTTATTATTATTATCT
Found at i:10246 original size:36 final size:33
Alignment explanation
Indices: 10191--10269 Score: 88
Period size: 36 Copynumber: 2.3 Consensus size: 33
10181 TCTATTTCAT
* *
10191 TTTTTATTTTATATTTTATATTTTA-TTCTCTTA
1 TTTTTATTTTATATATTATATTTTACTTAT-TTA
10224 TTTTTATTATTATTATCATTATATTTTACTTATTTA
1 TTTTTATT-TTA-TAT-ATTATATTTTACTTATTTA
10260 TTATTTATTT
1 TT-TTTATTT
10270 AATCTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 8 0.21
34 3 0.08
35 3 0.08
36 16 0.41
37 9 0.23
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTTTATTTTATATATTATATTTTACTTATTTA
Found at i:10352 original size:15 final size:15
Alignment explanation
Indices: 10310--10365 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 15
10300 ACTATCATTT
10310 TTATTGTTTTATT-TA
1 TTATT-TTTTATTCTA
10325 TT-TGTTTTTATTC-A
1 TTAT-TTTTTATTCTA
10339 TTATTTTATTATTCTA
1 TTATTTT-TTATTCTA
10355 TTATTTTTTAT
1 TTATTTTTTAT
10366 ATTTATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 14 0.39
15 14 0.39
16 8 0.22
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (15 bp):
TTATTTTTTATTCTA
Found at i:14321 original size:84 final size:84
Alignment explanation
Indices: 14195--14469 Score: 417
Period size: 84 Copynumber: 3.3 Consensus size: 84
14185 GGATATTTTA
* *
14195 CAACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAA
1 CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAA
*
14260 GTCGAGAAGGGTTATGTGC
66 GTCGAGAAGGGTTATCTGC
* * *
14279 CAACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA
1 CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAA
*
14344 GTCGATAAGGGTTATCTGC
66 GTCGAGAAGGGTTATCTGC
* * * ** *
14363 CAACTAAAGACCTTCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGTAGCATAACTTA
1 CAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGTAGCATAACTTA
14428 AGTCGAGAAGGGTTATCTGC
65 AGTCGAGAAGGGTTATCTGC
14448 CAA-CAAAGACCTTCGAGTTCGA
1 CAACCAAAGACCTTCGAGTTCGA
14470 GGCACATCTT
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
84 125 0.73
85 47 0.27
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAA
GTCGAGAAGGGTTATCTGC
Found at i:14512 original size:67 final size:68
Alignment explanation
Indices: 14403--14537 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 68
14393 CAGCTTTGAG
* *
14403 GGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
14467 CGA
66 CGA
* * *
14470 GGCACATCTTTTGCATCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
14535 CGA
66 CGA
14538 CTACGCTCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
67 44 0.71
68 18 0.29
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (68 bp):
GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
CGA
Found at i:14610 original size:84 final size:84
Alignment explanation
Indices: 14469--15189 Score: 1061
Period size: 84 Copynumber: 8.6 Consensus size: 84
14459 TTCGAGTTCG
* * * *
14469 AGGCACATCTTTTGCATCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGT
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
14534 TCGACTACGCTCAGCTCCA
66 TCGACTACGCTCAGCTCCA
* * * *
14553 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAATGGCTATATGCCAATCAAAGACCTTCGAGA
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
*
14618 TCGACTATGCTCAGCTCCA
66 TCGACTACGCTCAGCTCCA
* *
14637 AGGCATATCATTTGCAGCATAAG-TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
1 AGGCACATCATTTGCAGCAT-AGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAG
*
14701 TTCAACTACGCTCAGCTCCA
65 TTCGACTACGCTCAGCTCCA
** *
14721 AGGCACATCATTTGCAGCATAGCTTAAGTCGTTAAGGGTTATCTGCCAACCAAAGACCTTCGAGT
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
* * *
14786 TCGATTACACTCAGCTTCGA
66 TCGACTACGCTCAGC-TCCA
