Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006470.1 Hibiscus syriacus cultivar Beakdansim tig00015679_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: 124017
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:693 original size:27 final size:27
Alignment explanation
Indices: 663--722 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
653 ATACTTATCT
*
663 TTTTACAACATAAGGGTAATTTT-GTAA
1 TTTTACAACATAAGGGT-ATTTTCATAA
**
690 TTTTACCCCATAAGGGTATTTTCATAA
1 TTTTACAACATAAGGGTATTTTCATAA
717 TTTTAC
1 TTTTAC
723 CTAACCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (27 bp):
TTTTACAACATAAGGGTATTTTCATAA
Found at i:723 original size:27 final size:27
Alignment explanation
Indices: 671--723 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
661 CTTTTTACAA
*
671 CATAAGGGTAATTTTGTAATTTTACCC
1 CATAAGGGTAATTTTATAATTTTACCC
698 CATAAGGGT-ATTTTCATAATTTTACC
1 CATAAGGGTAATTTT-ATAATTTTACC
724 TAACCAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (27 bp):
CATAAGGGTAATTTTATAATTTTACCC
Found at i:2779 original size:21 final size:21
Alignment explanation
Indices: 2750--2797 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
2740 AATGTTTTAC
*
2750 AAATATTATTTTTAATTAAATT
1 AAAT-TTATTTTTAACTAAATT
*
2772 AAATTTATTTTTAACTAACTT
1 AAATTTATTTTTAACTAAATT
2793 AAATT
1 AAATT
2798 ACACGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTTATTTTTAACTAAATT
Found at i:3041 original size:15 final size:15
Alignment explanation
Indices: 3010--3057 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
3000 TTAAATAAGA
*
3010 TTATAAAAATA-ATT
1 TTATAAAATTATATT
*
3024 TTATAAAATTGTATT
1 TTATAAAATTATATT
*
3039 TTAATTAAATTATATT
1 TT-ATAAAATTATATT
3055 TTA
1 TTA
3058 ACTAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTATAAAATTATATT
Found at i:3054 original size:16 final size:16
Alignment explanation
Indices: 3029--3068 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
3019 TAATTTTATA
* *
3029 AAATTGTATTTTAATT
1 AAATTATATTTTAACT
3045 AAATTATATTTTAACT
1 AAATTATATTTTAACT
*
3061 AATTTATA
1 AAATTATA
3069 ATTATCGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
AAATTATATTTTAACT
Found at i:3072 original size:22 final size:21
Alignment explanation
Indices: 3046--3102 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
3036 ATTTTAATTA
3046 AATTATATTTTAACTAATTTAT
1 AATTATATTTTAA-TAATTTAT
** *
3068 AATTATCGTTTAATATTTTAT
1 AATTATATTTTAATAATTTAT
3089 AATGTAATATTTTA
1 AAT-T-ATATTTTA
3103 TAAATTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 10 0.36
22 12 0.43
23 6 0.21
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (21 bp):
AATTATATTTTAATAATTTAT
Found at i:3111 original size:15 final size:14
Alignment explanation
Indices: 3077--3111 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
3067 TAATTATCGT
3077 TTAATATTTTATAA
1 TTAATATTTTATAA
3091 TGTAATATTTTATAAA
1 T-TAATATTTTAT-AA
3107 TTAAT
1 TTAAT
3112 TTAATGGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 15 0.79
