Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008306.1 Hibiscus syriacus cultivar Beakdansim tig00110996_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: 149393
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:9203 original size:16 final size:16
Alignment explanation
Indices: 9182--9215 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9172 TAGCTCGCGC
9182 GTTGTCTCCAATTTGA
1 GTTGTCTCCAATTTGA
9198 GTTGTCTCCAATTTGA
1 GTTGTCTCCAATTTGA
9214 GT
1 GT
9216 AGCAAACGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (16 bp):
GTTGTCTCCAATTTGA
Found at i:15562 original size:46 final size:46
Alignment explanation
Indices: 15490--15586 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
15480 TCAAGATCAG
*
15490 GTTCGATTCTCATCGAGATACCATAATTCGAGTGCGAGCTTATTTA
1 GTTCCATTCTCATCGAGATACCATAATTCGAGTGCGAGCTTATTTA
* *
15536 GTTCCATTCTCATTGAGATACCATAATTCGAGTGCGAGCTTTTTTA
1 GTTCCATTCTCATCGAGATACCATAATTCGAGTGCGAGCTTATTTA
15582 GTTCC
1 GTTCC
15587 TAAACTAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (46 bp):
GTTCCATTCTCATCGAGATACCATAATTCGAGTGCGAGCTTATTTA
Found at i:17904 original size:11 final size:11
Alignment explanation
Indices: 17888--17981 Score: 120
Period size: 11 Copynumber: 8.7 Consensus size: 11
17878 TTAGTTAGTA
17888 TTTGTTATTAG
1 TTTGTTATTAG
*
17899 TTTGTTATCAG
1 TTTGTTATTAG
*
17910 TTTGTTA-TGG
1 TTTGTTATTAG
*
17920 TTTGTTATCAG
1 TTTGTTATTAG
*
17931 CTTGTTATTAG
1 TTTGTTATTAG
*
17942 TTTGTTA-TGG
1 TTTGTTATTAG
17952 TTTGTTATTAG
1 TTTGTTATTAG
*
17963 CTTGTTATTAG
1 TTTGTTATTAG
17974 TTTGTTAT
1 TTTGTTAT
17982 GGTGTGTTGC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
10 17 0.25
11 52 0.75
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.60
Consensus pattern (11 bp):
TTTGTTATTAG
Found at i:17922 original size:21 final size:22
Alignment explanation
Indices: 17888--17981 Score: 129
Period size: 21 Copynumber: 4.4 Consensus size: 22
17878 TTAGTTAGTA
17888 TTTGTTATTAGTTTGTTATCAG
1 TTTGTTATTAGTTTGTTATCAG
*
17910 TTTGTTA-TGGTTTGTTATCAG
1 TTTGTTATTAGTTTGTTATCAG
* *
17931 CTTGTTATTAGTTTGTTAT-GG
1 TTTGTTATTAGTTTGTTATCAG
* *
17952 TTTGTTATTAGCTTGTTATTAG
1 TTTGTTATTAGTTTGTTATCAG
17974 TTTGTTAT
1 TTTGTTAT
17982 GGTGTGTTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
21 37 0.59
22 26 0.41
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.60
Consensus pattern (22 bp):
TTTGTTATTAGTTTGTTATCAG
Found at i:17936 original size:32 final size:32
Alignment explanation
Indices: 17888--17989 Score: 168
Period size: 32 Copynumber: 3.2 Consensus size: 32
17878 TTAGTTAGTA
* *
17888 TTTGTTATTAGTTTGTTATCAGTTTGTTATGG
1 TTTGTTATTAGCTTGTTATTAGTTTGTTATGG
*
17920 TTTGTTATCAGCTTGTTATTAGTTTGTTATGG
1 TTTGTTATTAGCTTGTTATTAGTTTGTTATGG
17952 TTTGTTATTAGCTTGTTATTAGTTTGTTATGG
1 TTTGTTATTAGCTTGTTATTAGTTTGTTATGG
*
17984 TGTGTT
1 TTTGTT
17990 GCTTACTTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.15, C:0.04, G:0.23, T:0.59
Consensus pattern (32 bp):
TTTGTTATTAGCTTGTTATTAGTTTGTTATGG
Found at i:19364 original size:36 final size:36
Alignment explanation
Indices: 19317--19781 Score: 537
Period size: 36 Copynumber: 12.9 Consensus size: 36
19307 TGGTAAAGTT
* * *
19317 AGCATCGGCACTTTCGATTCAAGTCGAACGGGAGGA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
19353 AGCATC-AGCACTTCCGATTCAAGTCGAACGGAAGGA
1 AGCATCGA-CACTTCCGATTCAAGTCGAACGGAAGGA
* *
19389 GGCATCGACACTTCCGATTCAAGTCGAACGGAAAGA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* * * * *
19425 GGCATTGGCACTTTCGATTCAAGTCGAATGGAA-GA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
*
19460 AGGCATCGACACTTCCGATTCAAGTCGAACGAAAGGA
1 A-GCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* * * *
19497 GGGATCGACACTTCCGATTCAAGTCGAA-AGAAAGA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* *
19532 AGGCATCGACACTTCCGATTCAAGTAGAACGGAA-TA
1 A-GCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* *
19568 AGGCATCGACACTTCCGATTCAAGTCAAACGGAA-TA
1 A-GCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* * *
19604 AGGCATCGGCACTTCCAATTCAAGTCGAAAGGAAGGA
1 A-GCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* * * *
19641 GGCATCGACACTTTCGATTCAAGTCGAACAGAATGA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
* * *
19677 GGCATC-AGCACTTCAGATTCAAATCGAACGGAAGGA
1 AGCATCGA-CACTTCCGATTCAAGTCGAACGGAAGGA
* * *
19713 AGCATCGACACTTTCGATTCAAATCAAACGGAAGGA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
*
19749 AGCATCGCCACTTCCGATTCAAGTCGAACGGAA
1 AGCATCGACACTTCCGATTCAAGTCGAACGGAA
19782 AGATGTATCA
Statistics
Matches: 368, Mismatches: 52, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.02
36 353 0.96
37 8 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (36 bp):
AGCATCGACACTTCCGATTCAAGTCGAACGGAAGGA
Found at i:19902 original size:11 final size:11
Alignment explanation
Indices: 19886--19968 Score: 98
Period size: 11 Copynumber: 7.7 Consensus size: 11
19876 TTAGTTAGTA
19886 TTTGTTATTAG
1 TTTGTTATTAG
*
19897 TTTGTTATCAG
1 TTTGTTATTAG
*
19908 TTTGTTA-TGG
1 TTTGTTATTAG
*
19918 TTTGTTATCAG
1 TTTGTTATTAG
*
19929 CTTGTTATTAG
1 TTTGTTATTAG
*
19940 TTTGTTA-TGG
1 TTTGTTATTAG
19950 TTTGTTATTAG
1 TTTGTTATTAG
*
19961 CTTGTTAT
1 TTTGTTAT
19969 GGTGTGTTGC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
10 17 0.29
11 42 0.71
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (11 bp):
TTTGTTATTAG
Found at i:19934 original size:32 final size:32
Alignment explanation
