Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000055.1 Hibiscus syriacus cultivar Beakdansim tig00000082_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: 81418
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Found at i:359 original size:2 final size:2
Alignment explanation
Indices: 352--414 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
342 AGCTTTATTG
352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A 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
392 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
415 ATCTCCTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 55 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3378 original size:8 final size:8
Alignment explanation
Indices: 3361--3395 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
3351 TTATATATTC
3361 TTTC-TTT
1 TTTCTTTT
3368 TTTCTTTT
1 TTTCTTTT
3376 TTTCTTTT
1 TTTCTTTT
*
3384 TTCCTTTT
1 TTTCTTTT
3392 TTTC
1 TTTC
3396 ATTTCTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTCTTTT
Found at i:3379 original size:15 final size:16
Alignment explanation
Indices: 3361--3395 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
3351 TTATATATTC
3361 TTTCTTTTTT-CTTTT
1 TTTCTTTTTTCCTTTT
3376 TTTCTTTTTTCCTTTT
1 TTTCTTTTTTCCTTTT
3392 TTTC
1 TTTC
3396 ATTTCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTCCTTTT
Found at i:9103 original size:25 final size:25
Alignment explanation
Indices: 9075--9132 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
9065 CACATGCTGG
*
9075 CTACCCAATCATACTTTAGTATATC
1 CTACCCAATCATACTTTAGTAGATC
*
9100 CTACCCAATCATGCTTTAGTAGATC
1 CTACCCAATCATACTTTAGTAGATC
*
9125 ATACCCAA
1 CTACCCAA
9133 CATGGTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (25 bp):
CTACCCAATCATACTTTAGTAGATC
Found at i:16446 original size:15 final size:14
Alignment explanation
Indices: 16426--16456 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16416 ATTACAAATT
*
16426 AAAAAAATTAAGAC
1 AAAAAAATTAAAAC
16440 AAAAAAATTAAAAC
1 AAAAAAATTAAAAC
16454 AAA
1 AAA
16457 CAAGAGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAAATTAAAAC
Found at i:17471 original size:2 final size:2
Alignment explanation
Indices: 17460--17525 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
17450 ATACATTGCT
17460 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17501 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 T
17526 TACGTTTTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18241 original size:3 final size:3
Alignment explanation
Indices: 18229--18278 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
18219 TTCTTTTTTG
*
18229 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18275 ATA A
1 ATA A
18279 CCTGGATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18517 original size:56 final size:55
Alignment explanation
Indices: 18433--18538 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 55
18423 TCGGATCTTT
* * *
18433 TTTGGAAGACGGTTCTGCTCCACTCTTCTTTCAGTGGAGATCAGACTTGATTTGTC
1 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAG-GGAGATAAGACTTGATTTGTC
18489 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGAT
1 TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGAT
18539 ATGTTCATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 15 0.32
56 32 0.68
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (55 bp):
TTTGGAAAACGATTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTTGATTTGTC
Found at i:18704 original size:55 final size:54
Alignment explanation
Indices: 18587--19421 Score: 583
Period size: 55 Copynumber: 15.3 Consensus size: 54
18577 GATGAGTCTT
* * * * *
18587 CTCCACTCTTGTTTTAGGGAGATAAGACTTGAG-AATCTTTGGAAAATGGGTCTG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGT-TG
*
18641 CTCCACTATTTTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTCTG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGT-TG
* * * *
18696 CTCTACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAGACT-GATCTG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAA-AATGGGT-TG
* * ** *
18751 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACAAGTTTG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAA-TGGGTTG
* * ** * *
18806 CTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTA-AAAATGGATTCA
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTT-TAGAAAATGGGTT-G
* ** * * * *
18861 CTCC-CTATTCTTTCAGGGAGATACGACTTAAGAAATCTTTTGATAACGGGTCG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTTG
* * * * *
18914 CTCCACTCTTCTTTCAGTGAGACAAGACTCGAGAAATCATTT-GAAGATGGGTCTT
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATC-TTTAGAAAATGGGT-TG
* * * *
18969 CTCCACTCTTCTTTTAGGGAGATAAGGCTCGAGAAATCTGTTA-AAGATGGGTCTG
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCT-TTAGAAAATGGGT-TG
* * * *
19024 CTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAAAACT-GGTTT
1 CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAG-AAAA-TGGGTTG
* * *
19079 CTCCACTATTCTCTT-AGGAAGATAAGACTTGAGAAATCTTGT-GAAAACGGGTTCG
1 CTCCACTATTCT-TTCAGGGAGATAAGACTCGAGAAATCTT-TAGAAAATGGGTT-G
* * *
19134 CACC-CTATTCTTTCAGAGAG-TATAGAACTCGA-ACAATC-TTATGAAAATAGGTTCG
1 CTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTA-GAAAATGGGTT-G
19189 CTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCTTCT-GAAAATGGGTTCG
