Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006507.1 Hibiscus syriacus cultivar Beakdansim tig00015838_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: 80318
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Found at i:9502 original size:21 final size:21
Alignment explanation
Indices: 9478--9526 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9468 ACCGAAGTGT
* *
9478 CACATATTTGTCCCAGAGGAC
1 CACATAATTGTACCAGAGGAC
* *
9499 CACATAATTGTACCGGATGAC
1 CACATAATTGTACCAGAGGAC
9520 CACATAA
1 CACATAA
9527 ATCCCTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (21 bp):
CACATAATTGTACCAGAGGAC
Found at i:16362 original size:21 final size:21
Alignment explanation
Indices: 16336--16429 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
16326 CACCAAAGTG
16336 CCACATAATTATCCCGAATGA
1 CCACATAATTATCCCGAATGA
*
16357 CCACATAGGTT-TGCGCCGAAGTG-
1 CCACATA-ATTAT-C-CCGAA-TGA
* * *
16380 TCACATATTTGTCCCG-ATGGA
1 CCACATAATTATCCCGAAT-GA
16401 CCACATAATTATCCCGAATGA
1 CCACATAATTATCCCGAATGA
16422 CCACATAA
1 CCACATAA
16430 AACCCTCGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
19 1 0.02
20 2 0.03
21 34 0.58
22 8 0.14
23 12 0.20
24 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (21 bp):
CCACATAATTATCCCGAATGA
Found at i:19080 original size:91 final size:91
Alignment explanation
Indices: 18950--19116 Score: 271
Period size: 91 Copynumber: 1.8 Consensus size: 91
18940 TCGGTCTTAA
*
18950 TTCTTACTCAAAGAAAAACAACTCGAACACTCCCATAGTGCTGGAAAGAAATTATAAAGAAGTCG
1 TTCTTACTCAAAGAAAAACAACTCGAACACTCACATAGTGCTGGAAAGAAATTATAAAGAAGTCG
19015 ATACATGCTTATGAGGTCTGCTTTAG
66 ATACATGCTTATGAGGTCTGCTTTAG
* * ** * *
19041 TTCTTTCTCAAAGAAAAATAACTCGAATGCTCACTTAGTGCTGGAAAGAAATTATAAGGAAGTCG
1 TTCTTACTCAAAGAAAAACAACTCGAACACTCACATAGTGCTGGAAAGAAATTATAAAGAAGTCG
19106 ATACATGCTTA
66 ATACATGCTTA
19117 GCTTATGAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 69 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (91 bp):
TTCTTACTCAAAGAAAAACAACTCGAACACTCACATAGTGCTGGAAAGAAATTATAAAGAAGTCG
ATACATGCTTATGAGGTCTGCTTTAG
Found at i:28842 original size:12 final size:12
Alignment explanation
Indices: 28827--28867 Score: 66
Period size: 11 Copynumber: 3.4 Consensus size: 12
28817 CAAACTAATC
28827 TTTTTTTAGTTT
1 TTTTTTTAGTTT
28839 TTTTTTTAG-TT
1 TTTTTTTAGTTT
28850 TTTTTTTAGATTT
1 TTTTTTTAG-TTT
28863 TTTTT
1 TTTTT
28868 GTAAATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.41
12 9 0.33
13 7 0.26
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTAGTTT
Found at i:30928 original size:31 final size:31
Alignment explanation
Indices: 30892--30964 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
30882 GGGAAGTTAC
*
30892 TTGATTG-TAATCATTTAAATAGTTAAATGGT
1 TTGATTGAT-ATCATTTAAATAATTAAATGGT
* *
30923 TTGATTGATATCATTTACATAATTAAGTGGT
1 TTGATTGATATCATTTAAATAATTAAATGGT
*
30954 TTGATAGATAT
1 TTGATTGATAT
30965 AATATCACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.45
Consensus pattern (31 bp):
TTGATTGATATCATTTAAATAATTAAATGGT
Found at i:31540 original size:19 final size:19
Alignment explanation
Indices: 31516--31560 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
31506 TAGAGGATTG
31516 CTGAACCGGTTGATTCAAA
1 CTGAACCGGTTGATTCAAA
*
31535 CTGAACCGGTTGATTCAAT
