Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003865.1 Hibiscus syriacus cultivar Beakdansim tig00008318_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: 89786
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Found at i:6094 original size:20 final size:20
Alignment explanation
Indices: 6040--6095 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
6030 ATTTGTTCTT
* *
6040 TAAT-TTAATTCTCAAATAA
1 TAATATTAATTCTTAATTAA
* **
6059 TAATATAAATAATTAATTAA
1 TAATATTAATTCTTAATTAA
6079 TAATATTAATTCTTAAT
1 TAATATTAATTCTTAAT
6096 AAAATACTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATTAATTCTTAATTAA
Found at i:11255 original size:37 final size:36
Alignment explanation
Indices: 11214--11302 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
11204 AAACATAAAC
** *
11214 TATATGATATGAGATAAGTGATTATGT-GTATATATGA
1 TATATGATATGAGATAAGACA-TATGTGGT-TACATGA
*
11251 TATATGTTATGAGATAAGACATATGTGGTTACATGA
1 TATATGATATGAGATAAGACATATGTGGTTACATGA
* *
11287 GACATGATATGAGATA
1 TATATGATATGAGATA
11303 TATGAGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 24 0.55
37 20 0.45
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (36 bp):
TATATGATATGAGATAAGACATATGTGGTTACATGA
Found at i:13807 original size:17 final size:18
Alignment explanation
Indices: 13785--13826 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
13775 CTTTAAATTA
13785 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
13802 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
13820 TTTATTT
1 TTTATTT
13827 TTAAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:13928 original size:17 final size:18
Alignment explanation
Indices: 13887--13928 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
13877 ATTTATTTTC
*
13887 TCTTTTATTAATTATTATA
1 TCTTTTATT-ATTATTAAA
*
13906 TATTTTATT-TTATTAAA
1 TCTTTTATTATTATTAAA
13923 TCTTTT
1 TCTTTT
13929 CAACTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTTATTATTATTAAA
Found at i:14213 original size:14 final size:14
Alignment explanation
Indices: 14194--14247 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
14184 AATGAGAAGT
* *
14194 AATCCCTGCACATA
1 AATCCCTGCATAAA
14208 AATCCCTGCATAAA
1 AATCCCTGCATAAA
*
14222 AATCTCTGCATAAA
1 AATCCCTGCATAAA
*
14236 AATCTCTGCATA
1 AATCCCTGCATA
14248 TTAACAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (14 bp):
AATCCCTGCATAAA
Found at i:20283 original size:8 final size:8
Alignment explanation
Indices: 20270--20359 Score: 80
Period size: 8 Copynumber: 11.1 Consensus size: 8
20260 TTGACCGCTG
20270 ATATTTTT
1 ATATTTTT
20278 ATATTTTT
1 ATATTTTT
20286 -TAATTATTT
1 AT-ATT-TTT
20295 GGA-ATTTTT
1 --ATATTTTT
*
20304 ATATTATT
1 ATATTTTT
*
20312 CT-TTTTT
1 ATATTTTT
*
20319 CGTA-TTTT
1 -ATATTTTT
20327 ATATTTTT
1 ATATTTTT
20335 ATATTTTT
1 ATATTTTT
20343 ATATTTTT
1 ATATTTTT
20351 ATATTTTT
1 ATATTTTT
20359 A
1 A
20360 ATTATTTGGA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
7 8 0.12
8 51 0.75
9 6 0.09
10 3 0.04
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (8 bp):
ATATTTTT
Found at i:20341 original size:23 final size:24
Alignment explanation
Indices: 20270--20359 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 24
20260 TTGACCGCTG
**
20270 ATATTTTTATATTTTTTAATTATTTGG
1 ATATTTTTATA-TTTTT-A-TATTTTC
* * *
20297 A-ATTTTTATATTATTCTTTTTTC
1 ATATTTTTATATTTTTATATTTTC
* *
20320 GTA-TTTTATATTTTTATATTTTT
1 ATATTTTTATATTTTTATATTTTC
20343 ATATTTTTATATTTTTA
1 ATATTTTTATATTTTTA
20360 ATTATTTGGA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
23 22 0.44
24 14 0.28
25 4 0.08
26 9 0.18
27 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (24 bp):
ATATTTTTATATTTTTATATTTTC
Found at i:20356 original size:31 final size:31
Alignment explanation
Indices: 20270--20362 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 31
20260 TTGACCGCTG
*
20270 ATATTTTTATATTTTTTAATTATTTGGAATTTTT
1 ATATTTTTATA-TTTTTAA-TATTT-TAATTTTT
* * **
20304 ATATTATTCT-TTTTTCGTATTTTATATTTTT
1 ATATTTTTATATTTTTAATATTTTA-ATTTTT
20335 ATATTTTTATATTTTT-ATATTTTTAATT
1 ATATTTTTATATTTTTAATA-TTTTAATT
20363 ATTTGGAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
30 1 0.02
31 24 0.50
32 15 0.31
34 8 0.17
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (31 bp):
ATATTTTTATATTTTTAATATTTTAATTTTT
Found at i:21660 original size:3 final size:3
Alignment explanation
Indices: 21652--21756 Score: 120
Period size: 3 Copynumber: 34.0 Consensus size: 3
21642 TTTTACTTAA
* ** *
21652 ATT ATT ATT TTT AAA ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
21700 ACT ATA ACT ATT ATT ATT ATT ATT ATT ATT ATAT ATAT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT AT-T ATT