16 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TTAATATTTTATAA
Found at i:5267 original size:34 final size:34
Alignment explanation
Indices: 5222--5289 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
5212 ACCGGTTAAA
5222 AGTAGACATGTATCGATACATTTATAAGTATATG
1 AGTAGACATGTATCGATACATTTATAAGTATATG
*
5256 AGTAGATATGTATCGATACATTTATAAGTATATG
1 AGTAGACATGTATCGATACATTTATAAGTATATG
5290 TATAAAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (34 bp):
AGTAGACATGTATCGATACATTTATAAGTATATG
Found at i:5469 original size:20 final size:20
Alignment explanation
Indices: 5444--5491 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
5434 GACGAAAATA
*
5444 ACAAAATTGGTTGGTAA-TTG
1 ACAAAATTGGTT-GAAATTTG
5464 ACAAAATTGGTTGAAATTTG
1 ACAAAATTGGTTGAAATTTG
5484 ACAAAATT
1 ACAAAATT
5492 TGTAAAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (20 bp):
ACAAAATTGGTTGAAATTTG
Found at i:5861 original size:187 final size:188
Alignment explanation
Indices: 5603--5962 Score: 510
Period size: 187 Copynumber: 1.9 Consensus size: 188
5593 AAGGCTAAAT
* * ** *
5603 AGTATTGATACCTTACACACATGTATCGATACATGACAATATAACAGGTTGAAAATTTCCAAAAT
1 AGTATCGATACCTTACACACATGTATCGACACATGACAATATAACAGGTTGAAAATTGACAAAAC
* * * *
5668 CGGTTTCAATTTGACAAAATTGATGAAGAGATACC-AGAATTATTGACAGTATCGATATTTTTAT
66 CGGTTTCAATTTGACAAAACTGATAAAGAGATACCGA-AATTATTGAAAGTATCGATACTTTTAT
* *
5732 AATTATGTGTACCAAAGTATCGATACTGTAGGAATT-AAATGAATAATAGCGCCTATAA
130 AAGTATATGTACCAAAGTATCGATACTGTAGGAATTGAAATGAATAATAGCGCCTATAA
* *
5790 AGTATCGATACCTTAGACACATGTATCGACACATGACAATATAACATGTTG-AAATTGGACAAAA
1 AGTATCGATACCTTACACACATGTATCGACACATGACAATATAACAGGTTGAAAATT-GACAAAA
* * *
5854 CCGGTTTCAATTTGACAAAACTGATAAAGCGCTACCGAAATTATTGAAAGTATTGATACTTTTAT
65 CCGGTTTCAATTTGACAAAACTGATAAAGAGATACCGAAATTATTGAAAGTATCGATACTTTTAT
* * *
5919 AAGTATATGTACCATAGTATCGATATTTTAGGAATTGAAATGAA
130 AAGTATATGTACCAAAGTATCGATACTGTAGGAATTGAAATGAA
5963 ATGAAAAAAG
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
186 5 0.03
187 138 0.91
188 8 0.05
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (188 bp):
AGTATCGATACCTTACACACATGTATCGACACATGACAATATAACAGGTTGAAAATTGACAAAAC
CGGTTTCAATTTGACAAAACTGATAAAGAGATACCGAAATTATTGAAAGTATCGATACTTTTATA
AGTATATGTACCAAAGTATCGATACTGTAGGAATTGAAATGAATAATAGCGCCTATAA
Found at i:6889 original size:36 final size:36
Alignment explanation
Indices: 6849--6928 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
6839 ATTTGTTAGG
*
6849 ACATATATAAAGTATC-GATACTTGGA-ATTTCGATTC
1 ACATATATAAAGTATCAG-TACTTGGAGATTT-GATAC
*
6885 ACATATATAAAGTATCAGTACTTGGAGCTTTGATAC
1 ACATATATAAAGTATCAGTACTTGGAGATTTGATAC
6921 ACATATAT
1 ACATATAT
6929 TTTGTTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (36 bp):
ACATATATAAAGTATCAGTACTTGGAGATTTGATAC
Found at i:7301 original size:200 final size:198
Alignment explanation
Indices: 6968--7701 Score: 881
Period size: 200 Copynumber: 3.7 Consensus size: 198
6958 CTAGTAAGCA
* * *