1 CTGAACCGGTTGATTCAAA
31554 CTGAACC
1 CTGAACC
31561 AATTGGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (19 bp):
CTGAACCGGTTGATTCAAA
Found at i:36194 original size:37 final size:37
Alignment explanation
Indices: 36144--36226 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
36134 TGTATCACAC
* *
36144 ACTCAGACTGCCCATCTATCTGCGGAAGATAAGTTGT
1 ACTCAAACTGCCCATCTATCTGCGAAAGATAAGTTGT
*
36181 ACTCAAACTGCCCATCTATTTGCGAAAGATAAGTTGT
1 ACTCAAACTGCCCATCTATCTGCGAAAGATAAGTTGT
36218 ACTCAAACT
1 ACTCAAACT
36227 ATGCTTCGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (37 bp):
ACTCAAACTGCCCATCTATCTGCGAAAGATAAGTTGT
Found at i:39503 original size:75 final size:76
Alignment explanation
Indices: 39415--39567 Score: 188
Period size: 76 Copynumber: 2.0 Consensus size: 76
39405 ATTTGAATTA
* *
39415 AACTCAAGTTTAGGATAATATTTTAAACATTATAT-TTT-ATCTT-TGTATTTTAGTTTAAATAT
1 AACTCAAGTTTAGGATAATATTTT-AACATTATATCTTTGAT-TTAGGTATTTTAGTTTAAATAG
39477 GTTTTAGTATTTT
64 GTTTTAGTATTTT
* * * * *
39490 AACT-AAGTTTTAGGATATTATTTTTATATTTTATCTTTGGTTTAGGTATTTTAGTTTAAATAGG
1 AACTCAAG-TTTAGGATAATATTTTAACATTATATCTTTGATTTAGGTATTTTAGTTTAAATAGG
39554 TTTTAGTATTTT
65 TTTTAGTATTTT
39566 AA
1 AA
39568 TTAGGATTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
74 10 0.15
75 24 0.36
76 33 0.49
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (76 bp):
AACTCAAGTTTAGGATAATATTTTAACATTATATCTTTGATTTAGGTATTTTAGTTTAAATAGGT
TTTAGTATTTT
Found at i:39572 original size:19 final size:19
Alignment explanation
Indices: 39544--39606 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
39534 GGTATTTTAG
*
39544 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
39563 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
39582 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
39603 TTTA
1 TTTA
39607 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:40240 original size:18 final size:19
Alignment explanation
Indices: 40204--40247 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
40194 CTTTAATTTG
*
40204 TTTATTTAATTATTTTTCT
1 TTTATTTAATTACTTTTCT
40223 TTTATTTAATT-CTTTTCT
1 TTTATTTAATTACTTTTCT
40241 TTTATTT
1 TTTATTT
40248 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTAATTACTTTTCT
Found at i:45802 original size:5 final size:5
Alignment explanation
Indices: 45784--45879 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
45774 ACCCATTTCG
* * * * * **
45784 TTTTA TTTTCA TTTTA TTTCA TTTCA TTTCA TTTCA TTTCA TTCCA -TTTA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
** *
45834 TTTTA TTTTA TTTTA TTTTA TTAGA TTCTTAA TTTTA TTTTC TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TT-A TTTTA TTTTA TTTT
45880 TCTCTAAACA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
4 2 0.03
5 66 0.85
6 7 0.09
7 3 0.04
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:45803 original size:10 final size:10
Alignment explanation
Indices: 45778--45851 Score: 78
Period size: 10 Copynumber: 7.4 Consensus size: 10
45768 GAGGCAACCC
*
45778 ATTTCGTTTT
1 ATTTCATTTT
45788 ATTTTCATTTT
1 A-TTTCATTTT
*
45799 ATTTCATTTC
1 ATTTCATTTT
*
45809 ATTTCATTTC
1 ATTTCATTTT
**
45819 ATTTCATTCC
1 ATTTCATTTT
45829 ATTT-ATTTT
1 ATTTCATTTT
*
45838 ATTTTATTTT
1 ATTTCATTTT
45848 ATTT
1 ATTT