21748 ATT ATT ATT
1 ATT ATT ATT
21757 TAATAAATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
3 76 0.88
4 10 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21696 original size:36 final size:36
Alignment explanation
Indices: 21652--21756 Score: 135
Period size: 36 Copynumber: 3.0 Consensus size: 36
21642 TTTTACTTAA
*
21652 ATTATTATTTTTAAAATTACTATTATTATTATTATT
1 ATTATTATTTTTAATATTACTATTATTATTATTATT
* * *
21688 ATTATTATTATTACTATAACTATTATTATTATTATT
1 ATTATTATTTTTAATATTACTATTATTATTATTATT
* *
21724 ATTATTATATAT-ATATTA-TA-TATTATTATTATT
1 ATTATTATTTTTAATATTACTATTATTATTATTATT
21757 TAATAAATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
33 13 0.22
34 2 0.03
35 4 0.07
36 41 0.68
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (36 bp):
ATTATTATTTTTAATATTACTATTATTATTATTATT
Found at i:21766 original size:27 final size:27
Alignment explanation
Indices: 21681--21768 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
21671 CTATTATTAT
*
21681 TATTATTATTATTATTA-TTACTATAAC
1 TATTATTATTATTATTATTTA-TATAAA
*
21708 TATTATTATTATTATTATTATTATATATA
1 TATTATTATTATTATTA-T-TTATATAAA
21737 TATTATATATTATTATTATTTA-ATAAA
1 TATTAT-TATTATTATTATTTATATAAA
21764 TATTA
1 TATTA
21769 CAAAGCCCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
27 26 0.48
28 3 0.06
29 11 0.20
30 14 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTATTATTATTATTTATATAAA
Found at i:22817 original size:2 final size:2
Alignment explanation
Indices: 22810--22836 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22800 AATCAGTATT
22810 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 T
22837 TAGGTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23465 original size:2 final size:2
Alignment explanation
Indices: 23453--23493 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23443 ATATCTTATT
*
23453 TA TA AA TA 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 TA TA TA TA T
23494 TCTTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24020 original size:28 final size:27
Alignment explanation
Indices: 23979--24034 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
23969 AATTCTTTCC
*
23979 TTTCAAAATTTTTATATATACTTATTAT
1 TTTCAAAATATTTATATATA-TTATTAT
* *
24007 TTTCATAATATTTATATATATTTTTAT
1 TTTCAAAATATTTATATATATTATTAT
24034 T
1 T
24035 ATTTATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTCAAAATATTTATATATATTATTAT
Found at i:24027 original size:30 final size:28
Alignment explanation
Indices: 23979--24038 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
23969 AATTCTTTCC
*
23979 TTTCAAAATTTTTATATATACTTATTAT
1 TTTCAAAATTTATATATATACTTATTAT
**
24007 TTTCATAATATTTATATATATTTTTATTAT
1 TTTCA-AA-ATTTATATATATACTTATTAT
24037 TT
1 TT
24039 ATGTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 2 0.07
30 20 0.74
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTCAAAATTTATATATATACTTATTAT
Found at i:29692 original size:32 final size:32
Alignment explanation
Indices: 29656--29718 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
29646 TCTGGAAATA
* *
29656 AGAAGTATCTCTACGAGATGAGCATAACAATG
1 AGAAGTATCTCTACCAGATAAGCATAACAATG
29688 AGAAGTATCTCTACCAGATAAGCATAACAAT
1 AGAAGTATCTCTACCAGATAAGCATAACAAT
29719 CATTTCTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (32 bp):
AGAAGTATCTCTACCAGATAAGCATAACAATG
Found at i:32418 original size:523 final size:524
Alignment explanation
Indices: 31434--32482 Score: 2055
Period size: 523 Copynumber: 2.0 Consensus size: 524
31424 GTTTGGTAGT
31434 AACCCTAAAACCAATCATTAGATTTAAAAGATGAACTGCATGATCGTCTTCATTAAGAAGCTTCT
1 AACCCTAAAACCAATCATTAGATTTAAAAGATGAACTGCATGATCGTCTTCATTAAGAAGCTTCT
31499 TTTCAAGCTTCCTCTGCTTCTTCCTTTTCAAAGATCATAGCCCGAGTTTCATCTTTTCTTGTAAT
66 TTTCAAGCTTCCTCTGCTTCTTCCTTTTCAAAGATCATAGCCCGAGTTTCATCTTTTCTTGTAAT
31564 TGGGGTCATTGCATAATGACTTCCTATCTTCTACCGGAAAAAGTGCATCAGCAGCCTTAGCCATT
131 TGGGGTCATTGCATAATGACTTCCTATCTTCTACCGGAAAAAGTGCATCAGCAGCCTTAGCCATT
*
31629 TGAGCAGCACGTATAAAATCTATCAACTCTGTAATTGATGAATCCAGACCACATCTCTCCAAGTC
196 TGAGCAGCACATATAAAATCTATCAACTCTGTAATTGATGAATCCAGACCACATCTCTCCAAGTC
31694 TATTGAAGCCTCAGCCTCTGAGTACCCCATTTTCGTCAAGTATAACAGTTTATTCTCCTCATCAG
261 TATTGAAGCCTCAGCCTCTGAGTACCCCATTTTCGTCAAGTATAACAGTTTATTCTCCTCATCAG
31759 AACCAGAATTCAGGATTTCCTCGATATCAGAAAAACTATCAATATCTGTGAAATCATCCTGATAG
326 AACCAGAATTCAGGATTTCCTCGATATCAGAAAAACTATCAATATCTGTGAAATCATCCTGATAG
31824 ATCGCTTCATAATAAGAGAAAAAGTATATTCCAGAAATAGCCTTCACTGAAAACAAGGTTCACTG
391 ATCGCTTCATAATAAGAGAAAAAGTATATTCCAGAAATAGCCTTCACTGAAAACAAGGTTCACTG
31889 TGTCGGCCTGGAATGAATTACCAAGCTATTTATACCACTCTGTCTGACTAGATCCCTCCAGATCC
456 TGTCGGCCTGGAATGAATTACCAAGCTATTTATACCACTCTGTCTGACTAGATCCCTCCAGATCC