Indices: 19886--19968 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
19876 TTAGTTAGTA
*
19886 TTTGTTATTAGTTTGTTATCAGTTTGTTATGG
1 TTTGTTATTAGCTTGTTATCAGTTTGTTATGG
* *
19918 TTTGTTATCAGCTTGTTATTAGTTTGTTATGG
1 TTTGTTATTAGCTTGTTATCAGTTTGTTATGG
19950 TTTGTTATTAGCTTGTTAT
1 TTTGTTATTAGCTTGTTAT
19969 GGTGTGTTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (32 bp):
TTTGTTATTAGCTTGTTATCAGTTTGTTATGG
Found at i:19971 original size:21 final size:22
Alignment explanation
Indices: 19886--19968 Score: 116
Period size: 21 Copynumber: 3.9 Consensus size: 22
19876 TTAGTTAGTA
19886 TTTGTTATTAGTTTGTTATCAG
1 TTTGTTATTAGTTTGTTATCAG
*
19908 TTTGTTA-TGGTTTGTTATCAG
1 TTTGTTATTAGTTTGTTATCAG
* *
19929 CTTGTTATTAGTTTGTTAT-GG
1 TTTGTTATTAGTTTGTTATCAG
*
19950 TTTGTTATTAGCTTGTTAT
1 TTTGTTATTAGTTTGTTAT
19969 GGTGTGTTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
21 37 0.69
22 17 0.31
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (22 bp):
TTTGTTATTAGTTTGTTATCAG
Found at i:19976 original size:21 final size:21
Alignment explanation
Indices: 19931--19976 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
19921 GTTATCAGCT
* *
19931 TGTTATTAGTTTGTTATGGTT
1 TGTTATTAGCTTGTTATGGTG
19952 TGTTATTAGCTTGTTATGGTG
1 TGTTATTAGCTTGTTATGGTG
19973 TGTT
1 TGTT
19977 GCTTACTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.02, G:0.26, T:0.59
Consensus pattern (21 bp):
TGTTATTAGCTTGTTATGGTG
Found at i:20385 original size:59 final size:60
Alignment explanation
Indices: 20313--20439 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
20303 AGTTTGGGGT
* * *
20313 TTAATTTAGAATGA-TGTCATAGTTTAAAG-ATTAAATTAAAATGTTCAAAAATTTAGAA-A
1 TTAATTTAAAATGAGAGTCATAGTTT-AAGTATGAAATTAAAATGTTCAAAAATTTA-AATA
* * *
20372 TTAATTTAAAATGAGAGTTATAGTTTGAGTATGAAATTGAAATGTTCAAAAATTTAAATA
1 TTAATTTAAAATGAGAGTCATAGTTTAAGTATGAAATTAAAATGTTCAAAAATTTAAATA
20432 TTAATTTA
1 TTAATTTA
20440 GAATAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 17 0.29
60 42 0.71
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (60 bp):
TTAATTTAAAATGAGAGTCATAGTTTAAGTATGAAATTAAAATGTTCAAAAATTTAAATA
Found at i:31284 original size:13 final size:13
Alignment explanation
Indices: 31266--31290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31256 GTTTTTAAAT
31266 TTTTTTTAATTTA
1 TTTTTTTAATTTA
31279 TTTTTTTAATTT
1 TTTTTTTAATTT
31291 GAGTGAGTTA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTAATTTA
Found at i:32491 original size:17 final size:17
Alignment explanation
Indices: 32469--32508 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
32459 ATCGAGAAGA
32469 ATAGGTTGCAAAATAGC
1 ATAGGTTGCAAAATAGC
32486 ATAGGTTGCAAAATAGC
1 ATAGGTTGCAAAATAGC
32503 ATAGGT
1 ATAGGT
32509 GGCTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (17 bp):
ATAGGTTGCAAAATAGC
Found at i:33824 original size:31 final size:29
Alignment explanation
Indices: 33755--33837 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 29
33745 TTTAGGTAAG
*
33755 AAAATGAAACAAAAAGTTAACAATGTGGTACT
1 AAAATGAAACAAAAAG-T-A-AACGTGGTACT
*
33787 AAAATGAAACAAAAAGTAAACGTCGAGTATT
1 AAAATGAAACAAAAAGTAAACGT-G-GTACT
* *
33818 AAAATGAACCAAAAAATAAA
1 AAAATGAAACAAAAAGTAAA
33838 TATTAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 4 0.09
30 2 0.04
31 23 0.51
32 16 0.36
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.18
Consensus pattern (29 bp):
AAAATGAAACAAAAAGTAAACGTGGTACT
Found at i:34500 original size:13 final size:12
Alignment explanation
Indices: 34479--34510 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
34469 GAGAATGATC
34479 AAAATAAAATTA
1 AAAATAAAATTA
34491 AAACATAAAATTA
1 AAA-ATAAAATTA
34504 AAAATAA
1 AAAATAA
34511 TTTTTTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:35828 original size:18 final size:18
Alignment explanation
Indices: 35800--35850 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 18
35790 TTTATTAAAA
35800 AATTATTATCAGATCTTTT
1 AATT-TTATCAGATCTTTT
35819 AATTTTATCAATCAGATCTTTT
1 AA-TTT-T--ATCAGATCTTTT
35841 AATTTTATCA
1 AATTTTATCA
35851 ATCAGATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 4 0.14
21 3 0.11
22 14 0.50
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (18 bp):
AATTTTATCAGATCTTTT
Found at i:35832 original size:22 final size:22
Alignment explanation
Indices: 35807--35866 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
35797 AAAAATTATT
35807 ATCAGATCTTTTAATTTTATCA
1 ATCAGATCTTTTAATTTTATCA
35829 ATCAGATCTTTTAATTTTATCA
1 ATCAGATCTTTTAATTTTATCA
*
35851 ATCAGATCATTTAATT
1 ATCAGATCTTTTAATT
35867 ATTTAATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.48
Consensus pattern (22 bp):
ATCAGATCTTTTAATTTTATCA
Found at i:38915 original size:15 final size:16
Alignment explanation
Indices: 38892--38921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38882 ACTTTACTCG
38892 CCCTGCATCTGCCTGC
1 CCCTGCATCTGCCTGC
38908 CCCT-CATCTGCCTG
1 CCCTGCATCTGCCTG
38922 GCCACTAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.50, G:0.17, T:0.27
Consensus pattern (16 bp):
CCCTGCATCTGCCTGC
Found at i:53217 original size:35 final size:35
Alignment explanation
Indices: 53168--53237 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
53158 TATTATTTTG
*
53168 ATTATTTTGAAATTTGGGGTTTAGAATGTAATTGA
1 ATTATTTTGAAATTTGGGGTTTAGAATGAAATTGA
*
53203 ATTATTTTGGAATTTGGGGTTTAGAATGAAATTGA
1 ATTATTTTGAAATTTGGGGTTTAGAATGAAATTGA
53238 GGACTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