6968 TCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATACAAAGTATCGATACTTGGAATTTC
1 TCTCAAACAATTTGCACGCAAAATGTATCGATACACATGTACAAAGTATCGATACTTGGAATTTT
* * * *
7033 GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAGAATATATTTGTTTAA
66 GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAA-AATTTACTGGTATAA
* * * * *
7098 TGATAATAGGCGTAA-ACTTAAAGTATCAATACTTTTTATATAGATATCGATACTTTTATTCCAA
130 TGATAATAGGCGTAATAC--CAAGTATCGATACTTTATATATAGGTATTGATACTTTTATTCCAA
7162 TATGAT
193 TATGAT
* * * *
7168 TCTCAAACAATTTACACGCAAAACGTATCAATAAACATGTACAAAGTATCGATACTTGGAATTTT
1 TCTCAAACAATTTGCACGCAAAATGTATCGATACACATGTACAAAGTATCGATACTTGGAATTTT
* * * *
7233 GAAGCCTATTACTATAAAGTAATAGGTAAATTAACAATGTAAA-GAGTTAAAGTTTACTGGTATA
66 GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACG-G-TAAAATTTACTGGTATA
* * *
7297 ATGATAATAGGTGTATATACCAAGTATTGATACTTTATATATAGGTATTGATACTTTTAGTCCAA
129 ATGATAATAGGCGTA-ATACCAAGTATCGATACTTTATATATAGGTATTGATACTTTTATTCCAA
7362 TATGAT
193 TATGAT
* * * *
7368 TCTC-AATAATTTGCACGCAAAATGTATCGATACACACGTATAAAGTATCGATAC--GCGAAATT
1 TCTCAAACAATTTGCACGCAAAATGTATCGATACACATGTACAAAGTATCGATACTTG-GAATTT
* * * * *
7430 TCAAAACTGGTTACTTTAAAGTAATAGGTAAATTTACAATTTAAATC-GTAAAATTCTACTAGTA
65 TGAAACCT-ATTACTTTAAAGTAATAGGTAAATTTACAATGTAAA-CGGTAAAATT-TACTGGTA
* * * *
7494 TATTGATAATAGACGTGAATACCAAGTATCGATACTGTCTATATAGGTATTGATACTTTTATTCC
127 TAATGATAATAGGCGT-AATACCAAGTATCGATACTTTATATATAGGTATTGATACTTTTATTCC
* *
7559 AGTATGTT
191 AATATGAT
* * **
7567 TCTCAAACAATTTGCACGTAAAATGTATCGATACACA--TATAAAGTATCGATACTTATAATTTT
1 TCTCAAACAATTTGCACGCAAAATGTATCGATACACATGTACAAAGTATCGATACTTGGAATTTT
* * * * *
7630 GAAACCTATTACTTTAAAGTAATAGGTTAATTTACAATGAAAATGGTAAAAGTCTACCGGTATAA
66 GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAA-TTTACTGGTATAA
7695 TGATAAT
130 TGATAAT
7702 GGGGTGTAAA
Statistics
Matches: 455, Mismatches: 64, Indels: 32
0.83 0.12 0.06
Matches are distributed among these distances:
197 1 0.00
198 85 0.19
199 161 0.35
200 202 0.44
201 4 0.01
202 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (198 bp):
TCTCAAACAATTTGCACGCAAAATGTATCGATACACATGTACAAAGTATCGATACTTGGAATTTT
GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAATTTACTGGTATAAT
GATAATAGGCGTAATACCAAGTATCGATACTTTATATATAGGTATTGATACTTTTATTCCAATAT
GAT
Found at i:8142 original size:5 final size:5
Alignment explanation
Indices: 8132--8165 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
8122 AATGTTAAAC
8132 AATAA AATAA AATAA AATAA AATATTA AATAA AA
1 AATAA AATAA AATAA AATAA AATA--A AATAA AA
8166 AAAGAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.81
7 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:8797 original size:22 final size:22
Alignment explanation
Indices: 8772--8820 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8762 GTATTTTTTG
*
8772 GTGTTATGCGATGCTTTTTACT
1 GTGTTATGCGATGCTTTTCACT
* * *
8794 GTGTTATTCGATGGTTTTCATT
1 GTGTTATGCGATGCTTTTCACT
8816 GTGTT
1 GTGTT
8821 CCCCTCTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.53