31954 A-AA
521 AGAA
31957 AACCCTAAAACCAATCATTAGATTTAAAAGATGAACTGCATGATCGTCTTCATTAAGAAGCTTCT
1 AACCCTAAAACCAATCATTAGATTTAAAAGATGAACTGCATGATCGTCTTCATTAAGAAGCTTCT
32022 TTTCAAGCTTCCTCTGCTTCTTCCTTTTCAAAGATCATAGCCCGAGTTTCATCTTTTCTTGTAAT
66 TTTCAAGCTTCCTCTGCTTCTTCCTTTTCAAAGATCATAGCCCGAGTTTCATCTTTTCTTGTAAT
32087 TGGGGTCATTGCATAATGACTTCCTATCTTCTACCGGAAAAAGTGCATCAGCAGCCTTAGCCATT
131 TGGGGTCATTGCATAATGACTTCCTATCTTCTACCGGAAAAAGTGCATCAGCAGCCTTAGCCATT
*
32152 TGAGCAGCACATATAAAATCTATCAACTCTGTAATTGATGAATCCATACCACATCTCTCCAAGTC
196 TGAGCAGCACATATAAAATCTATCAACTCTGTAATTGATGAATCCAGACCACATCTCTCCAAGTC
32217 TATTGAAGCCTCAGCCTCTGAGTACCCCATTTTCGTCAAGTATAACAGTTTATTCTCCTCATCAG
261 TATTGAAGCCTCAGCCTCTGAGTACCCCATTTTCGTCAAGTATAACAGTTTATTCTCCTCATCAG
*
32282 AACCAGAATTCAGGATTTCCTCGATATCAGAAGAACTATCAATATCTGTGAAATCATCCTGATAG
326 AACCAGAATTCAGGATTTCCTCGATATCAGAAAAACTATCAATATCTGTGAAATCATCCTGATAG
32347 ATCGCTTCATAATAAGAGAAAAAGTATATTCCAGAAATAGCCTTCACTGAAAACAAGGTTCACTG
391 ATCGCTTCATAATAAGAGAAAAAGTATATTCCAGAAATAGCCTTCACTGAAAACAAGGTTCACTG
*
32412 TGTCGGCCTGGAATGAATTACCAAGCTATTTATACCACTTTGTCTGACTAGATCCCTCCAGATCC
456 TGTCGGCCTGGAATGAATTACCAAGCTATTTATACCACTCTGTCTGACTAGATCCCTCCAGATCC
32477 AGAA
521 AGAA
32481 AA
1 AA
32483 TGGTCACTTC
Statistics
Matches: 521, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
523 517 0.99
524 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (524 bp):
AACCCTAAAACCAATCATTAGATTTAAAAGATGAACTGCATGATCGTCTTCATTAAGAAGCTTCT
TTTCAAGCTTCCTCTGCTTCTTCCTTTTCAAAGATCATAGCCCGAGTTTCATCTTTTCTTGTAAT
TGGGGTCATTGCATAATGACTTCCTATCTTCTACCGGAAAAAGTGCATCAGCAGCCTTAGCCATT
TGAGCAGCACATATAAAATCTATCAACTCTGTAATTGATGAATCCAGACCACATCTCTCCAAGTC
TATTGAAGCCTCAGCCTCTGAGTACCCCATTTTCGTCAAGTATAACAGTTTATTCTCCTCATCAG
AACCAGAATTCAGGATTTCCTCGATATCAGAAAAACTATCAATATCTGTGAAATCATCCTGATAG
ATCGCTTCATAATAAGAGAAAAAGTATATTCCAGAAATAGCCTTCACTGAAAACAAGGTTCACTG
TGTCGGCCTGGAATGAATTACCAAGCTATTTATACCACTCTGTCTGACTAGATCCCTCCAGATCC
AGAA
Found at i:33092 original size:75 final size:74
Alignment explanation
Indices: 32900--33138 Score: 240
Period size: 74 Copynumber: 3.3 Consensus size: 74
32890 GTCAACAAAA
* * * * *
32900 AGCAAATGTTGGGGCATACTGAAAGCTCATTTCAATCAG-AATCAGGAATATTGACGCATTTTGA
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATATTG-CACATTTTGA
* **
32964 ATGTTCACGTC
64 ACGTTCATATC
* * * *
32975 AACAAATGAT-GGGCATGATGAAAGCCCATTTCAATCAAAAATTGAAATATTGGCACATTTTGAA
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATT-GCACATTTTGAA
** *
33039 CGTTTGTATT
65 CGTTCATATC
*
33049 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAAT-ATGAAATTGGAATA----ACATTTTGAA
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCA-GAAATTGGAATATTGCACATTTTGAA
33109 CGTTCATATC
65 CGTTCATATC
*
33119 AGTAAATGATGGGGCATGCT
1 AGCAAATGATGGGGCATGCT
33139 AATGGCCCAC
Statistics
Matches: 135, Mismatches: 25, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
70 35 0.26
74 54 0.40
75 46 0.34
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (74 bp):
AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGCACATTTTGAAC
GTTCATATC
Found at i:33138 original size:70 final size:71
Alignment explanation
Indices: 32900--33138 Score: 198
Period size: 75 Copynumber: 3.3 Consensus size: 71
32890 GTCAACAAAA
* * * * * *
32900 AGCAAATGTTGGGGCATACTGAAAGCTCATTTCAATC-AGAATCAGGAATATTGACGCATTTTGA
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAAT--TGAA-ATAGA--CATTTTGA
* **
32964 ATGTTCACGTC
61 ACGTTCATATC
* *
32975 AACAAATGAT-GGGCATGATGAAAGCCCATTTCAATCAAAAATTGAAATATTGGCACATTTTGAA
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAATTGAAATA---G-ACATTTTGAA
** *
33039 CGTTTGTATT
62 CGTTCATATC
* * *
33049 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAAT-ATGAAATTGGAATA-ACATTTTGAACGT
1 AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCA-AAAATTGAAATAGACATTTTGAACGT
33112 TCATATC
65 TCATATC
*
33119 AGTAAATGATGGGGCATGCT
1 AGCAAATGATGGGGCATGCT
33139 AATGGCCCAC
Statistics
Matches: 133, Mismatches: 24, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
70 35 0.26
72 2 0.02
73 3 0.02
74 45 0.34
75 47 0.35
76 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (71 bp):
AGCAAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAATTGAAATAGACATTTTGAACGTT
CATATC
Found at i:34398 original size:73 final size:73
Alignment explanation
Indices: 34279--34891 Score: 931
Period size: 73 Copynumber: 8.4 Consensus size: 73
34269 TTATTTCCCA
* * *
34279 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCCTTCGGGAGGTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
34344 CTCAGGGT
66 CTCAGGGT
*
34352 CATCTGTAAGACCTACAGTGCCGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