ATTATTTTGAAATTTGGGGTTTAGAATGAAATTGA
Found at i:54557 original size:51 final size:51
Alignment explanation
Indices: 54493--54737 Score: 345
Period size: 51 Copynumber: 4.9 Consensus size: 51
54483 AGATGTACAT
** *
54493 ACTTACATTGGTGTAAGTATGTGTTAAGTACTACACTTTTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
54544 ACTTACACCGGTGT-AGTATGTGTTAAGTGCTACGCTTTTTTATTTCATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
54594 ACTTACAAC-GTGTAA-TATGTGTTAAGTGCTACACTTTTTTGTTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * *
54643 ACTTACACCGGTGTAATTATGTGTTAAGTGTTACACTTGTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
54694 ACTTACACTGGTGTAAGTATG-GTTTAAGTGCTACATTTTTTTAT
1 ACTTACACCGGTGTAAGTATGTG-TTAAGTGCTACACTTTTTTAT
54738 AGTATGAATT
Statistics
Matches: 172, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
49 43 0.25
50 49 0.28
51 80 0.47
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (51 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:69158 original size:21 final size:22
Alignment explanation
Indices: 69132--69172 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
69122 CATGGACATG
69132 GAGTATCAGTACT-CCTTTAAT
1 GAGTATCAGTACTACCTTTAAT
*
69153 GAGTATCGGTACTACCTTTA
1 GAGTATCAGTACTACCTTTA
69173 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGTATCAGTACTACCTTTAAT
Found at i:69921 original size:2 final size:2
Alignment explanation
Indices: 69914--69945 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
69904 GGCGAGACTA
69914 AT AT 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 AT AT
69946 CACAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73213 original size:24 final size:25
Alignment explanation
Indices: 73180--73226 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
73170 TCGATCGCGA
73180 GTTAGAAAATATTTGATT-CTTGATC
1 GTTAGAAAATATTTG-TTGCTTGATC
*
73205 GTTA-AAAATTTTTGTTGCTTGA
1 GTTAGAAAATATTTGTTGCTTGA
73227 CTCGACTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (25 bp):
GTTAGAAAATATTTGTTGCTTGATC
Found at i:73572 original size:30 final size:29
Alignment explanation
Indices: 73536--73633 Score: 97
Period size: 30 Copynumber: 3.7 Consensus size: 29
73526 TGAATTAATT
73536 TTAATAAATCTACTAATATGAAAATATGAA
1 TTAATAAATCTACTAATAT-AAAATATGAA
*
73566 TTAATAAATATACTAATAT----TATGAA
1 TTAATAAATCTACTAATATAAAATATGAA
*
73591 TTAAT-AA--TA-TGA-ATAAAATATGAA
1 TTAATAAATCTACTAATATAAAATATGAA
*
73615 TTGATAAATCTACTAATAT
1 TTAATAAATCTACTAATAT
73634 TATATAAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 2 0.04
24 12 0.22
25 13 0.24
27 2 0.04
28 2 0.04
29 2 0.04
30 18 0.33
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (29 bp):
TTAATAAATCTACTAATATAAAATATGAA
Found at i:73594 original size:25 final size:25
Alignment explanation
Indices: 73560--73636 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
73550 AATATGAAAA
73560 TATGAATTAATAAATATACTAATAT
1 TATGAATTAATAAATATACTAATAT
* *
73585 TATGAATTAAT-AATATGAATAA-AA
1 TATGAATTAATAAATAT-ACTAATAT
* *
73609 TATGAATTGATAAATCTACTAATAT
1 TATGAATTAATAAATATACTAATAT
73634 TAT
1 TAT
73637 ATAAAGCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
24 20 0.47
25 23 0.53
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
TATGAATTAATAAATATACTAATAT
Found at i:73612 original size:11 final size:12
Alignment explanation
Indices: 73558--73615 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
73548 CTAATATGAA
73558 AATATGAATTAAT
1 AATATGAA-TAAT
*
73571 AAATAT-ACTAAT
1 -AATATGAATAAT
*
73583 ATTATGAATTAAT
1 AATATGAA-TAAT
73596 AATATGAATAA-
1 AATATGAATAAT
73607 AATATGAAT
1 AATATGAAT
73616 TGATAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 13 0.34
12 8 0.21
13 12 0.32
14 5 0.13
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (12 bp):
AATATGAATAAT
Found at i:73612 original size:24 final size:23
Alignment explanation
Indices: 73556--73621 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
73546 TACTAATATG
*
73556 AAAATATGAATTAATAAATATACT
1 AAAATATGAATTAAT-AATATAAT
*
73580 AATATTATGAATTAATAATATGAAT
1 AA-AATATGAATTAATAATAT-AAT
*
73605 AAAATATGAATTGATAA
1 AAAATATGAATTAATAA
73622 ATCTACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 20 0.56
25 16 0.44
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (23 bp):
AAAATATGAATTAATAATATAAT
Found at i:80797 original size:21 final size:21
Alignment explanation
Indices: 80763--80813 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
80753 CTCTGAGAGA
*
80763 TGGAGAT-AGATGGATTTCGT
1 TGGAGATGGGATGGATTTCGT
80783 TGGAGATGGGATGGATTTCGT
1 TGGAGATGGGATGGATTTCGT
*
80804 CGGAGATGGG
1 TGGAGATGGG
80814 GACGGATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.22, C:0.06, G:0.43, T:0.29
Consensus pattern (21 bp):
TGGAGATGGGATGGATTTCGT
Found at i:80820 original size:22 final size:21
Alignment explanation
Indices: 80774--80826 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
80764 GGAGATAGAT
* *
80774 GGATTTCGTTGGAGATGGGAT
1 GGATTTCGTCGGAGATGGGAC
80795 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGAT-GGGAC
*
80817 GGATGTCGTC
1 GGATTTCGTC
80827 ATAGAGAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.17, C:0.11, G:0.43, T:0.28
Consensus pattern (21 bp):
GGATTTCGTCGGAGATGGGAC
Found at i:80960 original size:20 final size:20
Alignment explanation
Indices: 80935--81041 Score: 133
Period size: 20 Copynumber: 5.3 Consensus size: 20
80925 TGTGTTTCGC
80935 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