1 CTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTT-TAGAAAATGGGTT-G
* * * *
19244 CT-CTCTATTCTTTCGGGGAGTATAAAACTC-AAACAATC-TTATGAAAATGGGTTCG
1 CTCCACTATTCTTTCAGGGAG-ATAAGACTCGAGA-AATCTTTA-GAAAATGGGTT-G
* * * * *
19299 CT-CTCTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCATCT-CAAAACGGGTCCG
1 CTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATC-TTTAGAAAATGGGT-TG
* * * *
19354 CTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATATTTTGAAAACGGGTCTT
1 CTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTAGAAAATGGGT-TG
19409 CTCC-CTATTCTTT
1 CTCCACTATTCTTT
19422 TAGGAAGTAC
Statistics
Matches: 654, Mismatches: 86, Indels: 81
0.80 0.10 0.10
Matches are distributed among these distances:
53 13 0.02
54 133 0.20
55 485 0.74
56 18 0.03
57 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
CTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGGTTG
Found at i:18797 original size:110 final size:109
Alignment explanation
Indices: 18582--19495 Score: 694
Period size: 110 Copynumber: 8.3 Consensus size: 109
18572 TGGAAGATGA
* * * * * *
18582 GTCTTCTCCACTCTTGTTTTAGGGAGATAAGACTTGAG-AATCTTTGGAAAATGGGTCTGCTCCA
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGT-TGCTCCA
* * *
18646 CTATTTTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * *
18691 GTCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAGACT-GATCTGCTCC
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAA-AATGGGT-TGCTCC
* **
18755 ACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACAA
64 ACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * ** * * * *
18801 GTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTAAAAATGGATTCACTCC-
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGTT-GCTCCA
* ** *
18865 CTATTCTTTCAGGGAGATACGACTTAAGAAATCTTTTGATAACGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * * * *
18910 GTC-GCTCCACTCTTCTTTCAGTGAGACAAGACTCGAGAAATCATTTGAAGATGGGTCTTCTCCA
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGT-TGCTCCA
* * * * *
18974 CTCTTCTTTTAGGGAGATAAGGCTCGAGAAATCTGTT-AAAGATGG
65 CTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAA-ACGG
* * *
19019 GTCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAAAACT-GGTTTCTCC
1 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTG-AAAA-TGGGTTGCTCC
* * *
19083 ACTATTCTCTT-AGGAAGATAAGACTTGAGAAATCTTGTGAAAACGG
64 ACTATTCT-TTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
* * * *
19129 GT-TCGCACC-CTATTCTTTCAGAGAG-TATAGAACTCGA-ACAATCTTATGAAAATAGGTTCGC
1 GTCT-GCTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAATGGGTT-GC
* *
19190 TCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCTTCTGAAAATGG
61 TCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAACGG
* * * * *
19239 GT-TCGCT-CTCTATTCTTTCGGGGAGTATAAAACTC-AAACAATCTTATGAAAATGGGTTCGCT
1 GTCT-GCTCCACTATTCTTTCAGGGAG-ATAAGACTCGAGA-AATCTTTTGAAAATGGGTT-GCT
* * * *
19301 -CTCTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATCATCTCAAAACGG
62 CCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAACGG
* * * *
19349 GTCCGCTCC-CTATTCTTTCAGGGAG-TATAGAACTCGA-ACAATATTTTGAAAACGGGTCTTCT
1 GTCTGCTCCACTATTCTTTCAGGGAGATA-AG-ACTCGAGA-AATCTTTTGAAAATGGGT-TGCT
* * * * **
19411 CC-CTATTCTTTTAGGAAG-TACAGAGCTCGA-ACAATCTTCTAAAAACAT
62 CCACTATTCTTTCAGGGAGATA-AGA-CTCGAGA-AATCTTTTGAAAACGG
** *
19459 GTCCACTCC-CTATTCTTTCAGGGAGTATAGGACTCGA
1 GTCTGCTCCACTATTCTTTCAGGGAG-ATAAGACTCGA
19496 TCTTGATTTG
Statistics
Matches: 674, Mismatches: 94, Indels: 73
0.80 0.11 0.09
Matches are distributed among these distances:
108 60 0.09
109 159 0.24
110 431 0.64
111 19 0.03
112 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (109 bp):
GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAATGGGTTGCTCCAC
TATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAAACGG
Found at i:19104 original size:273 final size:273
Alignment explanation
Indices: 18602--19273 Score: 726
Period size: 273 Copynumber: 2.5 Consensus size: 273
18592 CTCTTGTTTT
* * * *
18602 AGGGAGATAAGACTTGAGAATCTTTGGAAAATGGGTCTGCTCCACTATTTTTTCAGGGAGATAAG
1 AGGGAGATAAGACTTAAGAATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAAG
*
18667 ACTCGAGAAATCTTTAGAAAATGGGTCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAAA
66 ACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAA
* * *
18732 TCTTTTGAAGACTGATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTTGAAA
131 TCTGTTAAAGACTGATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAA
* ** *
18797 ACAAGTTTGCTCCACTCTTCTTTCAGTGAGATAAGACTCGAGATGTCTTCTAAAAATGGATTCAC
196 ACAAGTTTGCTCCACTATTCTTTCAGTGAGATAAGACTCGAGAAATCTTCTAAAAACGGATTCAC
*
18862 TCCCTATTCTTTC
261 ACCCTATTCTTTC
* * * * *
18875 AGGGAGATACGACTTAAGAAATCTTTTGATAACGGGTC-GCTCCACTCTTCTTTCAGTGAGACAA
1 AGGGAGATAAGACTTAAG-AATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAA
* * * * *
18939 GACTCGAGAAATCATTT-GAAGATGGGTCTTCTCCACTCTTCTTTTAGGGAGATAAGGCTCGAGA
65 GACTCGAGAAATC-TTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGA
*
19003 AATCTGTTAAAGA-TGGGTCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTG
129 AATCTGTTAAAGACT-GATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTG
** * * *
19067 AAAAACTGGTTT-CTCCACTATTCTCTT-AG-GAAGATAAGACTTGAGAAATCTTGTGAAAACGG
193 -AAAACAAGTTTGCTCCACTATTCT-TTCAGTG-AGATAAGACTCGAGAAATCTTCTAAAAACGG
* *
19129 GTTCGCACCCTATTCTTTC
255 ATTCACACCCTATTCTTTC
* * * **