Consensus pattern (22 bp):
GTGTTATGCGATGCTTTTCACT
Found at i:9308 original size:10 final size:10
Alignment explanation
Indices: 9293--9386 Score: 107
Period size: 10 Copynumber: 9.4 Consensus size: 10
9283 AATATATAAT
9293 ACATAACATG
1 ACATAACATG
*
9303 ACATAACATA
1 ACATAACATG
*
9313 ACATAACATA
1 ACATAACATG
* *
9323 ACATAACTTA
1 ACATAACATG
9333 ACATAACATG
1 ACATAACATG
*
9343 ACATGACATG
1 ACATAACATG
*
9353 ACATGACATG
1 ACATAACATG
*
9363 ACATGACATG
1 ACATAACATG
* *
9373 ACATGACACG
1 ACATAACATG
9383 ACAT
1 ACAT
9387 GACACGACAC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 78 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (10 bp):
ACATAACATG
Found at i:9311 original size:5 final size:5
Alignment explanation
Indices: 9293--9376 Score: 87
Period size: 5 Copynumber: 16.8 Consensus size: 5
9283 AATATATAAT
* * *
9293 ACATA ACATG ACATA ACATA ACATA ACATA ACATA ACTTA ACATA ACATG
1 ACATA ACATA ACATA ACATA ACATA ACATA ACATA ACATA ACATA ACATA
* * * * * *
9343 ACATG ACATG ACATG ACATG ACATG ACATG ACAT
1 ACATA ACATA ACATA ACATA ACATA ACATA ACAT
9377 GACACGACAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (5 bp):
ACATA
Found at i:9311 original size:15 final size:15
Alignment explanation
Indices: 9293--9380 Score: 104
Period size: 15 Copynumber: 5.9 Consensus size: 15
9283 AATATATAAT
9293 ACATAACATGACATA
1 ACATAACATGACATA
*
9308 ACATAACATAACATA
1 ACATAACATGACATA
* *
9323 ACATAACTTAACATA
1 ACATAACATGACATA
* *
9338 ACATGACATGACATG
1 ACATAACATGACATA
* *
9353 ACATGACATGACATG
1 ACATAACATGACATA
*
9368 ACATGACATGACA
1 ACATAACATGACA
9381 CGACATGACA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 67 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATAACATGACATA
Found at i:9911 original size:5 final size:5
Alignment explanation
Indices: 9342--9907 Score: 914
Period size: 5 Copynumber: 114.0 Consensus size: 5
9332 AACATAACAT
* * * * * * * *
9342 GACAT GACAT GACAT GACAT GACAT GACAT GACAT GACAC GACAT GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9392 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9442 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9492 GACAC GACAC GACAC GACAC GACAC GACA- GACAC GACAC GACAC GACACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC G--ACAC
9543 GACAC GACAC GACAC GACAC GACAC GAC-C GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9592 GACAC GACAC GACAC GACACAC GACAC GACAC -ACAC GACAC -ACAC GACAC
1 GACAC GACAC GACAC G--ACAC GACAC GACAC GACAC GACAC GACAC GACAC
9642 GACAC GACAC GACAC GACAC GACAC -ACAC GACAC GACAC GACAC -ACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
* *
9690 GACAC CACAC GACAC GACAC -ACAC GACAC GACAC GACAC -ACAT GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
* * *
9738 GACAT GACAT GACAT GACAC GACAC GACAC GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9788 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
9838 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