80955 GTTGCGAATTTGGCTATCGC
1 GTTGCGAATTTGACTTTTGT
80975 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
80995 GTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
81015 GTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTTTGT
81035 GTTGCGA
1 GTTGCGA
81042 TTTACAAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:80975 original size:40 final size:40
Alignment explanation
Indices: 80931--81062 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
80921 ATATTGTGTT
*
80931 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGGCTA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
*
80971 TCGCGTTGCGAATTTGACTTTTGTGTTGCAAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
* *
81011 TCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACAAA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC-TA
81050 TTCGCGTTGCGAA
1 -TCGCGTTGCGAA
81063 ATTGGAAACT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
38 2 0.02
39 5 0.06
40 78 0.92
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
Found at i:81079 original size:80 final size:80
Alignment explanation
Indices: 80930--81106 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 80
80920 AATATTGTGT
* * * * *** *
80930 TTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGGCTATCGCGTTGCGAATTTGACTTTTGT
1 TTCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACAATCGCGTTGCGAATTGGACAACTGG
*
80995 GTTGC-AAATTTGAC
66 GTTGCGAAATTGGAC
81009 TATCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACAAATTCGCGTTGCGAAATTGGA-AA
1 T-TCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGAC-AA-TCGCGTTGCG-AATTGGACAA
*
81071 CTGGGTTGCGAAATTGGAG
62 CTGGGTTGCGAAATTGGAC
81090 TTCGCGTTGCGAATTTG
1 TTCGCGTTGCGAATTTG
81107 TTGGTCATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 6 0.07
80 62 0.75
81 14 0.17
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (80 bp):
TTCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACAATCGCGTTGCGAATTGGACAACTGG
GTTGCGAAATTGGAC
Found at i:81098 original size:20 final size:19
Alignment explanation
Indices: 81049--81102 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
81039 CGATTTACAA
81049 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
81068 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
81088 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
81103 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:88974 original size:25 final size:24
Alignment explanation
Indices: 88946--88999 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 24
88936 GTTGAGGGGG
88946 CTGATAGATAATTTGTTACTTCTAA
1 CTGAT-GATAATTTGTTACTTCTAA
*
88971 C---TGATAATTTGTTATTTCTAA
1 CTGATGATAATTTGTTACTTCTAA
88992 CTGATGAT
1 CTGATGAT
89000 TCCAATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 19 0.76
22 1 0.04
24 4 0.16
25 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (24 bp):
CTGATGATAATTTGTTACTTCTAA
Found at i:88978 original size:21 final size:21
Alignment explanation
Indices: 88952--88996 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
88942 GGGGCTGATA
88952 GATAATTTGTTACTTCTAACT
1 GATAATTTGTTACTTCTAACT
*
88973 GATAATTTGTTATTTCTAACT
1 GATAATTTGTTACTTCTAACT
88994 GAT
1 GAT
88997 GATTCCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (21 bp):
GATAATTTGTTACTTCTAACT
Found at i:89412 original size:20 final size:20
Alignment explanation
Indices: 89389--89434 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
89379 GTTTGCAAAT
*
89389 TCGCAAATCGAATATGTAAA
1 TCGCAAAGCGAATATGTAAA
* *
89409 TCGCAACGCGAATCTGTAAA
1 TCGCAAAGCGAATATGTAAA
89429 TCGCAA
1 TCGCAA
89435 CACAGAAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
TCGCAAAGCGAATATGTAAA
Found at i:89435 original size:20 final size:20
Alignment explanation
Indices: 89397--89435 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
89387 ATTCGCAAAT
89397 CGAATATGTAAATCGCAACG
1 CGAATATGTAAATCGCAACG
*
89417 CGAATCTGTAAATCGCAAC
1 CGAATATGTAAATCGCAAC
89436 ACAGAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CGAATATGTAAATCGCAACG
Found at i:89452 original size:20 final size:20
Alignment explanation
Indices: 89429--89494 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
89419 AATCTGTAAA
89429 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
89449 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
89469 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
89489 TCGCAA
1 TCGCAA
89495 AGCGCGTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.45, C:0.26, G:0.14, T:0.15
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:90035 original size:20 final size:20
Alignment explanation
Indices: 90010--90073 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
90000 AAACTTAAAT
90010 TCGCAACACGAAAAAGAAAA
1 TCGCAACACGAAAAAGAAAA
90030 TCGCAACACGAAAAAGAAAA
1 TCGCAACACGAAAAAGAAAA
* *
90050 TTGCAACACGAAAATGAAAA
1 TCGCAACACGAAAAAGAAAA
90070 TCGC
1 TCGC
90074 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.55, C:0.20, G:0.16, T:0.09
Consensus pattern (20 bp):
TCGCAACACGAAAAAGAAAA
Found at i:91810 original size:21 final size:21
Alignment explanation
Indices: 91761--91810 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
91751 GTTAGGGGAG
* *
91761 TTATGTGATGAGGTCAATGCT
1 TTATGTGAGGAGGTCAATACT
** *
91782 TTGCGTGAGGAGGTCAGTACT
1 TTATGTGAGGAGGTCAATACT
91803 TTATGTGA
1 TTATGTGA
91811 AGACAATGGT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (21 bp):
TTATGTGAGGAGGTCAATACT