19148 AGAGAG-TATAGAACTCGAACAATCTTAT-GAAAATAGGT-TCGCTCC-CTATTCTTTCAGGGAG
1 AGGGAGATA-AG-ACT-TAAGAATCTT-TGGAAAACGGGTCT-GCTCCACTATTCTTTCAGGGAG
* * *
19209 TA-TAGAACTCGA-ACAATCTTCT-GAAAATGGGT-TCGCT-CTCTATTCTTTCGGGGAGTATAA
61 -ACAAG-ACTCGAGA-AATCTT-TAGAAAATGGGTCT-GCTCCACTATTCTTTCAGGGAG-ATAA
*
19269 AACTC
120 GACTC
19274 AAACAATCTT
Statistics
Matches: 332, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
272 4 0.01
273 210 0.63
274 80 0.24
275 38 0.11
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (273 bp):
AGGGAGATAAGACTTAAGAATCTTTGGAAAACGGGTCTGCTCCACTATTCTTTCAGGGAGACAAG
ACTCGAGAAATCTTTAGAAAATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAA
TCTGTTAAAGACTGATCTGCTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTTGAAA
ACAAGTTTGCTCCACTATTCTTTCAGTGAGATAAGACTCGAGAAATCTTCTAAAAACGGATTCAC
ACCCTATTCTTTC
Found at i:19440 original size:55 final size:55
Alignment explanation
Indices: 19113--19495 Score: 471
Period size: 55 Copynumber: 7.0 Consensus size: 55
19103 AGACTTGAGA
* * *
19113 AATCTTGTGAAAACGGGTTCGCACCCTATTCTTTCAGAGAGTATAGAACTCGAAC
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
**
19168 AATCTTATGAAAATAGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * * * *
19223 AATCTTCTGAAAATGGGTTCGCTCTCTATTCTTTCGGGGAGTATAAAACTCAAAC
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* *
19278 AATCTTATGAAAATGGGTTCGCTCTCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * *
19333 AATCATCTCAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * * * * * *
19388 AATATTTTGAAAACGGG-TCTTCTCCCTATTCTTTTAGGAAGTACAGAGCTCGAAC
1 AATCTTATGAAAACGGGTTC-GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
* * ** * * *
19443 AATCTTCTAAAAACATGTCCACTCCCTATTCTTTCAGGGAGTATAGGACTCGA
1 AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGA
19496 TCTTGATTTG
Statistics
Matches: 283, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
54 1 0.00
55 281 0.99
56 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (55 bp):
AATCTTATGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC
Found at i:19546 original size:36 final size:36
Alignment explanation
Indices: 19499--19944 Score: 608
Period size: 36 Copynumber: 12.3 Consensus size: 36
19489 GACTCGATCT
*
19499 TGATTTGCTTCACTACTCTTCTATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * *
19535 TGATTTACTTCACTACACTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
*
19571 TTGATTTGCTTCACTACTCTTTCATGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
19608 TGATTTGTTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
19644 TTGATTTGCTTCACTACTCTTCCGTGGAGGAC-TAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGG-CTTAAGA
* * * *
19681 TTGATTTGTTTCACTACTATTCCGTGAAGGATTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* *
19718 TTGATTTGCTTCACTACTCTTACGTGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
*
19755 TGATTTGCTTCACTACTCTTCCATGTAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* **
19791 TGATTTGCTTCAATACTCTTCTTTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * *
19827 TGATTTCCTTCACTACTCTTTCATAAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
* * *
19863 TAATTTCCTTCACTACTCTTCCATGAAGTCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
19899 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
19935 TGATTT-CTTC
1 TGATTTGCTTC
19945 GAATGTTAAA
Statistics
Matches: 365, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
35 4 0.01
36 231 0.63
37 129 0.35
38 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCATGAAGGCTTAAGA
Found at i:21678 original size:29 final size:29
Alignment explanation
Indices: 21635--21759 Score: 223
Period size: 29 Copynumber: 4.3 Consensus size: 29
21625 CAAATATTTC
21635 CAAAATATCTGTAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
21664 CAAAATATCTATAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
21693 CAAAATATCTGTAGATCTGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
*
21722 CTAAATATCTGTAGATATGAAACTCCTCT
1 CAAAATATCTGTAGATATGAAACTCCTCT
21751 CAAAATATC
1 CAAAATATC
21760 AAAATCTTGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (29 bp):
CAAAATATCTGTAGATATGAAACTCCTCT
Found at i:24768 original size:55 final size:55
Alignment explanation
Indices: 24698--25048 Score: 450
Period size: 55 Copynumber: 6.4 Consensus size: 55
24688 CTATGTGTAC
*
24698 TACAGGCACCTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * *
24753 TATAGGCACTTTGTGTGCATATTCACGAAATTCATCAAGAGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * *
24808 TACAAGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* ** * * *
24863 TACAAGCACTTTGTGTGCATATTGACGGAATTCATCATGTGTTGATGAATCACCA
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * *
24918 TATAGGTACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATAACCA
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * * * ** *
24973 TACAGGCACTGTGTGTACAAATCTACGAAATTCATCATAAGTTGATGAATAACCG
1 TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
* * *
25028 TATAGGCACTATGTGTACATA
1 TACAGGCACTTTGTGTGCATA
25049 ACACGGGATT
Statistics
Matches: 263, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 263 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (55 bp):
TACAGGCACTTTGTGTGCATATCCACGAAATTCATCATGGGTTGATGAATCACCG
Found at i:25084 original size:54 final size:55
Alignment explanation
Indices: 24722--25116 Score: 228