45852 TATTAGATTC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
9 7 0.12
10 41 0.72
11 9 0.16
ACGTcount: A:0.19, C:0.12, G:0.01, T:0.68
Consensus pattern (10 bp):
ATTTCATTTT
Found at i:51498 original size:4 final size:4
Alignment explanation
Indices: 51489--52559 Score: 2051
Period size: 4 Copynumber: 268.8 Consensus size: 4
51479 TATATCAAAA
51489 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51537 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51585 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51633 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51681 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
51729 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
51777 GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
51825 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
51873 GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51921 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51969 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52017 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
52065 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52113 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52161 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52209 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52257 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52305 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52351 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52399 ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52445 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
52541 ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACA
52560 CATACACATA
Statistics
Matches: 1055, Mismatches: 8, Indels: 8
0.99 0.01 0.01
Matches are distributed among these distances:
2 4 0.00
4 1051 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:52576 original size:2 final size:2
Alignment explanation
Indices: 52557--52771 Score: 394
Period size: 2 Copynumber: 107.5 Consensus size: 2
52547 ATACATACAT
* *
52557 AC AC AT AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52599 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52641 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
52683 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AT AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52725 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52767 AC AC A
1 AC AC A
52772 TTATGTATTT
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 205 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:52802 original size:8 final size:8
Alignment explanation
Indices: 52791--53828 Score: 1562
Period size: 8 Copynumber: 130.1 Consensus size: 8
52781 TGTGTGTGTG
52791 TGTATGTA
1 TGTATGTA
52799 TGTATGTA
1 TGTATGTA
* *
52807 TTTATGTG
1 TGTATGTA
*
52815 TGTATGTG
1 TGTATGTA
*
52823 TGTATGTG
1 TGTATGTA
*
52831 TGTATGTG
1 TGTATGTA
*
52839 TGTATGTG
1 TGTATGTA
*
52847 TGTATGTG
1 TGTATGTA
*
52855 TGTATGTG
1 TGTATGTA
*
52863 TGTATGTG
1 TGTATGTA
*
52871 TGTATGTG
1 TGTATGTA
*
52879 TGTATGTG
1 TGTATGTA
*
52887 TGTATGTT
1 TGTATGTA
*
52895 TGTATGTG
1 TGTATGTA
*
52903 TGTATGTG
1 TGTATGTA
*
52911 TGTATGTG
1 TGTATGTA
*
52919 TGTATGTG
1 TGTATGTA
* *
52927 TGTGTGTG
1 TGTATGTA
* *
52935 TGTGTGTG