Found at i:92222 original size:21 final size:22
Alignment explanation
Indices: 92189--92286 Score: 105
Period size: 21 Copynumber: 4.6 Consensus size: 22
92179 TGATTCACCT
* *
92189 GTCATCATTCAAGAGGCCTCTC
1 GTCATCGTTCAAGAGGCCCCTC
*
92211 GT-ATCGTTCAAGAGG-CCCTT
1 GTCATCGTTCAAGAGGCCCCTC
* *
92231 ATCATCCTTCAAGAGGCCCCTC
1 GTCATCGTTCAAGAGGCCCCTC
* *
92253 -CCACCGTTCAAGAGGCCCCT-
1 GTCATCGTTCAAGAGGCCCCTC
92273 GTCATCGTTCAAGA
1 GTCATCGTTCAAGA
92287 AGTCCCTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.06
21 52 0.84
22 6 0.10
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.24
Consensus pattern (22 bp):
GTCATCGTTCAAGAGGCCCCTC
Found at i:92248 original size:42 final size:42
Alignment explanation
Indices: 92190--92308 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
92180 GATTCACCTG
* ** * *
92190 TCATCATTCAAGAGGCCTCTCGTATCGTTCAAGAGGCCCTTA
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* *
92232 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* * * * *
92274 TCATCGTTCAAGAAGTCCCTCACACCGTTCGAGAG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAG
92309 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:92302 original size:21 final size:21
Alignment explanation
Indices: 92196--92308 Score: 86
Period size: 21 Copynumber: 5.4 Consensus size: 21
92186 CCTGTCATCA
* ** *
92196 TTCAAGAGGCCTCTCGTATCG
1 TTCAAGAGGCCCCTCACACCG
*
92217 TTCAAGAGG-CCCTTATCATCC-
1 TTCAAGAGGCCCCTCA-CA-CCG
*
92238 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCACACCG
** *
92259 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCACACCG
* *
92280 TTCAAGAAGTCCCTCACACCG
1 TTCAAGAGGCCCCTCACACCG
*
92301 TTCGAGAG
1 TTCAAGAG
92309 CCCGATTCAC
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.07
21 61 0.86
22 5 0.07
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCACACCG
Found at i:93720 original size:50 final size:50
Alignment explanation
Indices: 93665--93773 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
93655 TTTGTAAAAG
93665 TTGATTTGTTTAATTGATG-AGGAAATAAGAATTATTTTTTCCTTGTTTAA
1 TTGATTTGTTTAATTGATGTA-GAAATAAGAATTATTTTTTCCTTGTTTAA
* *** *
93715 TTGATTTGTTTAATTGATGTATAAATAATTCTTATTTTTTGCTTGTTTAA
1 TTGATTTGTTTAATTGATGTAGAAATAAGAATTATTTTTTCCTTGTTTAA
93765 TTGATTTGT
1 TTGATTTGT
93774 AAAAGTTGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.55
Consensus pattern (50 bp):
TTGATTTGTTTAATTGATGTAGAAATAAGAATTATTTTTTCCTTGTTTAA
Found at i:93725 original size:13 final size:13
Alignment explanation
Indices: 93707--93732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93697 TATTTTTTCC
93707 TTGTTTAATTGAT
1 TTGTTTAATTGAT
93720 TTGTTTAATTGAT
1 TTGTTTAATTGAT
93733 GTATAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGTTTAATTGAT
Found at i:93872 original size:20 final size:20
Alignment explanation
Indices: 93847--93952 Score: 122
Period size: 20 Copynumber: 5.2 Consensus size: 20
93837 AAGGTACACT
*
93847 TTCGCAACACGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
**
93867 TTCGCAACATGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*** *
93887 TTCGCGTTGCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
93907 TTCGCAACGCGAAAGTCAAAA
1 TTCGCAACGCGAAAGTC-AAA
**
93928 TTCGCAACGTAAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
93948 TTCGC
1 TTCGC
93953 GTTGCGATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 54 0.75
21 18 0.25
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:93946 original size:61 final size:60
Alignment explanation
Indices: 93847--93960 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 60
93837 AAGGTACACT
*
93847 TTCGCAACACGAAAGTCAAATTCGCAACATGAAAGTCAAATTCGCGTTGCGATAGTCAAA
1 TTCGCAACACGAAAGTCAAATTCGCAACATAAAAGTCAAATTCGCGTTGCGATAGTCAAA
* *
93907 TTCGCAACGCGAAAGTCAAAATTCGCAACGTAAAAGTCAAATTCGCGTTGCGAT
1 TTCGCAACACGAAAGTC-AAATTCGCAACATAAAAGTCAAATTCGCGTTGCGAT
93961 TTTCACGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
60 16 0.32
61 34 0.68
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (60 bp):
TTCGCAACACGAAAGTCAAATTCGCAACATAAAAGTCAAATTCGCGTTGCGATAGTCAAA
Found at i:93982 original size:13 final size:14
Alignment explanation
Indices: 93948--93982 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
93938 AAAAGTCAAA
93948 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
*
93962 TTCACGTTGCGA-T
1 TTCGCGTTGCGATT
93975 TTCGCGTT
1 TTCGCGTT
93983 TCGAATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.09, C:0.23, G:0.26, T:0.43
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:93990 original size:14 final size:14
Alignment explanation
Indices: 93948--93990 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93938 AAAAGTCAAA
*
93948 TTCGCGTTGCGATT
1 TTCGCGTTGCGAAT
*
93962 TTCACGTTGCG-AT
1 TTCGCGTTGCGAAT
*
93975 TTCGCGTTTCGAAT
1 TTCGCGTTGCGAAT
93989 TT
1 TT
93991 GTCTTTCGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (14 bp):
TTCGCGTTGCGAAT
Found at i:94665 original size:17 final size:20
Alignment explanation
Indices: 94637--94683 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
94627 AAAACATTTG
* *
94637 TGTTGGGAAAATAAAA-TC-
1 TGTTGCGAAATTAAAATTCA
94655 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAATTCA
94675 TGTTGCGAA
1 TGTTGCGAA
94684 TTCGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 9 0.36
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTTGCGAAATTAAAATTCA
Found at i:94699 original size:20 final size:20