Period size: 55 Copynumber: 7.2 Consensus size: 55
24712 GTGCATATCC
* ** * * * *
24722 ACGAAATTCATCATGGGTTGATGAATCACCGTATAGGCACTTTGTGTGCATAT-T
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * * * * * *
24776 CACGAAATTCATCAA-GAGTTGATGAATCACCGTACAAGCACTTTGTGTGCATAT-T
1 -ACGAAATTCAT-AATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * ** * * * * * *
24831 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAGCACTTTGTGTGCATAT-T
1 -ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* * ** * * * * * * *
24886 GACGGAATTCATCATGTGTTGATGAATCACCATATAGGTACTTTGTGTGCATATCC
1 -ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* ** * * *
24942 ACGAAATTCATCATGGGTTGATGAATAACCATACAGGCACTGTGTGTACAAATCT
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
*
24997 ACGAAATTCATCATAAGTTGATGAATAACCGTATAGGCACTATGTGTACATAA-C-
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACA-AATCT
** * * * * * *
25051 ACGGGATTCATAATATGTTTATGAATAATCGTATAGGAACTACGTGTACGAA-CT
1 ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
* *
25105 AAGAGATTCATA
1 ACGAAATTCATA
25117 CTAATTGTAG
Statistics
Matches: 296, Mismatches: 39, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 52 0.18
55 238 0.80
56 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (55 bp):
ACGAAATTCATAATAAGTTGATGAATAACCGTATAGGCACTATGTGTACAAATCT
Found at i:25579 original size:45 final size:44
Alignment explanation
Indices: 25443--25567 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 44
25433 GATGTATAAC
*
25443 AATGTATAATAATGTATAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAA-GCATGAAAGGATGCCATAAATGA
*
25488 AATATATAATAGTGTATAAAAGTCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAG-CATGAAAGGATGCCATAAATGA
* * *
25533 AATGTATAATAGTGCATTATAAGCATGAAGGGATG
1 AATGTATAATAGTGTA-TAAAAGCATGAAAGGATG
25568 TTATCAATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.92
46 5 0.07
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.26
Consensus pattern (44 bp):
AATGTATAATAGTGTATAAAAGCATGAAAGGATGCCATAAATGA
Found at i:31769 original size:59 final size:59
Alignment explanation
Indices: 31659--32000 Score: 404
Period size: 59 Copynumber: 5.8 Consensus size: 59
31649 TGGCACTATA
* * *
31659 TGTGCTAAAATGATAAGG-AATCATATTGAATGTATGAATTCCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* *
31717 TGTGCTAAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
*
31776 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* * * * *
31835 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAGCACTGA-G
* * * * *** * *
31894 TGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
* * * * *
31953 GGTGCTAAAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATAT
1 TGTGCTAAAATGATAAGGAAATCATATTGAGT-GTATGGATTTCCATAT
32001 ATGGCACTTC
Statistics
Matches: 245, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
58 22 0.09
59 219 0.89
60 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAG
Found at i:31960 original size:177 final size:173
Alignment explanation
Indices: 31659--32210 Score: 499
Period size: 177 Copynumber: 3.1 Consensus size: 173
31649 TGGCACTATA
* * * *
31659 TGTGCTAAAATGATAAGGAATCATATTGAATGTAT-GAATTCCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGATAAGGAATCATATTGAATGTATGGATTTCCAATA-GG-GCACTTAATGTGCT
* * * * *** *
31723 AAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATATGGAGCACTGAGTGTGCTAAAATG
64 AAAATGGTAAGGGAATCAT-ATGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAATG
*
31788 ATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGAG
128 ATAAGGAAATCATACT-AGTGTATGGATTTCCATATAGAGCACTGAG
*
31835 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA-TTATATGTGC
1 TGTGCTAAAATGATAAGG-AATCATATTGAATGTATGGATTTCCA-ATAGGGCACTTA-ATGTGC
* * *
31899 TAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACTAAGGGTGCTAAAAG
63 TAAAATGGTAAGGGAATCATA-TGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAAT
* * *
31964 GATAAGGAAATCATACTAATAGTATGGATTTTCATATATG-GCACTTCA-
127 GATAAGGAAATCATACTAGT-GTATGGATTTCCATATA-GAGCAC-TGAG
* ** * * *
32012 TGTGCTAAAAATGGTAAAGGGGTCATACT-AATGGTATGGATTCTCGAATAGGGCACTTCATGTG
1 TGTGCT-AAAATGAT-AAGGAATCATATTGAAT-GTATGGATT-TCCAATAGGGCACTTAATGTG
* * * * * * **
32076 CTAAAAATGGTAAAGGAATCACATTAATGGTAT-GAATTCTC-GAATAAGGCACTTCGTGTGCTA
62 CT-AAAATGGTAAGGGAATCATATGAGT-GTATGGATTTC-CAGAA-AAAGCACTAAGTGTGCTA
* * *
32139 AAATGAGAAGGAAATCATACTAAGTATAT-GATATTCCAGATAGAGCACTGAG
123 AAATGATAAGGAAATCATACT-AGTGTATGGAT-TTCCATATAGAGCACTGAG
* * *
32191 AGTGCTAATATTATAAGGAA
1 TGTGCTAAAATGATAAGGAA
32211 ATTATATGAA
Statistics
Matches: 305, Mismatches: 50, Indels: 41
0.77 0.13 0.10
Matches are distributed among these distances:
176 23 0.08
177 125 0.41
178 69 0.23
179 86 0.28
180 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (173 bp):
TGTGCTAAAATGATAAGGAATCATATTGAATGTATGGATTTCCAATAGGGCACTTAATGTGCTAA
AATGGTAAGGGAATCATATGAGTGTATGGATTTCCAGAAAAAGCACTAAGTGTGCTAAAATGATA
AGGAAATCATACTAGTGTATGGATTTCCATATAGAGCACTGAG
Found at i:32015 original size:118 final size:117
Alignment explanation
Indices: 31650--32212 Score: 466
Period size: 118 Copynumber: 4.8 Consensus size: 117
31640 ATTACCAAAT
* * * *
31650 GGCACTATATGTGCTAAAATGATAA-GGAATCATATTGAATGTATGAATTCCCATATGGAGCACT
1 GGCACT-TATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACT
* *
31714 GAGTGTGCTAAAATGATAAGGAAATCATAAT-GTGTGTATGGATTTCCATAT-G