1 TGTATGTA
* *
52943 TGTGTGTG
1 TGTATGTA
* *
52951 TGTGTGTG
1 TGTATGTA
* *
52959 TGTGTGTG
1 TGTATGTA
* *
52967 TGTGTGTG
1 TGTATGTA
* *
52975 TGTGTGTG
1 TGTATGTA
* *
52983 TGTGTGTG
1 TGTATGTA
* *
52991 TGTGTGTG
1 TGTATGTA
* *
52999 TGTGTGTGG
1 TGTATGT-A
* *
53008 TGTGTGTG
1 TGTATGTA
* *
53016 TGTGTGTG
1 TGTATGTA
* *
53024 TGTGTGTG
1 TGTATGTA
* *
53032 TGTGTGTG
1 TGTATGTA
*
53040 TGTATGTG
1 TGTATGTA
*
53048 TGTATGTG
1 TGTATGTA
53056 TGTATGTA
1 TGTATGTA
53064 TGTATGTA
1 TGTATGTA
53072 TGTATGTA
1 TGTATGTA
53080 TGTATGTA
1 TGTATGTA
*
53088 TATATGTA
1 TGTATGTA
53096 TGTATGTA
1 TGTATGTA
*
53104 TATATGTA
1 TGTATGTA
53112 TGTATGTA
1 TGTATGTA
53120 TGTATGTA
1 TGTATGTA
53128 TGTATGTA
1 TGTATGTA
53136 TGTATGTA
1 TGTATGTA
53144 TGTATGTA
1 TGTATGTA
53152 TGTATGTA
1 TGTATGTA
53160 TGTATGTA
1 TGTATGTA
53168 --TATGTA
1 TGTATGTA
53174 TGTATGTA
1 TGTATGTA
53182 TGTATGTA
1 TGTATGTA
53190 TGTATGTA
1 TGTATGTA
53198 TGTATGTA
1 TGTATGTA
53206 TGTATGTA
1 TGTATGTA
53214 TGTATGTA
1 TGTATGTA
53222 TGTATGTA
1 TGTATGTA
53230 TGTATGTA
1 TGTATGTA
53238 TGTATGTA
1 TGTATGTA
*
53246 TATATGTA
1 TGTATGTA
53254 TGTATGTA
1 TGTATGTA
*
53262 TTTATGTA
1 TGTATGTA
* *
53270 TCTATATA
1 TGTATGTA
53278 TGTATGTA
1 TGTATGTA
53286 TGTATGTA
1 TGTATGTA
53294 TGTATGTA
1 TGTATGTA
53302 TGTATGTA
1 TGTATGTA
53310 TGTATGTA
1 TGTATGTA
53318 TGTATGTA
1 TGTATGTA
53326 TGTATGTA
1 TGTATGTA
*
53334 TATATGTA
1 TGTATGTA
53342 TGTATGTA
1 TGTATGTA
53350 TGTATGTA
1 TGTATGTA
53358 TGTATGTA
1 TGTATGTA
53366 TGTATGTA
1 TGTATGTA
53374 TGTATGTA
1 TGTATGTA
53382 TGTATGTA
1 TGTATGTA
53390 TGTATGTA
1 TGTATGTA
53398 TGTATGTA
1 TGTATGTA
53406 TGTATGTA
1 TGTATGTA
53414 TGTATGTA
1 TGTATGTA
53422 TGTATGTA
1 TGTATGTA
53430 TGTATGTA
1 TGTATGTA
53438 TGTATGTA
1 TGTATGTA
53446 TGTATGTA
1 TGTATGTA
53454 TGTATGTA
1 TGTATGTA
53462 TGTATGTA
1 TGTATGTA
53470 TGTATGTA
1 TGTATGTA
53478 TGTATGTA
1 TGTATGTA
53486 TGTATGTA
1 TGTATGTA
53494 TGTATGTA
1 TGTATGTA
53502 TGTATGTA
1 TGTATGTA
53510 TGTATGTA
1 TGTATGTA
53518 TGTATGTA
1 TGTATGTA
53526 TGTATGTA
1 TGTATGTA
53534 TGTATGTA
1 TGTATGTA
53542 TGTATGTA
1 TGTATGTA
53550 TGTATGTA
1 TGTATGTA
53558 TGTATGTA
1 TGTATGTA
53566 TGTATGTA
1 TGTATGTA
53574 TGTATGTA
1 TGTATGTA
53582 TGTATGTA
1 TGTATGTA
53590 TGTATGTA
1 TGTATGTA
53598 TGTATGTA
1 TGTATGTA
53606 TGTATGTA
1 TGTATGTA
53614 TGTATGTA
1 TGTATGTA
53622 TGTATGTA
1 TGTATGTA
53630 TGTATGTA
1 TGTATGTA
53638 TGTATGTA
1 TGTATGTA
53646 TGTATGTA
1 TGTATGTA
53654 TGTATGTA
1 TGTATGTA
53662 TGTATGTA
1 TGTATGTA
53670 TGTA--TA
1 TGTATGTA
53676 TGTATGTA
1 TGTATGTA
53684 TGTATGTA
1 TGTATGTA
53692 TGTATGTA
1 TGTATGTA
53700 TGTATGTA
1 TGTATGTA
53708 TGTATGTA
1 TGTATGTA
53716 TGTATGTA
1 TGTATGTA
53724 TGTATGTA
1 TGTATGTA
53732 TGTATGTA
1 TGTATGTA
53740 TGTATGTA
1 TGTATGTA
53748 TGTATGTA
1 TGTATGTA
53756 TGTATGTA
1 TGTATGTA
53764 TGTATGTA
1 TGTATGTA
53772 TGTATGTA
1 TGTATGTA
53780 TGTATGTA
1 TGTATGTA
53788 TGTATGTA
1 TGTATGTA
53796 TGTATGTA
1 TGTATGTA
53804 TGTATGTA
1 TGTATGTA
53812 TGTATGTA
1 TGTATGTA
53820 TGTATGTA
1 TGTATGTA
53828 T
1 T
53829 ATACATACAT
Statistics
Matches: 1004, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
6 12 0.01
8 984 0.98
9 8 0.01
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.50
Consensus pattern (8 bp):