Alignment explanation
Indices: 94676--94849 Score: 131
Period size: 20 Copynumber: 8.7 Consensus size: 20
94666 TAAAATTCAT
*
94676 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAAATCGA
*
94696 GTTGCGAA-TTCAGAAATCGA
1 GTTGCGAATTTGA-AAATCGA
* *
94716 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAAATC-GA
* *
94737 GTTACGAATTTGTAAATCGCA
1 GTTGCGAATTTGAAAATCG-A
** * *
94758 -ACGCGAATTTGTAGATC-A
1 GTTGCGAATTTGAAAATCGA
* *
94776 CCTTGCGAATTTGGAAATC-A
1 -GTTGCGAATTTGAAAATCGA
* * *
94796 CATTGCGAATTTGGAAATCGC
1 -GTTGCGAATTTGAAAATCGA
*
94817 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGA
94837 GTTGCGAATTTGA
1 GTTGCGAATTTGA
94850 CTTCTGTGTT
Statistics
Matches: 126, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 104 0.83
21 19 0.15
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGA
Found at i:94861 original size:40 final size:40
Alignment explanation
Indices: 94778--94927 Score: 110
Period size: 40 Copynumber: 3.8 Consensus size: 40
94768 GTAGATCACC
* * * * *
94778 TTGCGAATTTGGAAATCACATTGCGAATTTGGAAATC-GCG
1 TTGCGAATTTGAAAATCGCGTTGCGAATTTAG-AATCTGAG
* *
94818 TTGCGAATTTGAAAATCGCGTTGCGAATTT-GACTTCTGTG
1 TTGCGAATTTGAAAATCGCGTTGCGAATTTAGA-ATCTGAG
* * *
94858 TTGCG-ATTT-ACAGATTCGTGTTGCGAATTTAGAAACTGAG
1 TTGCGAATTTGA-A-AATCGCGTTGCGAATTTAGAATCTGAG
* * **
94898 TTGCGAAATTGGAGTTCGCGTTGCGAATTT
1 TTGCGAATTTGAAAATCGCGTTGCGAATTT
94928 GTTGGTCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 2 0.02
39 8 0.09
40 73 0.82
41 6 0.07
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (40 bp):
TTGCGAATTTGAAAATCGCGTTGCGAATTTAGAATCTGAG
Found at i:94862 original size:60 final size:59
Alignment explanation
Indices: 94669--94928 Score: 170
Period size: 60 Copynumber: 4.3 Consensus size: 59
94659 GCGAAATTAA
* * * *
94669 AATTCATGTTGCGAATTCGAAAATCGAGTTGCGAA-TTCAGAAATCGAGTTGCGAATTTG
1 AATTCGTGTTGCGAATTTGAAAATCGCGTTGCGAATTTGA-AAATCGAGTTGCGAATTTG
* * *** * * *
94728 AAATTCAGTGTTACGAATTTGTAAATCGCAACGCGAATTTGTAGATC-ACCTTGCGAATTTGG
1 -AATTC-GTGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGA-GTTGCGAATTT-G
* *** * *
94790 AAATCACATTGCGAATTTGGAAATCGCGTTGCGAATTTGAAAATCGCGTTGCGAATTTG
1 AATTCGTGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGAGTTGCGAATTTG
* * * * *
94849 ACTTCTGTGTTGCG-ATTT-ACAGATTCGTGTTGCGAATTTAGAAACT-GAGTTGCGAAATTGG
1 AATTC-GTGTTGCGAATTTGA-A-AATCGCGTTGCGAATTT-GAAAATCGAGTTGCG-AATTTG
* *
94910 AGTTCGCGTTGCGAATTTG
1 AATTCGTGTTGCGAATTTG
94929 TTGGTCATTT
Statistics
Matches: 150, Mismatches: 38, Indels: 22
0.71 0.18 0.10
Matches are distributed among these distances:
59 9 0.06
60 80 0.53
61 58 0.39
62 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (59 bp):
AATTCGTGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGAGTTGCGAATTTG
Found at i:98400 original size:18 final size:19
Alignment explanation
Indices: 98377--98412 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
98367 AGTGACATTT
98377 TATAATATTAT-TATTATA
1 TATAATATTATATATTATA
98395 TATAATATTATATATTAT
1 TATAATATTATATATTAT
98413 TAATAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAATATTATATATTATA
Found at i:100446 original size:12 final size:12
Alignment explanation
Indices: 100431--100462 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
100421 TATGTTCATA
*
100431 TGATATGATATG
1 TGATATGACATG
100443 TGATATGACATG
1 TGATATGACATG
100455 TGATATGA
1 TGATATGA
100463 GAACATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (12 bp):
TGATATGACATG
Found at i:100484 original size:23 final size:26
Alignment explanation
Indices: 100443--100495 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 26
100433 ATATGATATG
100443 TGATATGACATGTGATATGAGA-ACA
1 TGATATGACATGTGATATGAGATACA
100468 TGATATGA-A-GTGATATGAGATACA
1 TGATATGACATGTGATATGAGATACA
100492 TGAT
1 TGAT
100496 CACAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.41
24 8 0.30
25 8 0.30
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (26 bp):
TGATATGACATGTGATATGAGATACA
Found at i:100625 original size:15 final size:15
Alignment explanation
Indices: 100607--100639 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100597 GAGGGTATAA
100607 TAGTCCTTCAGGATG
1 TAGTCCTTCAGGATG
*
100622 TAGTCCTTCGGGATG
1 TAGTCCTTCAGGATG
100637 TAG
1 TAG
100640 GGGTCCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCAGGATG
Found at i:105637 original size:64 final size:62
Alignment explanation
Indices: 105562--105681 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 62
105552 ACTCTTTTAA
* * * *
105562 AATAAAAACATCTAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGC
1 AATAAAAACATCGAATACAATTGATGCACCGATGCATAAGGAGTGCATCGATGCATCCCAGC
** * * *
105624 AATAATAATACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 AATAA-AA-ACATCGAATACAATTGATGCACCGATGCATAAGGAGTGCATCGATGCAT
105682 ACCTTCATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 5 0.11
63 2 0.04
64 40 0.85
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (62 bp):
AATAAAAACATCGAATACAATTGATGCACCGATGCATAAGGAGTGCATCGATGCATCCCAGC
Found at i:106006 original size:12 final size:12
Alignment explanation
Indices: 105988--106023 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
105978 TATATATGTT
105988 CATGTGATATGA
1 CATGTGATATGA
*
106000 TATGTGATATGA
1 CATGTGATATGA
106012 CATGTGATATGA
1 CATGTGATATGA
106024 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:106045 original size:23 final size:26
Alignment explanation