65 GAGTGTGCTAAAATGATAAGGAAATCATAATAAT-AGTATGGATTTCCATATAG
* *
31766 GAGCACTGAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
1 G-GCACTTA-TGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* *
31831 TGAGTGTGCTAAAATGATAAGGAAATCATATTGAATA-TATGGATTTCCAGATAG
64 TGAGTGTGCTAAAATGATAAGGAAATCATAAT-AATAGTATGGATTTCCATATAG
* * * * *** *
31885 GGCATTATATGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAATCACT
1 GGCACT-TATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACT
* * * * * *
31950 AAGGGTGCTAAAAGGATAAGGAAATCATACTAATAGTATGGATTTTCATATAT
65 GAGTGTGCTAAAATGATAAGGAAATCATAATAATAGTATGGATTTCCATATAG
* * * *
32003 GGCACTTCATGTGCTAAAAATGGTAAAGGG-GTCATACT-AATGGTATGGATTCTCGA-ATAGG-
1 GGCACTT-ATGTGCT-AAAATGAT-AAGGGAATCATACTGAGT-GTATGGATT-TCCATAT-GGA
* * * * * * * *
32064 GCACTTCA-TGTGCTAAAAATGGTAAAGG-AATCACATTAATGGTATGAATTCTCGA-ATAA
60 GCAC-TGAGTGTGCT-AAAATGAT-AAGGAAATCATAATAATAGTATGGATT-TCCATATAG
* * * * * * *
32123 GGCACTTCGTGTGCTAAAATGAGAAGGAAATCATACTAAGTATAT-GATATTCCAGATAGAGCAC
1 GGCACTT-ATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGAT-TTCCATATGGAGCAC
* * *
32187 TGAGAGTGCTAATATTATAAGGAAAT
64 TGAGTGTGCTAAAATGATAAGGAAAT
32213 TATATGAATT
Statistics
Matches: 361, Mismatches: 61, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
116 2 0.01
117 30 0.08
118 206 0.57
119 63 0.17
120 54 0.15
121 6 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (117 bp):
GGCACTTATGTGCTAAAATGATAAGGGAATCATACTGAGTGTATGGATTTCCATATGGAGCACTG
AGTGTGCTAAAATGATAAGGAAATCATAATAATAGTATGGATTTCCATATAG
Found at i:32053 original size:60 final size:60
Alignment explanation
Indices: 31967--32161 Score: 236
Period size: 60 Copynumber: 3.2 Consensus size: 60
31957 CTAAAAGGAT
* * *
31967 AAGGAAATCATACTAATAGTATGGATTTTC-ATATATGGCACTTCATGTGCTAAAAATGGTA
1 AAGG-AATCATACTAATGGTATGGATTCTCGA-ATAAGGCACTTCATGTGCTAAAAATGGTA
** *
32028 AAGGGGTCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
* * * *
32088 AAGGAATCACATTAATGGTATGAATTCTCGAATAAGGCACTTCGTGTGCT-AAAAT-G-A
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
32145 GAAGGAAATCATACTAA
1 -AAGG-AATCATACTAA
32162 GTATATGATA
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 14 0.12
60 92 0.79
61 5 0.04
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGGATTCTCGAATAAGGCACTTCATGTGCTAAAAATGGTA
Found at i:32187 original size:59 final size:58
Alignment explanation
Indices: 31651--32212 Score: 401
Period size: 59 Copynumber: 9.5 Consensus size: 58
31641 TTACCAAATG
* * * * *
31651 GCACTATA-TGTGCTAAAATGATAAGG-AATCATATTGAATGTATGAATTCCCATATGGA
1 GCACT-TAGTGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCAGATAGA
* * ** * *
31709 GCACTGAGTGTGCTAAAATGATAAGGAAATCATAATGTGTGTATGGATTTCCATATGGA
1 GCACTTAGTGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCAGATAGA
* * * *
31768 GCACTGAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
1 GCACTTAGTGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCAGATAGA
* * * *
31827 GCACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG
1 GCACTTAGTGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCAGATAGA
* * * * * * *
31886 GCA-TTATATGTGCTAAAATGGTAAGGGAATCATAGTGAGTGTATGGATTTCCAGAAAAA
1 GCACTTA-GTGTGCTAAAATGATAAGGAAATCATACT-AATGTATGGATTTCCAGATAGA
* * * * * *
31945 TCACTAAGGGTGCTAAAAGGATAAGGAAATCATACTAATAGTATGGATTTTCATATATG-
1 GCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAT-GTATGGATTTCCAGATA-GA
* ** * *
32004 GCACTTCA-TGTGCTAAAAATGGTAAAGG-GGTCATACTAATGGTATGGATTCTCGA-ATAGG
1 GCACTT-AGTGTGCT-AAAATGAT-AAGGAAATCATACTAAT-GTATGGATT-TCCAGATAGA
* * * * *
32064 GCACTTCA-TGTGCTAAAAATGGTAAAGG-AATCACATTAATGGTATGAATTCTCGA-ATA-A
1 GCACTT-AGTGTGCT-AAAATGAT-AAGGAAATCATACTAAT-GTATGGATT-TCCAGATAGA
* * *
32123 GGCACTTCGTGTGCTAAAATGAGAAGGAAATCATACTAA-GTATATGATATTCCAGATAGA
1 -GCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAATGTAT-GGAT-TTCCAGATAGA
* * * *
32183 GCACTGAGAGTGCTAATATTATAAGGAAAT
1 GCACTTAGTGTGCTAAAATGATAAGGAAAT
32213 TATATGAATT
Statistics
Matches: 419, Mismatches: 67, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
57 5 0.01
58 36 0.09
59 275 0.66
60 97 0.23
61 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (58 bp):
GCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAATGTATGGATTTCCAGATAGA
Found at i:32357 original size:44 final size:44
Alignment explanation
Indices: 32294--32698 Score: 542
Period size: 44 Copynumber: 9.0 Consensus size: 44
32284 TCAGTGATGC
*
32294 AAATTATAGTAAGTATATTGGAAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
32338 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGC--------TTATG
*
32390 AAATTATAGTAAGCATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
32434 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
32478 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
32522 GAATAAT-GATAAGTATATTGGTAAAATAAGCTTATGAGCTTATG
1 AAATTATAG-TAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
32566 GAATAATGGTAAGTATATTCGTAAAATAAGCTTATGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
32610 GAATAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
32654 GATTTAATGGTAAGTATATTGGTAAATTAAGCTTACGAGCTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
32699 GATTAAATAG
Statistics
Matches: 334, Mismatches: 16, Indels: 21
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.00
44 253 0.76