1 GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC GACAC
*
9888 GACAC GACAC GACAC AACAC
1 GACAC GACAC GACAC GACAC
9908 AACATAACAT
Statistics
Matches: 539, Mismatches: 10, Indels: 24
0.94 0.02 0.04
Matches are distributed among these distances:
4 31 0.06
5 498 0.92
7 10 0.02
ACGTcount: A:0.41, C:0.39, G:0.19, T:0.02
Consensus pattern (5 bp):
GACAC
Found at i:9949 original size:13 final size:12
Alignment explanation
Indices: 9926--10072 Score: 62
Period size: 12 Copynumber: 12.2 Consensus size: 12
9916 ATAACATATG
9926 TATATACTAATA
1 TATATACTAATA
9938 TATATAACTAATA
1 TATAT-ACTAATA
9951 TAATTATACTTTAATA
1 T-A-TATAC--TAATA
*
9967 -ATACTA-TAAAA
1 TATA-TACTAATA
*
9978 TA-ATATTAATA
1 TATATACTAATA
9989 TATATA-T-ATA
1 TATATACTAATA
* *
9999 TAGTAAAAT-ATA
1 TA-TATACTAATA
10011 TTATATA-TAATA
1 -TATATACTAATA
* *
10023 TATAAAACTACTA
1 TAT-ATACTAATA
10036 TAATATA-TAATA
1 T-ATATACTAATA
*
10048 TATATAAT-ATAA
1 TATATACTAAT-A
10060 TATATACT-ATA
1 TATATACTAATA
10071 TA
1 TA
10073 CACTATACAC
Statistics
Matches: 108, Mismatches: 9, Indels: 37
0.70 0.06 0.24
Matches are distributed among these distances:
10 7 0.06
11 29 0.27
12 37 0.34
13 19 0.18
14 8 0.07
15 3 0.03
16 5 0.05
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (12 bp):
TATATACTAATA
Found at i:9993 original size:2 final size:2
Alignment explanation
Indices: 9986--10072 Score: 64
Period size: 2 Copynumber: 45.5 Consensus size: 2
9976 AATAATATTA
*
9986 AT AT AT AT AT AT AT AGT A- AA AT AT AT -T AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10026 A- AA ACT ACT AT A- AT AT AT A- AT AT AT AT A- AT AT A- AT AT AT
1 AT AT A-T A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10065 ACT AT AT A
1 A-T AT AT A
10073 CACTATACAC
Statistics
Matches: 72, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
1 8 0.11
2 56 0.78
3 8 0.11
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:10022 original size:53 final size:53
Alignment explanation
Indices: 9927--10072 Score: 154
Period size: 53 Copynumber: 2.7 Consensus size: 53
9917 TAACATATGT
* *
9927 ATATACTAATATATATAACTAATATAATTATACTTTAATAATACTATAAAA-TAATATTA
1 ATATA-TAATATATATAA-TAAAAT-A-TATACTAT-ATAATA-TATAAAACTAATA-TA
* *
9986 ATATAT-ATATATATAGTAAAATATATTA-TATATAATATATAAAACTACTATA
1 ATATATAATATATATAATAAAATATA-TACTATATAATATATAAAACTAATATA
*
10038 ATATATAATATATATAATATAATATATACTATATA
1 ATATATAATATATATAATAAAATATATACTATATA
10073 CACTATACAC
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
52 17 0.22
53 33 0.43
54 4 0.05
55 3 0.04
56 5 0.06
57 9 0.12
58 1 0.01
59 5 0.06
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (53 bp):
ATATATAATATATATAATAAAATATATACTATATAATATATAAAACTAATATA
Found at i:10024 original size:34 final size:34
Alignment explanation
Indices: 9980--10070 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 34
9970 CTATAAAATA
*
9980 ATAT-TAATATATATATATA-TAGTAAAATATATT
1 ATATATAATATATATATATACTA-TAAAATATAAT
* *
10013 ATATATAATATATA-AAACTACTATAATATATAAT