TGTATGTA
Found at i:53065 original size:4 final size:4
Alignment explanation
Indices: 53040--53828 Score: 1469
Period size: 4 Copynumber: 198.2 Consensus size: 4
53030 TGTGTGTGTG
* *
53040 TGTA TGTG TGTA TGTG TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
53088 TATA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53136 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53182 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * *
53230 TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TTTA TGTA TCTA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53278 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
53326 TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53374 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53422 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53470 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53518 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53566 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53614 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53662 TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53708 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53756 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
53804 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
53829 ATACATACAT
Statistics
Matches: 764, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
2 4 0.01
4 760 0.99
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:53836 original size:4 final size:4
Alignment explanation
Indices: 53829--53899 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
53819 ATGTATGTAT
53829 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
53877 ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
53900 AATATTTTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:55532 original size:9 final size:8
Alignment explanation
Indices: 55518--55611 Score: 80
Period size: 8 Copynumber: 11.2 Consensus size: 8
55508 ATAATAATAT
*
55518 AAAAGGGA
1 AAAAAGGA
55526 AAAAAGGAA
1 AAAAAGG-A
*
55535 AAAAAAGA
1 AAAAAGGA
55543 GAAAAAGGA
1 -AAAAAGGA
55552 AAAAAGGA
1 AAAAAGGA
*
55560 AAAAAGAA
1 AAAAAGGA
**
55568 AAAAAAAA
1 AAAAAGGA
55576 AAAAAGAGA
1 AAAAAG-GA
* *
55585 AAATAGAAA
1 AAAAAG-GA
*
55594 AAAAAGAA
1 AAAAAGGA
55602 AAAAAGGA
1 AAAAAGGA
55610 AA
1 AA
55612 GAAAACCGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
8 45 0.62
9 27 0.38
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
AAAAAGGA
Found at i:55570 original size:40 final size:41
Alignment explanation
Indices: 55524--55605 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
55514 ATATAAAAGG
* * *
55524 GAAAAAAGGAAAAAAAAGAGAAAA-AGGAAAAAAGGAAAAAA
1 GAAAAAA-AAAAAAAAAGAGAAAATAGAAAAAAAAGAAAAAA
55565 GAAAAAAAAAAAAAAAGAGAAAATAGAAAAAAAAGAAAAAA
1 GAAAAAAAAAAAAAAAGAGAAAATAGAAAAAAAAGAAAAAA
55606 AGGAAAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (41 bp):
GAAAAAAAAAAAAAAAGAGAAAATAGAAAAAAAAGAAAAAA
Found at i:55573 original size:26 final size:26
Alignment explanation
Indices: 55518--55611 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
55508 ATAATAATAT
* *
55518 AAAAGGGAAAAAAGGAAAAAA-AAGAG
1 AAAAAGGAAAAAAGGAAAAAAGAA-AA
55544 AAAAAGGAAAAAAGGAAAAAAGAAAA
1 AAAAAGGAAAAAAGGAAAAAAGAAAA
*