45 37 0.11
52 43 0.13
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:33868 original size:22 final size:22
Alignment explanation
Indices: 33840--33882 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
33830 CCGATAGGAT
33840 TGTGTTGTAGTTCACGTTGAGA
1 TGTGTTGTAGTTCACGTTGAGA
33862 TGTGTTGTAGTTCACGTTGAG
1 TGTGTTGTAGTTCACGTTGAG
33883 TCGTATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.09, G:0.33, T:0.42
Consensus pattern (22 bp):
TGTGTTGTAGTTCACGTTGAGA
Found at i:33891 original size:22 final size:22
Alignment explanation
Indices: 33844--33894 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
33834 TAGGATTGTG
*
33844 TTGTAGTTCACGTTGAGATGTG
1 TTGTAGTTCACGTTGAGATGTA
33866 TTGTAGTTCACGTTGAG-TCGTA
1 TTGTAGTTCACGTTGAGAT-GTA
33888 TTGTAGT
1 TTGTAGT
33895 AGCATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (22 bp):
TTGTAGTTCACGTTGAGATGTA
Found at i:34122 original size:24 final size:23
Alignment explanation
Indices: 34095--34155 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
34085 AGTTCAACTT
*
34095 TATTTTGCTTTAACATT-TTTC-A
1 TATTTT-CTTCAACATTCTTTCAA
34117 TATATTTCTTCAACATTCTTTCAA
1 TAT-TTTCTTCAACATTCTTTCAA
* *
34141 TATTTGCTACAACAT
1 TATTTTCTTCAACAT
34156 CTTACTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 12 0.36
23 17 0.52
24 4 0.12
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTTTCTTCAACATTCTTTCAA
Found at i:34132 original size:22 final size:23
Alignment explanation
Indices: 34106--34155 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
34096 ATTTTGCTTT
*
34106 AACATT-TTTCATATATTT-CTTC
1 AACATTCTTTCA-ATATTTGCTAC
34128 AACATTCTTTCAATATTTGCTAC
1 AACATTCTTTCAATATTTGCTAC
34151 AACAT
1 AACAT
34156 CTTACTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (23 bp):
AACATTCTTTCAATATTTGCTAC
Found at i:34158 original size:22 final size:22
Alignment explanation
Indices: 34106--34158 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
34096 ATTTTGCTTT
* *
34106 AACATTTTTCATATATTTCTTC
1 AACATCTTTCATATATTTCTAC
34128 AACATTCTTTCA-ATATTTGCTAC
1 AACA-TCTTTCATATATTT-CTAC
34151 AACATCTT
1 AACATCTT
34159 ACTTCCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (22 bp):
AACATCTTTCATATATTTCTAC
Found at i:37453 original size:29 final size:29
Alignment explanation
Indices: 37385--37546 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 29
37375 TTGTATTTTA
* **
37385 TTGTACTTTATTGTAAATTCCAAAAACAAT
1 TTGTCCTTTATTGTAAATTCCAAAAA-GTT
*
37415 TTG-CATTTTATTGTAAATTCCAAAAAGTT
1 TTGTC-CTTTATTGTAAATTCCAAAAAGTT
* **
37444 TTGTCCTTTATTGTAAATTACAATTAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
** *
37473 TTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
37502 TTGTCCTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
37531 TT-ACCTTTTATTGTAA
1 TTGTCC-TTTATTGTAA
37547 TTTCATATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 87 0.77
30 24 0.21
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (29 bp):
TTGTCCTTTATTGTAAATTCCAAAAAGTT
Found at i:37531 original size:58 final size:58
Alignment explanation
Indices: 37385--37551 Score: 210
Period size: 58 Copynumber: 2.9 Consensus size: 58
37375 TTGTATTTTA
* * ** *
37385 TTGTACTTTATTGTAAATTCCAAAAACAATTTGCATTTTATTGTAAATTCCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAA-GTTTTGCATTTTATTGTAAATTTCAAAAAGTT
** **
37444 TTGTCCTTTATTGTAAATTACAATTAGTTTTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
* * *
37502 TTGTCCTTTATTGTAAATTTCAAAAAGTTTTACCTTTTATTGT-AATTTCA
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCA
37552 TATTTTTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 7 0.08
58 64 0.69
59 22 0.24
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (58 bp):
TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
Found at i:42534 original size:2 final size:2
Alignment explanation
Indices: 42527--42554 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42517 CCTAATTTAA
42527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42555 GAACAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47263 original size:23 final size:23
Alignment explanation
Indices: 47211--47263 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
47201 CATTTTAATG
*
47211 TTATAATAGTATATAAATTTATA
1 TTATTATAGTATATAAATTTATA
47234 TTATTATAGTATAT-AATGTTATA
1 TTATTATAGTATATAAAT-TTATA
*
47257 TTTTTAT
1 TTATTAT
47264 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TTATTATAGTATATAAATTTATA
Found at i:47305 original size:17 final size:18
Alignment explanation
Indices: 47283--47318 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47273 TATATAATAA
47283 ATTATTGA-TAATTTCAT
1 ATTATTGATTAATTTCAT
*
47300 ATTATTTATTAATTTCAT
1 ATTATTGATTAATTTCAT
47318 A
1 A
47319 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTATTGATTAATTTCAT
Found at i:47411 original size:14 final size:15
Alignment explanation
Indices: 47394--47422 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47384 AATAATTTTA
47394 TTTTAAT-TTATAAT
1 TTTTAATGTTATAAT
47408 TTTTAATGTTATAAT
1 TTTTAATGTTATAAT
47423 AATAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTAATGTTATAAT
Found at i:47759 original size:13 final size:13
Alignment explanation
Indices: 47741--47765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47731 TAGTATTAAA
47741 GGAAAGGGAAAGG
1 GGAAAGGGAAAGG
47754 GGAAAGGGAAAG
1 GGAAAGGGAAAG