* * * * *
14806 GGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGT
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
* *
14870 TCGACTACACTAAGCTCCA
66 TCGACTACGCTCAGCTCCA
* * * *
14889 AGGCACATCTTTTGCATCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGT
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
14954 TCGACTACGCTCAGCTCCA
66 TCGACTACGCTCAGCTCCA
* *
14973 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAATGGCTATCTGCCAACCAAAGACCTTCGAGA
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
15038 TCGACTACGCTCAGCTCCA
66 TCGACTACGCTCAGCTCCA
* * *
15057 AGGCATATCATTTGCAGCATAAG-TTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAG
1 AGGCACATCATTTGCAGCAT-AGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAG
*
15121 TTCGACAACGCTCAGCTCCA
65 TTCGACTACGCTCAGCTCCA
* *
15141 AGGCACATCATTTGCAGCATAGCTTAAGCCAAGAAGGGCTATCTGCCAA
1 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
15190 AGACCCTCGA
Statistics
Matches: 572, Mismatches: 59, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
83 50 0.09
84 472 0.83
85 50 0.09
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (84 bp):
AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
TCGACTACGCTCAGCTCCA
Found at i:15959 original size:64 final size:64
Alignment explanation
Indices: 15906--16068 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 64
15896 CGGTGCACCA
*
15906 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
15970 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
16035 AGAATGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
16069 CAATTAATTC
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 31 0.36
65 54 0.64
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:16058 original size:17 final size:19
Alignment explanation
Indices: 16020--16066 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
16010 ATATTCAGAG
16020 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
16039 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
16056 TGCATTCGATG
1 TGCA-TCGATG
16067 TTCAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:16309 original size:20 final size:21
Alignment explanation
Indices: 16284--16323 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16274 GAATAGAATA
16284 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
16304 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
16324 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:24525 original size:64 final size:64
Alignment explanation
Indices: 24424--24549 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
24414 GTGCACCAAG
* * *
24424 TGTGCACCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGTATCGATGCATGGCT
1 TGTGCACCGATGCATCAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGGCT
* * **
24488 TGTGCATCGATGCATCAAATGCATTCGATTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 TGTGCACCGATGCATCAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
24550 GAGAATGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGTGCACCGATGCATCAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGGCT
Found at i:25278 original size:84 final size:83
Alignment explanation
Indices: 24906--25507 Score: 448
Period size: 84 Copynumber: 7.3 Consensus size: 83
24896 CATTATTTAC
* * * * *
24906 CATAACTCAAGGCTAG-A-GGTTAGCTGTAACTAAAAGACCTTCGAGTTC-ACTACGCTCAACTC
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
24968 TAAGGCATATCATTTGCAG
65 CAAGGCATATCATTTGCAG
* * * *** *
24987 CATTACTCAAGGCTAGAAGGGTTATCTACCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
25052 AAGGCACATCATTTGCAG
66 AAGGCATATCATTTGCAG
* * * * **