Indices: 105988--106056 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
105978 TATATATGTT
**
105988 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
106012 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
106037 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
106057 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:106186 original size:15 final size:15
Alignment explanation
Indices: 106168--106199 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
106158 GAGGGTATAA
106168 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
106183 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
106198 TA
1 TA
106200 AGGGTCCTAC
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:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:112683 original size:20 final size:19
Alignment explanation
Indices: 112625--112697 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
112615 TTTAAGTTGT
112625 TGGTATCGATACTCAGAT-AG
1 TGGTATCGATACT--GATGAG
* **
112645 GGGTATCGATACTCCTGAG
1 TGGTATCGATACTGATGAG
112664 CTGGTATCGATACTGATGAG
1 -TGGTATCGATACTGATGAG
*
112684 TCAGTATCGATACT
1 T-GGTATCGATACT
112698 ACTTCAGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 39 0.91
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (19 bp):
TGGTATCGATACTGATGAG
Found at i:116963 original size:21 final size:21
Alignment explanation
Indices: 116937--116997 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
116927 TATGAAAGTT
116937 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
116958 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
116979 ACTGTAGCAGTGCATCGAT
1 ACTGTAGCAGTGCATCGAT
116998 ACATAATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:117549 original size:18 final size:19
Alignment explanation
Indices: 117526--117576 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
117516 TAAAAATATT
117526 TTTATTATATTATATTT-A
1 TTTATTATATTATATTTGA
*
117544 TTTATTATTTTATTATTTGA
1 TTTATTATATTA-TATTTGA
117564 TTGTATTA-ATTAT
1 TT-TATTATATTAT
117577 CTTTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 6 0.21
21 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATTATATTATATTTGA
Found at i:117560 original size:24 final size:23
Alignment explanation
Indices: 117533--117589 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
117523 ATTTTTATTA
* *
117533 TATTATATTTATTTATTATTTTAT
1 TATTATATTTATTAATTATCTT-T
117557 TATT-TGATTGTATTAATTATCTTT
1 TATTAT-ATT-TATTAATTATCTTT
117581 TATTA-ATTT
1 TATTATATTT
117590 TTGCAGTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 1 0.04
23 4 0.14
24 12 0.43
25 11 0.39
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TATTATATTTATTAATTATCTTT
Found at i:118156 original size:19 final size:19
Alignment explanation
Indices: 118132--118178 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
118122 GGTGGCTGCG
118132 AGAGAAATTTCCACAGTTA
1 AGAGAAATTTCCACAGTTA
*
118151 AGAGAAATTTCCACAGTTG
1 AGAGAAATTTCCACAGTTA
*
118170 AGTGAAATT
1 AGAGAAATT
118179 GTTCCATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (19 bp):
AGAGAAATTTCCACAGTTA
Found at i:120016 original size:19 final size:19
Alignment explanation
Indices: 119992--120038 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
119982 GGTGGCTGCG
119992 AGAGAAATTTCCACAGTTA
1 AGAGAAATTTCCACAGTTA
*
120011 AGAGAAATTTCCACAGTTG
1 AGAGAAATTTCCACAGTTA
*
120030 AGTGAAATT
1 AGAGAAATT
120039 GTTCCATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (19 bp):
AGAGAAATTTCCACAGTTA
Found at i:121156 original size:101 final size:102
Alignment explanation
Indices: 120943--121162 Score: 228
Period size: 101 Copynumber: 2.2 Consensus size: 102
120933 TGTGGTACCG
* * * * * * * *
120943 ATATTTAGGTCGAACAAGCTGGTAGTTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCATA
1 ATATTCAGGTCGAAGAAGCTCGCACTTGAATGTCCTCCCCTGGAACTTGAAGGCATCGTGTCAAA
* * *
121008 TAGGTTTTGAACTGAGTGTTGTATCACAGGCATTTCC
66 TAGGTATTGAACAGAGTGTTGTATCACAGGCATCTCC
* * *
121045 ACATTGAGGTCGAAGAAGCTCGCACTTGAATG-CCTCCCCTGGAACTTTAAGGCATCGTGTCAAA
1 ATATTCAGGTCGAAGAAGCTCGCACTTGAATGTCCTCCCCTGGAACTTGAAGGCATCGTGTCAAA
* * * * * *
121109 TGGGTATTGAACAGATTGTTGTGTCGA-TGTCATCTCT
66 TAGGTATTGAACAGAGTGTTGTATC-ACAGGCATCTCC
*
121146 ATATTCAGGTCAAAGAA
1 ATATTCAGGTCGAAGAA
121163 ATAGGCAAAT
Statistics
Matches: 95, Mismatches: 22, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
101 68 0.72
102 27 0.28
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (102 bp):
ATATTCAGGTCGAAGAAGCTCGCACTTGAATGTCCTCCCCTGGAACTTGAAGGCATCGTGTCAAA
TAGGTATTGAACAGAGTGTTGTATCACAGGCATCTCC
Found at i:137169 original size:30 final size:30
Alignment explanation
Indices: 137135--137201 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
137125 AGTTTTAAAC
137135 AAAATACTAATTTTAACTTA-AAT-TTTAGAT
1 AAAATACTAA-TTTAA-TTATAATCTTTAGAT
*
137165 AAAATATTAATTTAATTATTAATCTTTAGAT
1 AAAATACTAATTTAATTA-TAATCTTTAGAT
137196 AAAATA
1 AAAATA
137202 TATATTTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 5 0.15
30 12 0.36
31 13 0.39
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (30 bp):
AAAATACTAATTTAATTATAATCTTTAGAT
Found at i:143883 original size:21 final size:21
Alignment explanation
Indices: 143858--143897 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
143848 TTGAGACACT
143858 CTTTCTTTAAAATTTTAAACA
1 CTTTCTTTAAAATTTTAAACA
143879 CTTTCTTTAAAATTTTAAA
1 CTTTCTTTAAAATTTTAAA
143898 TCATCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