55570 AAAAA--AAAAAAGAGAAAATAG-AAA
1 AAAAAGGAAAAAAG-GAAAAAAGAAAA
*
55594 AAAAAGAAAAAAAGGAAA
1 AAAAAGGAAAAAAGGAAA
55612 GAAAACCGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.25
25 11 0.18
26 33 0.54
27 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (26 bp):
AAAAAGGAAAAAAGGAAAAAAGAAAA
Found at i:55611 original size:18 final size:17
Alignment explanation
Indices: 55524--55616 Score: 91
Period size: 16 Copynumber: 5.5 Consensus size: 17
55514 ATATAAAAGG
*
55524 GAAAAAAGGAAAAAAAA
1 GAAAAAAAGAAAAAAAA
* *
55541 GAGAAAAAG-GAAAAAA
1 GAAAAAAAGAAAAAAAA
*
55557 GGAAAAAAGAAAAAAAA
1 GAAAAAAAGAAAAAAAA
* *
55574 -AAAAAAAGAGAAAATA
1 GAAAAAAAGAAAAAAAA
*
55590 GAAAAAAAAGAAAAAAAG
1 G-AAAAAAAGAAAAAAAA
55608 GAAAGAAAA
1 GAAA-AAAA
55617 CCGATAAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
16 26 0.43
17 16 0.27
18 18 0.30
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAA
Found at i:58025 original size:109 final size:108
Alignment explanation
Indices: 57724--58025 Score: 403
Period size: 109 Copynumber: 2.8 Consensus size: 108
57714 AAGAAGCTAC
* *
57724 GCCTAATTTTTAGGGGTTTCTTGATGATGATTTTCAAAGAATTTTTTCAAAA-AATCTAAGCCTA
1 GCCTGATTTTTAGGGGTTTCTTGATGATGATTTTCAAAGAA-TTTTT-AAAAGAAACTAAGCCTA
* *
57788 ATTTTTAGGGGTTTCTTGATATTTTCAAATGATTTTTAGAAACTAA
64 A-TTTTAGGGGTTTCTTGATGTTTTCAAATGATTTTTAAAAACTAA
* * *
57834 G-CTGATTTTCAGGGGTTTCTTGATGACGATTTTCAAAGAATTTTTAAAAGGAAGCTAAGCCTAA
1 GCCTGATTTTTAGGGGTTTCTTGATGATGATTTTCAAAGAATTTTTAAAA-GAAACTAAGCCTAA
57898 TTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTTTAAAAACTAA
65 TTTTAGGGGTTTCTTGATGTTTTCAAATGA-TTTTTAAAAACTAA
* * * * * *
57943 GCCTGATTTTTAGGGGTTTCGTGATGATTATCTCCAAATAA-TTTTAAATGAAACTAAGCCTAAT
1 GCCTGATTTTTAGGGGTTTCTTGATGATGATTTTCAAAGAATTTTTAAAAGAAACTAAGCCTAAT
*
58007 TGTTAGGGGTTCCTTGATG
66 T-TTAGGGGTTTCTTGATG
58026 ATAGCCAAAA
Statistics
Matches: 171, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
107 4 0.02
108 49 0.29
109 85 0.50
110 33 0.19
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (108 bp):
GCCTGATTTTTAGGGGTTTCTTGATGATGATTTTCAAAGAATTTTTAAAAGAAACTAAGCCTAAT
TTTAGGGGTTTCTTGATGTTTTCAAATGATTTTTAAAAACTAA
Found at i:58187 original size:41 final size:42
Alignment explanation
Indices: 58106--58197 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
58096 GGACTATCAG
* * * *
58106 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTA
1 TAAGCCTTTCGAGCAAGATGCATAAATCCTTCAGGCCATCTA
* **
58148 TAAGCCTTTCGAGCAAGATG-ATAAGTCCTTTGGGCCATCTA
1 TAAGCCTTTCGAGCAAGATGCATAAATCCTTCAGGCCATCTA
58189 TAAGACCTT
1 TAAG-CCTT
58198 CGGGCAGGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 20 0.48
42 22 0.52
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (42 bp):
TAAGCCTTTCGAGCAAGATGCATAAATCCTTCAGGCCATCTA
Found at i:58402 original size:42 final size:41
Alignment explanation
Indices: 58356--58468 Score: 93
Period size: 42 Copynumber: 2.7 Consensus size: 41
58346 AAGGGTTTCT
* *
58356 TGATGAGTAAGTCCTTCAGGCCATC-AGTAAGTCTTTCGAGCA
1 TGATGA-TAAGTCCTTCAGGCCATCTA-TAAGTATTTCAAGCA
* * * *
58398 TGATGCTTAAATCCTTCGGGTCATCTATAAGTATTTCAAGCA
1 TGATG-ATAAGTCCTTCAGGCCATCTATAAGTATTTCAAGCA
* * ** *
58440 AGATGATAAGTACTTTGGGCCATCCATAA
1 TGATGATAAGTCCTTCAGGCCATCTATAA
58469 AACCTTCGAG
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