1 ATATATAATATATATATA-TACTATAAAATATAAT
10047 ATATATAATATA-ATATATACTATA
1 ATATATAATATATATATATACTATA
10071 TACACTATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
33 14 0.28
34 34 0.68
35 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (34 bp):
ATATATAATATATATATATACTATAAAATATAAT
Found at i:10041 original size:25 final size:23
Alignment explanation
Indices: 9964--10072 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 23
9954 TTATACTTTA
9964 ATAATACTATAAAATAATATTAATATAT
1 ATAATA-TATAAAAT-ATA-T-A-ATAT
*
9992 ATATATATAGTAAAATATATTATAT
1 ATA-ATATA-TAAAATATATAATAT
10017 ATAATATATAAAACTACTATAATAT
1 ATAATATATAAAA-TA-TATAATAT
*
10042 ATAATATAT-ATA-ATATAATAT
1 ATAATATATAAAATATATAATAT
*
10063 ATACTATATA
1 ATAATATATA
10073 CACTATACAC
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
21 16 0.22
22 1 0.01
23 5 0.07
24 9 0.12
25 23 0.32
27 1 0.01
28 8 0.11
29 9 0.12
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (23 bp):
ATAATATATAAAATATATAATAT
Found at i:10071 original size:14 final size:14
Alignment explanation
Indices: 9926--10161 Score: 113
Period size: 14 Copynumber: 17.2 Consensus size: 14
9916 ATAACATATG
9926 TATATACTA-AT-A
1 TATATACTATATAA
9938 TATATAACTAATATAA
1 TATAT-ACT-ATATAA
9954 T-TATACT-T-TAA
1 TATATACTATATAA
*
9965 TA-ATACTATAAAA
1 TATATACTATATAA
*
9978 TA-ATATTA-ATATA
1 TATATACTATATA-A
9991 TATATA-TATAGTAA
1 TATATACTATA-TAA
* *
10005 AATATATTATAT-A
1 TATATACTATATAA
*
10018 TA-ATA-TATAAAA
1 TATATACTATATAA
*
10030 CTACTATAATATATAA
1 -TA-TATACTATATAA
10046 TATATA-TAATATAA
1 TATATACT-ATATAA
10060 TATATACTATATACA
1 TATATACTATATA-A
* * *
10075 CTATACACTATACAC
1 -TATATACTATATAA
* * *
10090 TATACACTATACAC
1 TATATACTATATAA
* * *
10104 TATACACTATACAC
1 TATATACTATATAA
* * *
10118 TATACACTATACAC
1 TATATACTATATAA
* *
10132 TATACACTATATAC
1 TATATACTATATAA
10146 T-TATACTATATAA
1 TATATACTATATAA
10159 TAT
1 TAT
10162 GATATCCCGG
Statistics
Matches: 189, Mismatches: 13, Indels: 42
0.77 0.05 0.17
Matches are distributed among these distances:
11 13 0.07
12 13 0.07
13 33 0.17
14 93 0.49
15 18 0.10
16 19 0.10
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATACTATATAA
Found at i:10152 original size:6 final size:7
Alignment explanation
Indices: 10029--10157 Score: 100
Period size: 7 Copynumber: 18.1 Consensus size: 7
10019 AATATATAAA
10029 ACTACTAT
1 ACTA-TAT
*
10037 AATATAT
1 ACTATAT
*
10044 AATATAT
1 ACTATAT
10051 A-TAATAT
1 ACT-ATAT
*
10058 AATATAT
1 ACTATAT
10065 ACTATAT
1 ACTATAT
*
10072 ACACTATAC
1 --ACTATAT
*
10081 ACTATAC
1 ACTATAT
*
10088 ACTATAC
1 ACTATAT
*
10095 ACTATAC
1 ACTATAT
*
10102 ACTATAC
1 ACTATAT
*
10109 ACTATAC
1 ACTATAT
*
10116 ACTATAC
1 ACTATAT
*
10123 ACTATAC
1 ACTATAT
*
10130 ACTATAC
1 ACTATAT
10137 ACTATAT
1 ACTATAT
10144 ACT-TAT
1 ACTATAT
10150 ACTATAT
1 ACTATAT
10157 A
1 A
10158 ATATGATATC
Statistics
Matches: 112, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
6 7 0.06
7 95 0.85
8 4 0.04
9 6 0.05