34417 CTCAGGGT
66 CTCAGGGT
* * *
34425 CATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGATTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-TTTAAAG
*
34490 CCTCGGGGT
65 CCTCAGGGT
* *
34499 CATCTGTAAGACCTACAGTGCCGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
34564 CTCAGGGT
66 CTCAGGGT
* * *
34572 CATCTGTAAGACCTACAGGGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
*
34637 CTCGGGGT
66 CTCAGGGT
* * *
34645 CATCTGTAAGACCTACAGTGCCGGAAT-TTTTCAAAAAGCCTTTGGGAACTTTTTGATTTTAAAG
1 CATCTGTAAGACCTACAGTGCAGG-ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAG
*
34709 CCTCAGTGT
65 CCTCAGGGT
* * *
34718 CATCTGTAAGACTTACAGTGAATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
34783 CTCAGGGT
66 CTCAGGGT
* * *
34791 CATCTGTAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCGGGAGATTTTTTATATTTAAAG
1 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-TTTAAAG
**
34856 CCTTTGGGT
65 CCTCAGGGT
* * *
34865 CATCTGTAATACTTACAGTGCAAGATG
1 CATCTGTAAGACCTACAGTGCAGGATG
34892 ATAAGACCTC
Statistics
Matches: 489, Mismatches: 47, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
72 2 0.00
73 381 0.78
74 106 0.22
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (73 bp):
CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
CTCAGGGT
Found at i:34678 original size:220 final size:219
Alignment explanation
Indices: 34279--34891 Score: 951
Period size: 220 Copynumber: 2.8 Consensus size: 219
34269 TTATTTCCCA
* *
34279 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCCTTCGGGAGGTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
* *
34344 CTCAGGGTCATCTGTAAGACCTACAGTGCCGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT
66 CTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTAT
* *
34409 TTTAAAGCCTCAGGGTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGA
131 TTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA-A
*
34474 -TTTTTGATATTTAAAGCCTCGGGGT
195 CTTTTTGAT-TTTAAAGCCTCAGGGT
** *
34499 CATCTGTAAGACCTACAGTGCCGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
* *
34564 CTCAGGGTCATCTGTAAGACCTACAGGGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTAT
66 CTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTAT
* * *
34629 TTTAAAGCCTCGGGGTCATCTGTAAGACCTACAGTGCCGGAAT-TTTTCAAAAAGCCTTTGGGAA
131 TTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAGG-ATGTTTTCAAAAAGCCTTCGGGAA
*
34693 CTTTTTGATTTTAAAGCCTCAGTGT
195 CTTTTTGATTTTAAAGCCTCAGGGT
* *
34718 CATCTGTAAGACTTACAGTGAATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
* *
34783 CTCAGGGTCATCTGTAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCGGGAGATTTTTTAT
66 CTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTAT
** * * *
34848 ATTTAAAGCCTTTGGGTCATCTGTAATACTTACAGTGCAAGATG
131 -TTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAGGATG
34892 ATAAGACCTC
Statistics
Matches: 358, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
219 138 0.39
220 218 0.61
221 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (219 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGC
CTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTAT
TTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAAC
TTTTTGATTTTAAAGCCTCAGGGT
Found at i:35114 original size:22 final size:22
Alignment explanation
Indices: 35084--35129 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
35074 TATTTTTAAA
* * *
35084 ATTACTATTGTTATTATTAATT
1 ATTACTATTATTACTATAAATT
*
35106 ATTATTATTATTACTATAAATT
1 ATTACTATTATTACTATAAATT
35128 AT
1 AT
35130 ATATATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTACTATTATTACTATAAATT
Found at i:35134 original size:2 final size:2
Alignment explanation
Indices: 35127--35159 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35117 TACTATAAAT
35127 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
35160 TTATTTAATA
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:36776 original size:21 final size:22
Alignment explanation
Indices: 36752--36817 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
36742 TTTTTTGATA
36752 TTTTTTAAATAAATATTTTA-C
1 TTTTTTAAATAAATATTTTATC
* * *
36773 TTTTATAAATTATATATATTAATC
1 TTTTTTAAA-TAAATAT-TTTATC
36797 TATTTTT-AATAAATATTTTAT
1 T-TTTTTAAATAAATATTTTAT
36818 TATTATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 8 0.23
22 10 0.29
23 9 0.26
24 4 0.11
25 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTTTAAATAAATATTTTATC
Found at i:36821 original size:21 final size:21
Alignment explanation
Indices: 36753--36826 Score: 51
Period size: 22 Copynumber: 3.3 Consensus size: 21
36743 TTTTTGATAT