41 18 0.32
42 37 0.66
43 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
TGATGATAAGTCCTTCAGGCCATCTATAAGTATTTCAAGCA
Found at i:58547 original size:277 final size:276
Alignment explanation
Indices: 58047--58783 Score: 1046
Period size: 277 Copynumber: 2.6 Consensus size: 276
58037 CGAAAGATTT
* * ** *
58047 TAAGAAACTAAACTTGATTTTCAAGGGTTTCTTGTTGAGTAAGTTATTCGGACTATCAGTAAGTC
1 TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGG-CCATCAGTAAGTC
* * *
58112 TTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCT
65 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTACT
*
58177 TTGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTAAT
130 TTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTAAT
* * *
58242 ATTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGG
195 ATTTAGGGGTTTCTTGATGATGATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAATTTTTAGA
58307 GGTTCCTTGATGACAAC
260 GGTTCCTTGATGACAAC
58324 TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTC
1 TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTC-GGCCATCAGTAAGTC
* *
58389 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTATTTCAAGCAAGATGATAAGTACT
65 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTACT
* * * *
58454 TTGGGCCATCCATAAAACCTTCGAGCAGGATGTTTTCAAGTGAGTTTTTAGAAACTAAGCCTGAT
130 TTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTAAT
* * *
58519 TTTTGGGGGTTTCTTGATGATGATCTCCAAATAATTTTTAAAGAAAGCTAAGCCTAATTTTTAGA
195 ATTTAGGGGTTTCTTGATGATGATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAATTTTTAGA
*
58584 TGTTCCTTGATGACAAC
260 GGTTCCTTGATGACAAC
*
58601 TGAAAACGAAACATTTTAAGAAGCTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTCAGTCCTTC
1 T---AA-G----------A-AA-CTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTC
*
58666 GAGCCATCAGTAAGTCTTTCGAGCATGATGCTGAAATCCTTCGGGTCATC--TAAGTCTTTCGAG
50 G-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAG
* **
58729 CAAGATGATAAGTTCTTTAAGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAA
114 CAAGATGATAAGTACTTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAA
58784 CATTTTCGGT
Statistics
Matches: 411, Mismatches: 31, Indels: 22
0.89 0.07 0.05
Matches are distributed among these distances:
277 253 0.62
278 2 0.00
280 2 0.00
281 1 0.00
291 62 0.15
292 3 0.01
293 88 0.21
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (276 bp):
TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGCCATCAGTAAGTCT
TTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTACTT
TGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTAATA
TTTAGGGGTTTCTTGATGATGATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAATTTTTAGAG
GTTCCTTGATGACAAC
Found at i:64128 original size:24 final size:25
Alignment explanation
Indices: 64101--64157 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
64091 AAATTAATTT
*
64101 ATTATTTAAAATAA-GTTCATCTGA
1 ATTATTTAAAATAACGTTCATATGA
*
64125 ATTATATTTAAAATAACTTTCATATGA
1 A-T-TATTTAAAATAACGTTCATATGA
64152 ATTATT
1 ATTATT
64158 ATTTAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 5 0.18
26 13 0.46
27 9 0.32
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (25 bp):
ATTATTTAAAATAACGTTCATATGA
Found at i:64136 original size:26 final size:28