25070 CATAACTTAAGTCTA-AAGGGCTATATG---CCAAAGATCC-TCGAGTTTGATTATACTCAGCTT
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-T
* * **
25130 CGAGGGC--ATCATTTATAG
64 CCAAGGCATATCATTTGCAG
* * * * * *
25148 CATAAATCAAGGCTAGAAGGGTTATCTGTAACCAAAATACCTTCGAGTTCGACTACTCTAAGCTC
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCT-
25213 CCAA-GCATATCATTTGCAG
64 CCAAGGCATATCATTTGCAG
* * * *
25232 CATAACTTAAGTCGAGAATGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
1 CATAACTTAAGTCTAGAAGGGTTATCTGT-AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
25297 CAAGGCGTATCATTTGCAG
65 CAAGGCATATCATTTGCAG
* * * * * *
25316 CATAGCTTAAGTCGAGAAGGGTT-T-T-T-ACCAAAGACCCTCAAGTTCGATTACACTCAGCTTC
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC
* * * * *
25377 GAGGGCACATCATTTACAA
65 CAAGGCATATCATTTGCAG
* * * * * * * *
25396 CAT-ACTCAAGGCTAGAAGGGTTATCTTTCACGAAAATACCTTCGAGTTCG-TTACACTCAGCTC
1 CATAACTTAAGTCTAGAAGGGTTATCTGTAAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
25459 AAAGGCA-ATCAAATTTACAG
65 CAAGGCATATC--ATTTGCAG
* * * *
25479 CATAACTCAAGGCAAGAAGGGCTATCTGT
1 CATAACTTAAGTCTAGAAGGGTTATCTGT
25508 CAATAAATTT
Statistics
Matches: 419, Mismatches: 77, Indels: 47
0.77 0.14 0.09
Matches are distributed among these distances:
78 21 0.05
79 76 0.18
80 26 0.06
81 20 0.05
82 42 0.10
83 100 0.24
84 130 0.31
85 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
CATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCATATCATTTGCAG
Found at i:25292 original size:246 final size:245
Alignment explanation
Indices: 24867--25505 Score: 740
Period size: 246 Copynumber: 2.6 Consensus size: 245
24857 AATGTTTTCA
* * * * *
24867 AAGTTCGATTACACTCAGCTTCGAAGG-AACATTATTTACCATAACTCAAGGCTAG-A-GGTTAG
1 AAGTTCGATTACACTCAGCTTCGAGGGCATCATT-TATAACATAACTCAAGGCTAGAAGGGTTAT
* * * *
24929 CTGTAACTAAAAGACCTTCGAGTTC-ACTACGCTCAACTCTAAGGCATATCATTTGCAGCATTAC
65 CTGTAACCAAAATACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAAC
* * *
24993 TCAAGGCTAGAAGGGTTATCTACCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
130 TCAAGGCGAGAAGGGTTATCTACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
* * *
25058 CATCATTTGCAGCATAACTTAAGTCTA-AAGGGCTATATGCCAAAGATCCTC
195 CATCATTTGCAGCATAACTTAAGTCGAGAAGGG-TATATACCAAAGACCCTC
* * * * *
25109 GAGTTTGATTATACTCAGCTTCGAGGGCATCATTTATAGCATAAATCAAGGCTAGAAGGGTTATC
1 AAGTTCGATTACACTCAGCTTCGAGGGCATCATTTATAACATAACTCAAGGCTAGAAGGGTTATC
*
25174 TGTAACCAAAATACCTTCGAGTTCGACTACTCT-AAGCTCCCAA-GCATATCATTTGCAGCATAA
66 TGTAACCAAAATACCTTCGAGTTCGACTACGCTCAA-CT-CCAAGGCATATCATTTGCAGCATAA
* * * * * *
25237 CTTAAGTCGAGAATGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGG
129 CTCAAGGCGAGAAGGGTTATCT-ACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
** * * *
25302 CGTATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTTTTACCAAAGACCCTC
193 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTATATACCAAAGACCCTC
*
25355 AAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACAT-ACTCAAGGCTAGAAGGGTTA
1 AAGTTCGATTACACTCAGCTTCGAGGG--CATCATTTATAACATAACTCAAGGCTAGAAGGGTTA
* * * * * * * *
25419 TCTTTCACGAAAATACCTTCGAGTTCG-TTACACTCAGCTCAAAGGCA-ATCAAATTTACAGCAT
64 TCTGTAACCAAAATACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATC--ATTTGCAGCAT
* *
25482 AACTCAAGGCAAGAAGGGCTATCT
127 AACTCAAGGCGAGAAGGGTTATCT
25506 GTCAATAAAT
Statistics
Matches: 332, Mismatches: 51, Indels: 23
0.82 0.13 0.06
Matches are distributed among these distances:
242 41 0.12
243 6 0.02
244 30 0.09
245 51 0.15
246 114 0.34
247 77 0.23
248 13 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (245 bp):
AAGTTCGATTACACTCAGCTTCGAGGGCATCATTTATAACATAACTCAAGGCTAGAAGGGTTATC
TGTAACCAAAATACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACT
CAAGGCGAGAAGGGTTATCTACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTATATACCAAAGACCCTC
Found at i:26032 original size:2 final size:2
Alignment explanation
Indices: 26020--26082 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
26010 TCGTCCCATT
*
26020 TA TA T- TA TA TA TA T- TA CA 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 TA TA TA TA TA
* *
26060 -A TC TA T- TA -A TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
26083 GTTTATAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
1 5 0.10
2 45 0.90
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26055 original size:23 final size:22
Alignment explanation
Indices: 26020--26078 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
26010 TCGTCCCATT
26020 TATAT-TATATATATTACATATA
1 TATATATATATATATTA-ATATA
*
26042 TATATATATATATATATAATCTA
1 TATATATATATATAT-TAATATA
26065 T-TA-ATATATATATT
1 TATATATATATATATT
26079 TATAGTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 10 0.29
22 7 0.21
23 14 0.41
24 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATATATATATATTAATATA
Found at i:26148 original size:38 final size:37
Alignment explanation
Indices: 26106--26196 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 37
26096 TTTAAACATA
*
26106 TATATAATATATAGTTTTGAAAACATGTTGAAAACATT
1 TATATAATATATAGTTTTAAAAACATGTTGAAAACA-T
* *
26144 TATATATTATATAGTTTTAAAAACATTTTGAAATA-A-
1 TATATAATATATAGTTTTAAAAACATGTTGAAA-ACAT
26180 -ATATAATATATAGTTTT
1 TATATAATATATAGTTTT
26197 TAATTTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 16 0.33
38 31 0.65
39 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTAAAAACATGTTGAAAACAT
Found at i:26210 original size:73 final size:71
Alignment explanation
Indices: 26067--26245 Score: 204
Period size: 73 Copynumber: 2.5 Consensus size: 71
26057 ATAATCTATT
* *
26067 AATATATATATT-TATAG-TTTATAAACATTTTTAAACATATATATAATATATAGTTTTGAAAAC
1 AATATATATATTATATAGTTTTATAAACA-TTTTGAA-ATAAATATAATATATAGTTTTGAAAAC
26130 ATGTTGAAA
64 ATGTTG-AA
* * * ****
26139 ACATTTATATATTATATAGTTTTAAAAACATTTTGAAATAAATATAATATATAGTTTTTAATTTT
1 A-ATATATATATTATATAGTTTTATAAACATTTTGAAATAAATATAATATATAGTTTTGAAAACA
*
26204 TTTTGAA
65 TGTTGAA
26211 AATATATATATTATATA-TTTT-TAAACATTTTGAAA
1 AATATATATATTATATAGTTTTATAAACATTTTGAAA
26246 ATATATAGTT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
69 13 0.14
70 4 0.04
71 15 0.16
72 4 0.04
73 36 0.39
74 11 0.12
75 9 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (71 bp):
AATATATATATTATATAGTTTTATAAACATTTTGAAATAAATATAATATATAGTTTTGAAAACAT
GTTGAA
Found at i:26240 original size:96 final size:95
Alignment explanation
Indices: 26151--26425 Score: 287
Period size: 96 Copynumber: 2.9 Consensus size: 95
26141 ATTTATATAT
* *
26151 TATATAGTTTTAAAAACATTTTGAAATAA-ATATAATATATAGTTTTTAATTTTTTTTGAAAATA
1 TATATAGTTTTAAAAACATTTT-AAAAAACATATAATATATA-TTTTAAATTTTTTTTGAAAATA
*
26215 TATATATTATATATTTTTAAACATTTTGAAAA
64 TATATATTATATAGTTTTAAACATTTTGAAAA
* **
26247 TATATAGTTTTTAAAAACA-TTTAAAAAACATATATTATATTATTTTGAAA-TCATTTTGAAAAC
1 TATATAG-TTTTAAAAACATTTTAAAAAACATATAATATA-TATTTT-AAATTTTTTTTGAAAA-
* *
26310 T-TATA-A-TATTTAGTTTTAAAAACTTTTTGAAAA
62 TATATATATTATATAGTTTT--AAACATTTTGAAAA
* * *
26343 CTATATAATTTTGAAAACATTTTTAAAAAATATATAATATATATTTTAAATATTTTTTT-AAAA-
1 -TATATAGTTTTAAAAACA-TTTTAAAAAACATATAATATATATTTTAAAT-TTTTTTTGAAAAT
26406 ATATATATTATATAGGTTTT
63 ATATATATTATATA-GTTTT
26426 TGGAAAATAT
Statistics
Matches: 148, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
94 9 0.06
95 6 0.04
96 67 0.45
97 33 0.22
98 28 0.19
99 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (95 bp):