CTTTCTTTAAAATTTTAAACA
Found at i:145302 original size:17 final size:15
Alignment explanation
Indices: 145261--145300 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
145251 TTATATTATC
145261 TATTT-TATATCCTA
1 TATTTATATATCCTA
145275 TATTTATATATCCTA
1 TATTTATATATCCTA
145290 TATTTATATAT
1 TATTTATATAT
145301 ATACATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTATATATCCTA
Found at i:145303 original size:27 final size:26
Alignment explanation
Indices: 145240--145310 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
145230 GTATTGTATA
145240 TATATATATACTTATATTATCTATTT
1 TATATATATACTTATATTATCTATTT
* *
145266 TATATCCTATATTTATA-TATCCTATATT
1 TATAT-ATATACTTATATTAT-CTAT-TT
*
145294 TATATATATACATATAT
1 TATATATATACTTATAT
145311 GTTTTTCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 8 0.22
27 21 0.58
28 7 0.19
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (26 bp):
TATATATATACTTATATTATCTATTT
Found at i:145345 original size:18 final size:20
Alignment explanation
Indices: 145312--145356 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
145302 TACATATATG
*
145312 TTTTTCTACTATTTTTC-TT
1 TTTTTATACTATTTTTCATT
145331 TTTTTATACTA-TTTTCATT
1 TTTTTATACTATTTTTCATT
*
145350 TTCTTAT
1 TTTTTAT
145357 TATTCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATACTATTTTTCATT
Found at i:147553 original size:219 final size:220
Alignment explanation
Indices: 147127--147595 Score: 779
Period size: 218 Copynumber: 2.1 Consensus size: 220
147117 GTAAATTATC
* *
147127 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATCTTTAGTTAA
1 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAACATATTTATTATCATTAGTTAA
147192 TATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAATTTTTGTGTA
66 TATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAATTTTTGTGTA
147257 AATGAAATTATTAAATTAATATGTAGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
131 AATGAAATTATTAAATTAATATGTAGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
147322 ATTACATAACTTT-CAAAAAGTATA
196 ATTACATAACTTTAAAAAAAGTATA
* *
147346 TATCA-TTTTATAAAAGTGTCCATACTTATTTCACTGTTG-AAACATATTTA-TAT-ATTGGTTA
1 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTG-TGAAAACATATTTATTATCATTAGTTA
*
147407 ATATTGTTAAATTTAAATTCTAAATAATATTTATAAAATATCAAAACAATCAAATAATATTTTGT
65 ATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATC-AATAAT-TTTTGT
* *
147472 GTAAATTAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAAA
128 GTAAATGAAATTATTAAATTAATA-TGTA-GTGGAAAACATGAAACACTATTAAAAAAATTGAAA
147536 CATAAATTACATAACTTTAAAAAAAGTATA
191 CATAAATTACATAACTTTAAAAAAAGTATA
147566 TATCATTTTTATAAAAGTGTTCATACTTAT
1 TATCATTTTTATAAAAGTGTTCATACTTAT
147596 AAAGTAGGTC
Statistics
Matches: 234, Mismatches: 9, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
216 56 0.24
217 17 0.07
218 64 0.27
219 59 0.25
220 15 0.06
221 23 0.10
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (220 bp):
TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAACATATTTATTATCATTAGTTAA
TATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAATTTTTGTGTA
AATGAAATTATTAAATTAATATGTAGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAAAAGTATA
Found at i:148092 original size:17 final size:18
Alignment explanation
Indices: 148053--148094 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
148043 AGGTAAAAAT
*
148053 ATGATAAAGCCGGTATCAA
1 ATGATAAAACCGGTA-CAA
148072 ATGATAAAACCGGTA-AA
1 ATGATAAAACCGGTACAA
148089 ATGATA
1 ATGATA
148095 CCGGATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (18 bp):
ATGATAAAACCGGTACAA
Found at i:148111 original size:173 final size:175
Alignment explanation
Indices: 147659--148119 Score: 558
Period size: 179 Copynumber: 2.6 Consensus size: 175
147649 TCGATCCAAA
* * * *
147659 TTAAAAATGTGTCGATCCAAACGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGAT
1 TTAAAAAAGTATCGATCCAAACGATATAACAGGTAAAAATATGA-TAAACCGGTATA-AAATGAT
* * * * * *
147724 -AAACCGGTCAAGCGCTACCGGATACATTTAAAGTATCGGTACTTTAATATAAGGATCGACACTT
64 AAAACCGGTAAAACGATACCGGAT--ATTAAAAGTGTCGATAC-TTAATATAAGGATCGACACTT
* *
147788 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTT
126 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTT
* * *
147838 TTAAAAAATGTATCGATCCAAAACGATATACCAGGT-AAAATATGATAAAACGGTAAAAGAATGA
1 TTAAAAAA-GTATCGATCC-AAACGATATAACAGGTAAAAATATGATAAACCGGTATAA-AATGA
*
147902 TAAAA-CGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTT-ATATAAGGATCGACACTT
63 TAAAACCGGTAAAACGATACCGG--ATATTAAAAGTGTCGATACTTAATATAAGGATCGACACTT
* ** *
147965 TGTGAATTTAAAAGA-AAGCAGTTATAGCGCCTATAATGTGTCGATAC-T
126 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTT
*
148013 TTAAAAAA-TATCGATCCACAACGATATAACAGGTAAAAATATGATAAAGCCGGTATCAAATGAT
1 TTAAAAAAGTATCGATCCA-AACGATATAACAGGTAAAAATATGATAAA-CCGGTATAAAATGAT
* *
148077 AAAACCGGTAAAATGATACCGGATATTGAAAGTGTCGATACTT
64 AAAACCGGTAAAACGATACCGGATATTAAAAGTGTCGATACTT
148120 TCGTAAGTAC
Statistics
Matches: 246, Mismatches: 26, Indels: 26
0.83 0.09 0.09
Matches are distributed among these distances:
172 1 0.00
173 43 0.17
174 23 0.09
175 30 0.12
176 27 0.11
177 32 0.13
178 3 0.01
179 50 0.20
180 20 0.08
181 17 0.07
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (175 bp):
TTAAAAAAGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAACCGGTATAAAATGATAA
AACCGGTAAAACGATACCGGATATTAAAAGTGTCGATACTTAATATAAGGATCGACACTTCGTGA
ATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTT
Done.