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (7 bp):
ACTATAT
Found at i:10157 original size:7 final size:7
Alignment explanation
Indices: 10069--10155 Score: 149
Period size: 7 Copynumber: 12.6 Consensus size: 7
10059 ATATATACTA
10069 TATACAC
1 TATACAC
10076 TATACAC
1 TATACAC
10083 TATACAC
1 TATACAC
10090 TATACAC
1 TATACAC
10097 TATACAC
1 TATACAC
10104 TATACAC
1 TATACAC
10111 TATACAC
1 TATACAC
10118 TATACAC
1 TATACAC
10125 TATACAC
1 TATACAC
10132 TATACAC
1 TATACAC
*
10139 TATATAC
1 TATACAC
*
10146 T-TATAC
1 TATACAC
10152 TATA
1 TATA
10156 TAATATGATA
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
6 6 0.08
7 72 0.92
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (7 bp):
TATACAC
Found at i:12161 original size:21 final size:21
Alignment explanation
Indices: 12137--12178 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12127 GTCGAGGATT
12137 TTATGTGGTCCTTCAGGACAA
1 TTATGTGGTCCTTCAGGACAA
*
12158 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCAGGACAA
12179 ATATATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (21 bp):
TTATGTGGTCCTTCAGGACAA
Found at i:21991 original size:20 final size:20
Alignment explanation
Indices: 21966--22014 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
21956 TGTCGTCTTC
*
21966 ATCTTTCCAATACTTAGAAG
1 ATCTTTCAAATACTTAGAAG
21986 ATCTTTCAAATACTTAGAAG
1 ATCTTTCAAATACTTAGAAG
22006 ATCTTTCAA
1 ATCTTTCAA
22015 GCTGGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCTTTCAAATACTTAGAAG
Found at i:25148 original size:24 final size:24
Alignment explanation
Indices: 25121--25170 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
25111 CAAACTACCA
*
25121 CCCAGACTGTCGCTTTGGCCGCCG
1 CCCAGACCGTCGCTTTGGCCGCCG
*
25145 CCCAGACCGTCGCTTTGGCCGTCG
1 CCCAGACCGTCGCTTTGGCCGCCG
25169 CC
1 CC
25171 TTCGATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.44, G:0.28, T:0.20
Consensus pattern (24 bp):
CCCAGACCGTCGCTTTGGCCGCCG
Found at i:25960 original size:23 final size:22
Alignment explanation
Indices: 25921--25987 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
25911 GACCTAAATA
*
25921 AAAATGAAATAA-AATATCTAA-
1 AAAAT-AAATAATAATATATAAT
25942 ACAAATAAATATATAATATATAAT
1 A-AAATAAATA-ATAATATATAAT
*
25966 ATAATAAATAATAATA-ATAAT
1 AAAATAAATAATAATATATAAT
25987 A
1 A
25988 TATAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 12 0.30
22 11 0.28
23 16 0.40
24 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (22 bp):
AAAATAAATAATAATATATAAT
Found at i:25961 original size:7 final size:7
Alignment explanation
Indices: 25949--26235 Score: 206
Period size: 7 Copynumber: 40.7 Consensus size: 7
25939 TAAACAAATA
25949 AATATAT
1 AATATAT
25956 AATATAT
1 AATATAT
25963 AATATAAT
1 AATAT-AT
25971 AA-ATAAT
1 AATAT-AT
25978 AATA-AT
1 AATATAT
25984 AATATAT
1 AATATAT
25991 AATATAT
1 AATATAT
*
25998 GTATATATT
1 -AATATA-T
26007 AATATAT
1 AATATAT
26014 -ATA-ACT
1 AATATA-T
26020 AATATAT
1 AATATAT
26027 --TATAT
1 AATATAT
* *
26032 ACTATAAG
1 AATAT-AT
26040 AATACTAT