TATATAGTTTTAAAAACATTTTAAAAAACATATAATATATATTTTAAATTTTTTTTGAAAATATA
TATATTATATAGTTTTAAACATTTTGAAAA
Found at i:26252 original size:36 final size:37
Alignment explanation
Indices: 26068--26252 Score: 172
Period size: 35 Copynumber: 5.1 Consensus size: 37
26058 TAATCTATTA
* *
26068 ATATATATATT-TATAGTTTATAAACATTTTTAAACAT
1 ATATATATATTATATAGTTTTTAAACATTTTGAAA-AT
* * *
26105 ATATATA-A-TATATAGTTTTGAAAACATGTTGAAAAC
1 ATATATATATTATATAGTTTT-TAAACATTTTGAAAAT
* *
26141 ATTTATATATTATATAGTTTTAAAAACATTTTG-AAAT
1 ATATATATATTATATAGTTTT-TAAACATTTTGAAAAT
* ***
26178 A-A-ATATAATATATAGTTTTTAATTTTTTTTG-AAA-
1 ATATATATATTATATAGTTTTTAA-ACATTTTGAAAAT
26212 ATATATATATTATATA-TTTTTAAACATTTTGAAAAT
1 ATATATATATTATATAGTTTTTAAACATTTTGAAAAT
26248 ATATA
1 ATATA
26253 GTTTTTAAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
34 8 0.07
35 36 0.30
36 32 0.27
37 23 0.19
38 21 0.17
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (37 bp):
ATATATATATTATATAGTTTTTAAACATTTTGAAAAT
Found at i:26274 original size:28 final size:25
Alignment explanation
Indices: 26222--26282 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
26212 ATATATATAT
**
26222 TATATATTTTTAAACATTTTGAAAA
1 TATATATTTTTAAACATTTAAAAAA
26247 TATATAGTTTTTAAAAACATTTAAAAAA
1 TATATA-TTTTT--AAACATTTAAAAAA
*
26275 CATATATT
1 TATATATT
26283 ATATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.20
26 5 0.17
27 2 0.07
28 17 0.57
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (25 bp):
TATATATTTTTAAACATTTAAAAAA
Found at i:26309 original size:34 final size:34
Alignment explanation
Indices: 26072--26392 Score: 140
Period size: 34 Copynumber: 9.6 Consensus size: 34
26062 CTATTAATAT
* * *
26072 ATATATT-TA-TAGTTTATAAACATTTT-TAAAC
1 ATATATTATATTATTTTAAAAACATTTTGAAAAC
* *
26103 ATATATATAATATATAGTTTTGAAAACATGTTGAAAAC
1 ATATAT-T-ATAT-TA-TTTTAAAAACATTTTGAAAAC
* *
26141 ATTTATATATTATATAGTTTTAAAAACATTTTGAAATAA
1 ATATAT-TA-TAT-TA-TTTTAAAAACATTTTGAAA-AC
* * **** *
26180 ATATAATATA-TAGTTTTTAATTTTTTTTGAAAAT
1 ATATATTATATTA-TTTTAAAAACATTTTGAAAAC
*
26214 ATATA-TATTATATATTTT-TAAACATTTTG--AA-
1 ATATATTA-TAT-TATTTTAAAAACATTTTGAAAAC
* **
26245 A-ATA-TATAGT-TTTTAAAAACATTTAAAAAAC
1 ATATATTATATTATTTTAAAAACATTTTGAAAAC
* *
26276 ATATATTATATTATTTTGAAATCATTTTGAAAAC
1 ATATATTATATTATTTTAAAAACATTTTGAAAAC
* * *
26310 TTATAATAT-TTAGTTTTAAAAACTTTTTGAAAAC
1 ATATATTATATTA-TTTTAAAAACATTTTGAAAAC
* * *
26344 ---TA-TATA--ATTTTGAAAACATTTTTAAAAA
1 ATATATTATATTATTTTAAAAACATTTTGAAAAC
*
26372 ATATATAATATATATTTTAAA
1 ATATATTATAT-TATTTTAAA
26393 TATTTTTTTA
Statistics
Matches: 220, Mismatches: 42, Indels: 52
0.70 0.13 0.17
Matches are distributed among these distances:
27 4 0.02
28 26 0.12
29 3 0.01
30 10 0.05
31 12 0.05
32 9 0.04
33 10 0.05
34 58 0.26
35 28 0.13
36 4 0.02
37 14 0.06
38 37 0.17
39 5 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (34 bp):
ATATATTATATTATTTTAAAAACATTTTGAAAAC
Found at i:26348 original size:62 final size:63
Alignment explanation
Indices: 26282--26412 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
26272 AAACATATAT
* * * * * *
26282 TATATTATTTTGAAATCA-TTTTGAAAACT-TATAATATTTAGTTTTAAAAACTTTTTGAAAAC
1 TATATAATTTTGAAAACATTTTTAAAAAATATATAATATATA-TTTTAAAAACTTTTTGAAAAA
* * *
26344 TATATAATTTTGAAAACATTTTTAAAAAATATATAATATATATTTTAAATATTTTTTTAAAAA
1 TATATAATTTTGAAAACATTTTTAAAAAATATATAATATATATTTTAAAAACTTTTTGAAAAA
26407 TATATA
1 TATATA
26413 TTATATAGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 16 0.28
63 32 0.55
64 10 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (63 bp):
TATATAATTTTGAAAACATTTTTAAAAAATATATAATATATATTTTAAAAACTTTTTGAAAAA
Found at i:26371 original size:29 final size:28
Alignment explanation