47766 CTAAGTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (13 bp):
GGAAAGGGAAAGG
Found at i:48861 original size:59 final size:59
Alignment explanation
Indices: 48796--48972 Score: 293
Period size: 59 Copynumber: 3.0 Consensus size: 59
48786 ATTATCAAAT
*
48796 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATAATAAGTGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
*
48855 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
* * * *
48914 GGCACTTTGTGTGCTAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
48972 G
1 G
48973 AAATATATGT
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 36 0.32
59 75 0.68
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
Found at i:50077 original size:54 final size:54
Alignment explanation
Indices: 49868--50066 Score: 308
Period size: 54 Copynumber: 3.7 Consensus size: 54
49858 TAGTGCCCAT
* * * * *
49868 ACGGTCATTCATAAACATATTATGAATTATGTGGTTTGCACACTTAGTACCGAA
1 ACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTACCGAA
* * * *
49922 ACGGTTATTCATCAACATATGATGAATTCTATGATTTGCACACTTAGTGCTGAA
1 ACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTACCGAA
*
49976 ACGGTTATTCATCAATATATGATGAATTTTGTGATTTGCACACTTAGTACCGAA
1 ACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTACCGAA
50030 ACGGTTATTCATCAACATATGATGAATTTTGTGATTT
1 ACGGTTATTCATCAACATATGATGAATTTTGTGATTT
50067 TTAGACTTAG
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 131 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (54 bp):
ACGGTTATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTACCGAA
Found at i:50154 original size:15 final size:15
Alignment explanation
Indices: 50134--50165 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50124 TGACTAGTAT
50134 AACATATAGTTACAC
1 AACATATAGTTACAC
50149 AACATATAGTTACAC
1 AACATATAGTTACAC
50164 AA
1 AA
50166 TTAAATGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AACATATAGTTACAC
Found at i:52570 original size:10 final size:10
Alignment explanation
Indices: 52555--52582 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
52545 TTTTGATATT
52555 AAAACTGAAG
1 AAAACTGAAG
52565 AAAACTGAAG
1 AAAACTGAAG
52575 AAAACTGA
1 AAAACTGA
52583 TAATTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.18, T:0.11
Consensus pattern (10 bp):
AAAACTGAAG
Found at i:60271 original size:15 final size:16
Alignment explanation
Indices: 60251--60282 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60241 GTAAGAGTCA
60251 TTTCTT-TTTCTTTTT
1 TTTCTTCTTTCTTTTT
60266 TTTCTTCTTTCTTTTT
1 TTTCTTCTTTCTTTTT
60282 T
1 T
60283 GTTTTGTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTCTTTCTTTTT
Found at i:65780 original size:29 final size:29
Alignment explanation
Indices: 65712--65873 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 29
65702 TTGTATTTTA
* **
65712 TTGTACTTTATTGTAAATTCCAAAAACAAT
1 TTGTCCTTTATTGTAAATTCCAAAAA-GTT
*
65742 TTG-CATTTTATTGTAAATTCCAAAAAGTT
1 TTGTC-CTTTATTGTAAATTCCAAAAAGTT
* **
65771 TTGTCCTTTATTGTAAATTACAATTAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
** *
65800 TTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
65829 TTGTCCTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTCCAAAAAGTT
*
65858 TT-ACCTTTTATTGTAA
1 TTGTCC-TTTATTGTAA
65874 TTTCATATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 87 0.77
30 24 0.21
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (29 bp):
TTGTCCTTTATTGTAAATTCCAAAAAGTT
Found at i:65858 original size:58 final size:58
Alignment explanation
Indices: 65712--65878 Score: 210
Period size: 58 Copynumber: 2.9 Consensus size: 58
65702 TTGTATTTTA
* * ** *
65712 TTGTACTTTATTGTAAATTCCAAAAACAATTTGCATTTTATTGTAAATTCCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAA-GTTTTGCATTTTATTGTAAATTTCAAAAAGTT
** **
65771 TTGTCCTTTATTGTAAATTACAATTAGTTTTGTTTTTTATTGTAAATTTCAAAAAGTT
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
* * *
65829 TTGTCCTTTATTGTAAATTTCAAAAAGTTTTACCTTTTATTGT-AATTTCA
1 TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCA
65879 TATTTTTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 7 0.08
58 64 0.69
59 22 0.24
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (58 bp):
TTGTCCTTTATTGTAAATTACAAAAAGTTTTGCATTTTATTGTAAATTTCAAAAAGTT
Found at i:70861 original size:2 final size:2
Alignment explanation
Indices: 70854--70879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
70844 CCTAATTTAA
70854 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
70880 GAACAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75446 original size:23 final size:25
Alignment explanation
Indices: 75413--75463 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 25
75403 AATACTCAAG
75413 ATAATATTATTTTA-TAT-A-TTTA
1 ATAATATTATTTTAGTATCATTTTA
75435 ATAATAATTATTTTAGTATCATTTTA
1 ATAAT-ATTATTTTAGTATCATTTTA
75461 ATA
1 ATA
75464 GAAACATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
24 3 0.12
25 1 0.04
26 7 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
ATAATATTATTTTAGTATCATTTTA
Found at i:75557 original size:23 final size:23
Alignment explanation
Indices: 75526--75578 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
75516 CATTTTAATG
*
75526 TTATAATAGTATATAAAT-TTATA
1 TTATTATAGTATAT-AATGTTATA
75549 TTATTATAGTATATAATGTTATA
1 TTATTATAGTATATAATGTTATA
*
75572 TTTTTAT
1 TTATTAT