Alignment explanation
Indices: 64099--64163 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
64089 TTAAATTAAT
*
64099 TTATTATTTAAAATAA-GTTCATCTGAA
1 TTATTATTTAAAATAACGTTCATATGAA
*
64126 TTA-TATTTAAAATAACTTTCATATGAA
1 TTATTATTTAAAATAACGTTCATATGAA
64153 TTATTATTTAA
1 TTATTATTTAA
64164 GATTTGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 12 0.35
27 15 0.44
28 7 0.21
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATTATTTAAAATAACGTTCATATGAA
Found at i:64903 original size:43 final size:40
Alignment explanation
Indices: 64775--64904 Score: 127
Period size: 41 Copynumber: 3.1 Consensus size: 40
64765 ATCGTGACGT
*
64775 TTTTAGAC-AAACGCCACTAAAACCTAGTACTTTAGTGGCG
1 TTTTA-ACAAAACGCCACTAAAACATAGTACTTTAGTGGCG
* * *
64815 TTTTCAACAAAACGCCACTAAGACATAATACTTTAATGGCG
1 TTTT-AACAAAACGCCACTAAAACATAGTACTTTAGTGGCG
* * * * *
64856 TTTTAAGCAAAAAGTGCCGCTAAAACGTAGTACTTTAGTAGCA
1 TTTTAA-C-AAAA-CGCCACTAAAACATAGTACTTTAGTGGCG
64899 TTTTAA
1 TTTTAA
64905 TTAAAAAAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 8 0.11
41 34 0.47
42 4 0.05
43 27 0.37
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (40 bp):
TTTTAACAAAACGCCACTAAAACATAGTACTTTAGTGGCG
Found at i:67448 original size:47 final size:46
Alignment explanation
Indices: 67380--67474 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 46
67370 TCTTCGATGA
67380 GGATTTGGTTCCTACAAGGAAGGAATT-TGAATTACAATAATTGCAT
1 GGATTTGGTTCCTACAAGGAAGGAATTCTGAATTACAATAATT-CAT
* *
67426 GGATTATGGTTCCTGCAGGGAAGGAATTCTGAATTACAATAATTCAT
1 GGATT-TGGTTCCTACAAGGAAGGAATTCTGAATTACAATAATTCAT
67473 GG
1 GG
67475 GTTAATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 5 0.11
47 25 0.56
48 15 0.33
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (46 bp):
GGATTTGGTTCCTACAAGGAAGGAATTCTGAATTACAATAATTCAT
Found at i:68416 original size:42 final size:42
Alignment explanation
Indices: 68359--68602 Score: 231
Period size: 42 Copynumber: 5.8 Consensus size: 42
68349 ATGTAATTAA
* * **
68359 CGGCATTTGTATCCAAAAATGATGCTATAGATCTGATCTTTTG
1 CGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGATCTTTTG
*
68402 CGGCGTTTGTTCCAAAAACGCCGCGATAGATCTCGATCTTTTG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GATCTTTTG
* * * * *
68445 CGGCGTTTGTTCC-AAAATGCCACTATAGCTCTCAAATTTTTTG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCT--GATCTTTTG
* ** * * * *
68488 TGGAATTTGTTACAAAAACGCCTCTATAGATCTAACCTTTTG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGATCTTTTG
* * * * * *
68530 TGACGTTTGTTACAAAAACGCCGTTATAGGTCTGACCTTTTG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGATCTTTTG
68572 CGGCGTTTG-TCCAAAAACGCCGCTATAGATC
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATC
68603 GACATTTGTT
Statistics
Matches: 165, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
41 19 0.12
42 83 0.50
43 47 0.28
44 16 0.10
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGATCTTTTG
Found at i:70092 original size:16 final size:17
Alignment explanation
Indices: 70071--70103 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
70061 ATGATTCAGG
70071 TGTTCAAATTTA-ATCA
1 TGTTCAAATTTATATCA
*
70087 TGTTCAGATTTATATCA
1 TGTTCAAATTTATATCA
70104 AGTATCAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (17 bp):
TGTTCAAATTTATATCA
Done.