Indices: 26314--26380 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
26304 GAAAACTTAT
* * *
26314 AATATTTAGTTTTAAAAACTTTTTGAAA
1 AATATATAATTTTAAAAACTTTTTAAAA
* *
26342 ACTATATAATTTTGAAAACATTTTTAAAA
1 AATATATAATTTTAAAAAC-TTTTTAAAA
26371 AATATATAAT
1 AATATATAAT
26381 ATATATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (28 bp):
AATATATAATTTTAAAAACTTTTTAAAA
Found at i:27661 original size:12 final size:12
Alignment explanation
Indices: 27644--27693 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
27634 TTTATTCTCA
27644 TATTATTTTTAT
1 TATTATTTTTAT
*
27656 TATTATTATTAT
1 TATTATTTTTAT
*
27668 CATTATTTTTGACT
1 TATTATTTTT-A-T
27682 TA-TATTTTTAT
1 TATTATTTTTAT
27693 T
1 T
27694 TATTTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.06
12 20 0.62
13 8 0.25
14 2 0.06
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTATTTTTAT
Found at i:27747 original size:8 final size:8
Alignment explanation
Indices: 27731--27814 Score: 77
Period size: 8 Copynumber: 10.6 Consensus size: 8
27721 TTTGTTTTCA
*
27731 TTATCATT
1 TTATTATT
27739 TTATTATT
1 TTATTATT
27747 TT-TTA-T
1 TTATTATT
27753 TTATTTATT
1 TTA-TTATT
27762 TTATTATT
1 TTATTATT
*
27770 ATTTTTA-T
1 -TTATTATT
*
27778 TCATTATT
1 TTATTATT
27786 TTATTATT
1 TTATTATT
*
27794 CTATTATT
1 TTATTATT
27802 TT-TTATAT
1 TTATTAT-T
27810 TTATT
1 TTATT
27815 TATTATCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
6 3 0.05
7 11 0.18
8 37 0.60
9 11 0.18
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:27749 original size:21 final size:21
Alignment explanation
Indices: 27725--27820 Score: 83
Period size: 24 Copynumber: 4.5 Consensus size: 21
27715 CTGATTTTTG
* *
27725 TTTTCATTATCATTTTATTAT
1 TTTTTATTATTATTTTATTAT
27746 TTTTTATTTATTTATTTTATTATT
1 TTTTTA-TTA-TTATTTTATTA-T
27770 ATTTTTATTCATTATTTTATTA-
1 -TTTTTATT-ATTATTTTATTAT
*
27792 -TTCTATTATT-TTTTA-TAT
1 TTTTTATTATTATTTTATTAT
27810 TTATTTATTAT
1 TT-TTTATTAT
27821 CTAACATTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 4 0.06
20 13 0.21
21 5 0.08
22 3 0.05
23 10 0.16
24 14 0.22
25 7 0.11
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTATTATTTTATTAT
Found at i:27784 original size:24 final size:24
Alignment explanation
Indices: 27718--27793 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 24
27708 CCCCTCTCTG
27718 ATTTTTGTT-TTCATTATCATTTTATT
1 ATTTTT-TTATTCATT-T-ATTTTATT
*
27744 A-TTTTTTATTTATTTATTTTATT
1 ATTTTTTTATTCATTTATTTTATT
27767 ATTATTTTTATTCA-TTATTTTATT
1 ATT-TTTTTATTCATTTATTTTATT
27791 ATT
1 ATT
27794 CTATTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
23 9 0.20
24 17 0.38
25 18 0.40
26 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (24 bp):
ATTTTTTTATTCATTTATTTTATT
Found at i:27813 original size:29 final size:28
Alignment explanation
Indices: 27738--27820 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
27728 TCATTATCAT
27738 TTTATTATTTTTTATTTATTTATTTTATTA
1 TTTATTATTTTTTA--TATTTATTTTATTA
* *
27768 -TTATT-TTTATT-CA-TTATTTTATTA
1 TTTATTATTTTTTATATTTATTTTATTA
27792 TTCTATTATTTTTTATATTTA-TTTATTA
1 TT-TATTATTTTTTATATTTATTTTATTA
27820 T
1 T
27821 CTAACATTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
24 11 0.25
25 2 0.05
26 4 0.09
27 5 0.11
28 14 0.32
29 8 0.18
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTATTATTTTTTATATTTATTTTATTA
Found at i:29303 original size:14 final size:16
Alignment explanation
Indices: 29272--29303 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29262 TAGTAATACG
29272 CTAGTAATGTTATATT
1 CTAGTAATGTTATATT
29288 CTAGTAAT-TT-TATT
1 CTAGTAATGTTATATT
29302 CT
1 CT
29304 TAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (16 bp):
CTAGTAATGTTATATT
Done.