75579 TTTAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TTATTATAGTATATAATGTTATA
Found at i:75619 original size:17 final size:18
Alignment explanation
Indices: 75597--75632 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75587 TATATAATAA
75597 ATTATTGA-TAATTTCAT
1 ATTATTGATTAATTTCAT
*
75614 ATTATTTATTAATTTCAT
1 ATTATTGATTAATTTCAT
75632 A
1 A
75633 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTATTGATTAATTTCAT
Found at i:75725 original size:14 final size:15
Alignment explanation
Indices: 75708--75736 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
75698 AATAATTTTA
75708 TTTTAAT-TTATAAT
1 TTTTAATGTTATAAT
75722 TTTTAATGTTATAAT
1 TTTTAATGTTATAAT
75737 AATAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTAATGTTATAAT
Found at i:76067 original size:13 final size:13
Alignment explanation
Indices: 76049--76073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76039 TAGTATTAAA
76049 GGAAAGGGAAAGG
1 GGAAAGGGAAAGG
76062 GGAAAGGGAAAG
1 GGAAAGGGAAAG
76074 CTAAGTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (13 bp):
GGAAAGGGAAAGG
Found at i:76762 original size:19 final size:19
Alignment explanation
Indices: 76738--76777 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
76728 ACCTAAAATT
76738 GGTATCGATACCGTAATGG
1 GGTATCGATACCGTAATGG
76757 GGTATCGATACCGTAATGG
1 GGTATCGATACCGTAATGG
76776 GG
1 GG
76778 GATCAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (19 bp):
GGTATCGATACCGTAATGG
Found at i:77202 original size:58 final size:58
Alignment explanation
Indices: 77103--77275 Score: 244
Period size: 58 Copynumber: 3.0 Consensus size: 58
77093 ATTATCAAAT
*
77103 GCACTTC--GTGCTAAAATGTTAAGAAATTCATAATAAGTGTATGAATTTCCGTATAGG
1 GCACTTCGTGTGCT-AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
*
77160 GCACTTCGTGTGCTAAACTGTTAAG-AATTCATACTAAGTGTATGAATTTCCGTATGGG
1 GCACTTCGTGTGCTAAA-TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
* * * * *
77218 GCACTTTGTGTGCTAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCATATAGG
1 GCACTTCGTGTGCTAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
77276 ATATATGTGT
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
57 12 0.12
58 80 0.77
59 12 0.12
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (58 bp):
GCACTTCGTGTGCTAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
Found at i:77598 original size:68 final size:68
Alignment explanation
Indices: 77486--77895 Score: 604
Period size: 68 Copynumber: 6.0 Consensus size: 68
77476 AAAGATTAAT
* *
77486 AGGCCTAACTATGCATTTGACAGAAAAGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
77551 TTG
66 TTG
* * * *
77554 AAGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTGGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
77619 TTG
66 TTG
* * *
77622 AGGCGTAACTTTACATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
77687 TTG
66 TTG
* * *
77690 AGGCCGAACTATGCATTTGACAGAAAGGTATCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
77755 TTG
66 TTG
* ** *
77758 AGGCCGAACTATGCATTTGACAGAAAGGAATCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
77823 TTA
66 TTG
* * * * * * *
77826 AGGCCTAACTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCG
1 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
77891 TTG
66 TTG
77894 AG
1 AG
77896 TAAAAGAATA
Statistics
Matches: 308, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 308 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:77962 original size:81 final size:81
Alignment explanation
Indices: 77829--78040 Score: 352
Period size: 81 Copynumber: 2.6 Consensus size: 81
77819 GTCTTTAAGG
* *
77829 CCTAACTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
77894 AGTAAAAGAATAATGG
66 AGTAAAAGAATAATGA
* * *
77910 CCTAGTTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTGGATGAACGGTTAAGTACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
77975 ATTAAAAGAATAATGA
66 AGTAAAAGAATAATGA
*
77991 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCACTTAGATGAAC
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAC
78041 AGTTTAAACA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 120 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (81 bp):
CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
AGTAAAAGAATAATGA
Found at i:78092 original size:29 final size:30
Alignment explanation
Indices: 78033--78094 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
78023 TATGCCACTT
*
78033 AGATGAACAGTTTAAACACTGTTGACCAAA
1 AGATGAACAGTTTAAACACTGTTGAACAAA
*
78063 AGATGAAC-GTTTAAACACTGTTGAATAAA
1 AGATGAACAGTTTAAACACTGTTGAACAAA
78092 AGA
1 AGA
78095 ATAATGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (30 bp):
AGATGAACAGTTTAAACACTGTTGAACAAA
Found at i:78239 original size:2 final size:2
Alignment explanation
Indices: 78232--78289 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
78222 TGAAGGGATG
78232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78273 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
78290 ATGTTCAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79352 original size:17 final size:17
Alignment explanation
Indices: 79330--79362 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
79320 ATCATAATTG
79330 CAATCT-TAGATTATATA
1 CAATCTATA-ATTATATA
79347 CAATCTATAATTATAT
1 CAATCTATAATTATAT
79363 TTGATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
CAATCTATAATTATATA
Done.