36753 TTTTTAAATAAATATTTTACTT-
1 TTTTT-AATAAATATTTTA-TTA
* * * *
36775 TTATAAATTATATATATTAATCTA
1 TTTTTAA-TAAATAT-TTTAT-TA
36799 TTTTTAATAAATATTTTATTA
1 TTTTTAATAAATATTTTATTA
36820 TTATTTA
1 TT-TTTA
36827 TTTATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 6 0.15
22 18 0.46
23 10 0.26
24 5 0.13
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTAATAAATATTTTATTA
Found at i:38431 original size:21 final size:22
Alignment explanation
Indices: 38390--38434 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
38380 ATATGCTGTA
38390 TAAATTTATAAAATATTAAATT
1 TAAATTTATAAAATATTAAATT
38412 TAAATTT-TAAAA-ATTAAAATT
1 TAAATTTATAAAATATT-AAATT
38433 TA
1 TA
38435 TATTCGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.55
22 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATTTATAAAATATTAAATT
Found at i:38938 original size:37 final size:37
Alignment explanation
Indices: 38888--38960 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
38878 TCAAACATAC
*
38888 ATTTCAATTTACAAGACACTACATTTGTGGTCTATAT
1 ATTTCAATTTACAAAACACTACATTTGTGGTCTATAT
38925 ATTTCAATTTACAAAACACTACATTTGTGGTCTATA
1 ATTTCAATTTACAAAACACTACATTTGTGGTCTATA
38961 CAAGGTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (37 bp):
ATTTCAATTTACAAAACACTACATTTGTGGTCTATAT
Found at i:39462 original size:12 final size:12
Alignment explanation
Indices: 39441--39486 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
39431 GAATAAGTTG
39441 ATAAAAGAGCAT
1 ATAAAAGAGCAT
*
39453 ATAAACGAGC-T
1 ATAAAAGAGCAT
39464 CATAAAAGAGCAT
1 -ATAAAAGAGCAT
*
39477 ATAAACGAGC
1 ATAAAAGAGC
39487 TTGTTCGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.15
Consensus pattern (12 bp):
ATAAAAGAGCAT
Found at i:39468 original size:24 final size:24
Alignment explanation
Indices: 39441--39487 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
39431 GAATAAGTTG
39441 ATAAAAGAGCATATAAACGAGCTC
1 ATAAAAGAGCATATAAACGAGCTC
39465 ATAAAAGAGCATATAAACGAGCT
1 ATAAAAGAGCATATAAACGAGCT
39488 TGTTCGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (24 bp):
ATAAAAGAGCATATAAACGAGCTC
Found at i:46844 original size:28 final size:28
Alignment explanation
Indices: 46790--46844 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
46780 AACATGTATT
*
46790 AAATAAAAAAGGAAACGCAATAGAATAA
1 AAATAAAAAAGGAAACGAAATAGAATAA
* *
46818 AAATAAATAAAGTAAATGAAATA-AATA
1 AAATAAA-AAAGGAAACGAAATAGAATA
46845 TAAAGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (28 bp):
AAATAAAAAAGGAAACGAAATAGAATAA
Found at i:46945 original size:2 final size:2
Alignment explanation
Indices: 46938--47013 Score: 52
Period size: 2 Copynumber: 40.0 Consensus size: 2
46928 GATGGTTATG
* * *
46938 TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA -A TA -A AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
46978 -A AA TA AA AA TG TA CA TA -A 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
47014 AGGGAATAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
1 4 0.07
2 54 0.93
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (2 bp):
TA
Found at i:47041 original size:17 final size:18
Alignment explanation
Indices: 47021--47054 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47011 ATAAGGGAAT
47021 AAAATATAATA-ATAATG
1 AAAATATAATATATAATG
47038 AAAATATAATATATAAT
1 AAAATATAATATATAAT
47055 AATAGTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATATAATATATAATG
Found at i:48810 original size:105 final size:105
Alignment explanation
Indices: 48612--49374 Score: 1131
Period size: 105 Copynumber: 7.4 Consensus size: 105
48602 GTATTGTTCC
* *** * * * ** *
48612 GAGTCCAATATCCTCCACCGTGGAGTTGAAATTGGTTCTGGAACAGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
* * *
48677 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
48718 GAGTCCAATATCCTTCGTTGTGGAGTTGAAATTGGCTCTAAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
48783 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
48823 GAGTCCAATATCCTTCTTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGCTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
48888 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
48928 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
48993 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
49033 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
49098 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
49139 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAA-T------TGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
49197 CAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
49237 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT---A---A-AATTGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
49295 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
49335 GAGTCCAATATCATTCATTATGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
49375 GGTAAAACCT
Statistics
Matches: 616, Mismatches: 35, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
95 1 0.00
98 178 0.29
105 301 0.49
106 136 0.22
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:49236 original size:98 final size:98
Alignment explanation
Indices: 48765--49374 Score: 907
Period size: 98 Copynumber: 6.0 Consensus size: 98
48755 CTAAAATTGA
*
48765 GAAA-TGTTTGTTGACAACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
48829 AATATCCTTCTTTGTGAAGTTGAAATTGGCTCT
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
48862 GAAATTGAGAGATGCTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATT----G-T--TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
48927 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
*
48967 GAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
1 GAAA-T------TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
49032 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
59 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC------T
49078 GAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GA-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
49143 CCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCT
64 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
* *
49178 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
49243 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
* * *
49276 AAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
49341 AATATCATTCATTATGAAGTTGAAATTGGCTCT
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
49374 G
1 G
49375 GGTAAAACCT
Statistics
Matches: 475, Mismatches: 16, Indels: 43
0.89 0.03 0.08
Matches are distributed among these distances:
97 4 0.01
98 184 0.39
99 2 0.00
100 3 0.01
102 1 0.00
103 1 0.00
105 180 0.38
106 91 0.19
107 1 0.00
108 1 0.00
111 3 0.01
112 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (98 bp):
GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
Found at i:56952 original size:22 final size:21
Alignment explanation
Indices: 56930--56972 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
56920 ACGAATGTAA
56930 AAACATGGAAAATATAAAATAAAC
1 AAACAT-G-AAATATAAAAT-AAC
56954 AAACATGAAATATAAAATA
1 AAACATGAAATATAAAATA
56973 CAAGAAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 11 0.58
23 1 0.05
24 6 0.32
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (21 bp):
AAACATGAAATATAAAATAAC
Found at i:60435 original size:28 final size:28
Alignment explanation
Indices: 60381--60435 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
60371 AACATGTATT
*
60381 AAATAAAAAAGGAAACGCAATAGAATAA
1 AAATAAAAAAGGAAACGAAATAGAATAA
* *
60409 AAATAAATAAAGTAAATGAAATA-AATA
1 AAATAAA-AAAGGAAACGAAATAGAATA
60436 TAAAGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (28 bp):
AAATAAAAAAGGAAACGAAATAGAATAA
Found at i:60572 original size:21 final size:22
Alignment explanation
Indices: 60542--60584 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
60532 ATATATATAT
*
60542 AAATATAAATATA-ATAAAATA
1 AAATAAAAATATACATAAAATA
*
60563 AAATAAAAATGTACATAAAATA
1 AAATAAAAATATACATAAAATA
60585 TATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAAAAATATACATAAAATA
Found at i:60622 original size:17 final size:18
Alignment explanation
Indices: 60602--60635 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
60592 ATAAGGGAAT
60602 AAAATATAATA-ATAATG
1 AAAATATAATATATAATG
60619 AAAATATAATATATAAT
1 AAAATATAATATATAAT
60636 AATAGTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATATAATATATAATG
Found at i:64998 original size:60 final size:60
Alignment explanation
Indices: 64929--65041 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 60
64919 TATAGGGCAC
* * * * *
64929 TGCTTTATTAAGGCTTTCGACTATTAAAAGTTATAAAATAGTTATCCGACTATAAAATGT
1 TGCTCTATTAAGGCTCTCGACTATTAAAAGTTACAAAATAGTTACCCAACTATAAAATGT
* *
64989 TGCTCTATTAAGTCTCTCGACTATTAAAAGTTACAAAATGGTTACCCAACTAT
1 TGCTCTATTAAGGCTCTCGACTATTAAAAGTTACAAAATAGTTACCCAACTAT
65042 TAATTATGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (60 bp):
TGCTCTATTAAGGCTCTCGACTATTAAAAGTTACAAAATAGTTACCCAACTATAAAATGT
Found at i:68997 original size:24 final size:24
Alignment explanation
Indices: 68952--68999 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
68942 GACCGCTATG
*
68952 GCAATAACTAATCGGAGGCAGATA
1 GCAATAACTAATCGGAAGCAGATA
* * *
68976 GCAATACCTGATCGGAATCAGATA
1 GCAATAACTAATCGGAAGCAGATA
69000 CAACTGCATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
GCAATAACTAATCGGAAGCAGATA
Found at i:69364 original size:23 final size:23
Alignment explanation
Indices: 69289--69364 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
69279 GTATACAAAT
***
69289 ATATTCATTTAACATTAACAAGA-
1 ATATTCATTTAACATTCGTAA-AC
* *
69312 ATATTCATTTAACATTCGTCAAT
1 ATATTCATTTAACATTCGTAAAC
* * *
69335 ATGTTCATTTAACGTTTGTAAAC
1 ATATTCATTTAACATTCGTAAAC
69358 ATATTCA
1 ATATTCA
69365 AGTTCAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
22 1 0.02
23 41 0.98
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
ATATTCATTTAACATTCGTAAAC
Found at i:76224 original size:3 final size:3
Alignment explanation
Indices: 76216--76373 Score: 307
Period size: 3 Copynumber: 52.7 Consensus size: 3
76206 TTAATATATT
76216 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
76264 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
76312 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
76360 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
76374 TGGATAAAAA
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
3 153 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:76936 original size:113 final size:113
Alignment explanation
Indices: 76692--77564 Score: 1633
Period size: 113 Copynumber: 7.7 Consensus size: 113
76682 GAATTATGCC
* * *
76692 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
76756 TATGAACTTT-TCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
*
76803 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
76868 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
76916 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
76981 TATGAACTTTCTCTGAAAAAGATGATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
77029 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
77094 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
77142 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
77207 TATGAACTTTCTCTGAAAAAGATGATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
77255 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
77320 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
77368 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
77433 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
77481 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
77546 TATGAACTTTCTCTGGAAA
66 TATGAACTTTCTCTGGAAA
77565 TGTTAATCTT
Statistics
Matches: 743, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
111 4 0.01
112 66 0.09
113 673 0.91
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAATTGATGGATTCAGGT
Found at i:78354 original size:82 final size:83
Alignment explanation
Indices: 78144--78860 Score: 1073
Period size: 82 Copynumber: 8.7 Consensus size: 83
78134 ACTTCCTCAA
* * * *
78144 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
78209 TTGGTTCTGTTAAACCAG
66 TTGGTTCTGTTAAACCAG
* * *
78227 GTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCTAAATTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
*
78292 TT-GTTCTGCTAAACCAG
66 TTGGTTCTGTTAAACCAG
*
78309 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
78374 TTGGTTCTGTTAAACCAG
66 TTGGTTCTGTTAAACCAG
* * * *
78392 GTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
**
78457 TT-GTTCTGTCCAACCAG
66 TTGGTTCTGTTAAACCAG
* * * *
78474 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
78539 TTGGTTCTGTTAAACCAG
66 TTGGTTCTGTTAAACCAG
* * * *
78557 GTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
**
78622 TT-GTTCTGTCCAACCAG
66 TTGGTTCTGTTAAACCAG
*
78639 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
** *
78704 TT-GTTCTGTCCAACTAG
66 TTGGTTCTGTTAAACCAG
* * * *
78721 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
78786 TTGGTTCTGTTAAACCAG
66 TTGGTTCTGTTAAACCAG
* *
78804 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCTATTTTCTA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTC-ATCTTCTA
78861 GTTAATGTTT
Statistics
Matches: 575, Mismatches: 54, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
82 302 0.53
83 260 0.45
84 7 0.01
85 6 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (83 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
TTGGTTCTGTTAAACCAG
Found at i:78421 original size:165 final size:165
Alignment explanation
Indices: 78144--78860 Score: 1123
Period size: 165 Copynumber: 4.3 Consensus size: 165
78134 ACTTCCTCAA
* * *
78144 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
**
78209 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTC
66 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
*
78274 ATCTTCTAAATTCAATGATTGTTCTG-CTAAACCAG
131 ATCTTCTAAACTCAATGATTGTTCTGTC-AAACCAG
78309 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
*
78374 TTGGTTCTGTTAAACCAGGTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTC
66 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
* *
78439 ATCTTTTAAACTCAATGATTGTTCTGTCCAACCAG
131 ATCTTCTAAACTCAATGATTGTTCTGTCAAACCAG
* * *
78474 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
*
78539 TTGGTTCTGTTAAACCAGGTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTC
66 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
* *
78604 ATCTTTTAAACTCAATGATTGTTCTGTCCAACCAG
131 ATCTTCTAAACTCAATGATTGTTCTGTCAAACCAG
* *
78639 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
** * * * *
78704 TT-GTTCTGTCCAACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTC
66 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
* * * *
78768 ATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAG
131 ATCTTCTAAACTCAATGATT-GTTCTGTCAAACCAG
* *
78804 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCTATTTTCTA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTC-ATCTTCTA
78861 GTTAATGTTT
Statistics
Matches: 515, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
164 71 0.14
165 430 0.83
166 7 0.01
167 7 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (165 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGC
TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTC
ATCTTCTAAACTCAATGATTGTTCTGTCAAACCAG
Found at i:78648 original size:247 final size:248
Alignment explanation
Indices: 78144--78843 Score: 1161
Period size: 247 Copynumber: 2.8 Consensus size: 248
78134 ACTTCCTCAA
* * * * *
78144 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
** * * *
78209 TTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTC
66 TT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTC
* * *
78274 ATCTTCTAAATTCAATGATT-GTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
130 ATCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
* * *
78338 GATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTTGGTTCTGTTAAACCAG
195 GATGCTATTGACAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCAAACCAG
* * *
78392 GTCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
78457 TTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCA
66 TTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCA
* *
78522 TCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGGTCAGATAACTCCAAGAACACTTCCAGAAG
131 TCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
78587 ATGCTATTGACAAATTCATCTTTTAAACTCAATGATT-GTTCTGTCCAACCAG
196 ATGCTATTGACAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCAAACCAG
78639 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
*
78704 TTGTTCTGTCCAACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCA
66 TTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCA
78769 TCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
131 TCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
78834 ATGCTATTGA
196 ATGCTATTGA
78844 GCACATTCTA
Statistics
Matches: 422, Mismatches: 29, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
247 287 0.68
248 135 0.32
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (248 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
TTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTTTTGGCAAATTCA
TCTTCCAAATTCAATGCTTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
ATGCTATTGACAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCAAACCAG
Found at i:79644 original size:16 final size:17
Alignment explanation
Indices: 79606--79650 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
79596 AATATAAAAG
*
79606 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
79624 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
79640 AATAAATTGAA
1 AATAAATTGAA
79651 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:80017 original size:21 final size:21
Alignment explanation
Indices: 79991--80031 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
79981 TTCTTTTTCC
*
79991 TTTTTTTT-TTATTTTCTATT
1 TTTTTTTTCTTTTTTTCTATT
80011 TTTTTTTTCTTTTTTTCTATT
1 TTTTTTTTCTTTTTTTCTATT
80032 CTCTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTCTATT
Found at i:80026 original size:13 final size:14
Alignment explanation
Indices: 79993--80036 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
79983 CTTTTTCCTT
79993 TTTTTTTTATTTTC
1 TTTTTTTTATTTTC
*
80007 TATTTTTT-TTTTC
1 TTTTTTTTATTTTC
*
80020 TTTTTTTCTATTCTC
1 TTTTTTT-TATTTTC
80035 TT
1 TT
80037 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 8 0.32
15 6 0.24
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTTTATTTTC
Done.