1 AATA-TAT
26048 -A-ATAT
1 AATATAT
26053 AATAT-T
1 AATATAT
26059 AATATAT
1 AATATAT
26066 AATATAT
1 AATATAT
26073 -A-ATAT
1 AATATAT
*
26078 GAT-TAT
1 AATATAT
26084 AATATAT
1 AATATAT
26091 AATAGATAT
1 AAT--ATAT
26100 AATATAT
1 AATATAT
*
26107 CATATAT
1 AATATAT
*
26114 ATTATAT
1 AATATAT
*
26121 GATATAT
1 AATATAT
26128 AATATAT
1 AATATAT
26135 AAAACTACTAT
1 --AA-TA-TAT
26146 AATATAT
1 AATATAT
26153 AATATAT
1 AATATAT
26160 AATATAT
1 AATATAT
* *
26167 TATATAC
1 AATATAT
26174 AATATAT
1 AATATAT
26181 -ATAATAT
1 AAT-ATAT
*
26188 ACTATAT
1 AATATAT
*
26195 ATTATAT
1 AATATAT
*
26202 ACTATAT
1 AATATAT
26209 ACACTATAT
1 A-A-TATAT
*
26218 ACT-TAT
1 AATATAT
*
26224 ACTATAT
1 AATATAT
26231 AATAT
1 AATAT
26236 GCTATCCTGG
Statistics
Matches: 229, Mismatches: 22, Indels: 58
0.74 0.07 0.19
Matches are distributed among these distances:
5 13 0.06
6 33 0.14
7 135 0.59
8 24 0.10
9 19 0.08
10 2 0.01
11 3 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:26151 original size:37 final size:34
Alignment explanation
Indices: 25951--26235 Score: 145
Period size: 37 Copynumber: 8.3 Consensus size: 34
25941 AACAAATAAA
*
25951 TATATAATATATAATATA-ATAAATA-ATAATAATAA
1 TATAT-ATATATAATATATA-AAATATATAAT-ATAT
* *
25986 TATATAATATATGTATATATTAATATATATAACTA-A-
1 TATAT-ATATAT-AATATA-TAAAATATATAA-TATAT
* *
26022 TATAT-TATATACTATA-AGAATACTATAATATA-
1 TATATATATATAATATATAAAATA-TATAATATAT
26054 -A----TAT-TAATATAT--AATATATAATATGAT
1 TATATATATATAATATATAAAATATATAATAT-AT
* *
26081 TATA-ATATATAATAGATATAATATATCATATATAT
1 TATATATATATAATATATAAAATATAT-A-ATATAT
26116 TATATGATATATAATATATAAAACTACTATAATATAT
1 TATAT-ATATATAATATATAAAA-TA-TATAATATAT
* * *
26153 AATATATAATATATTATATACAATATATATAATATAC
1 TATATAT-ATATAATATATA-AA-ATATATAATATAT
* * * * *
26190 TATATATTATATACTATATACACTATATACTTATAC
1 TATATA-TATATAATATATAAAATATATA-ATATAT
26226 TATATA-ATAT
1 TATATATATAT
26236 GCTATCCTGG
Statistics
Matches: 204, Mismatches: 18, Indels: 57
0.73 0.06 0.20
Matches are distributed among these distances:
25 8 0.04
26 5 0.02
27 6 0.03
28 4 0.02
31 10 0.05
32 13 0.06
33 4 0.02
34 16 0.08
35 25 0.12
36 28 0.14
37 66 0.32
38 14 0.07
39 5 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (34 bp):
TATATATATATAATATATAAAATATATAATATAT
Found at i:26182 original size:62 final size:62
Alignment explanation
Indices: 25959--26196 Score: 203
Period size: 62 Copynumber: 3.9 Consensus size: 62
25949 AATATATAAT
* * * *
25959 ATATAATATAATAA-ATAATAATA-ATAATATATAATATATGTATATATTAATATATATAACTA
1 ATATAATAT-ATAATAT-ATAATATATTATATATAATATATATATATACTAATATATAAAACTA
* * * *
26021 ATATATTATATACTATA-AGA-ATACTATAATATAATAT-TA-ATATA-TAATATATAATA-TGA
1 ATATAATATATAATATATA-ATATATTAT-ATATAATATATATATATACTAATATATAAAACT-A
* *
26080 TTATAATATATAATAGATATAATATATCATATAT-AT-TATATGATATA-TAATATATAAAACTA
1 ATATAATATATAAT--ATATAATATATTATATATAATATATAT-ATATACTAATATATAAAACTA
* *
26142 CTATAATATATAATATATAATATATTATATACAATATATATAATATACT-ATATAT
1 ATATAATATATAATATATAATATATTATATATAATATATAT-ATATACTAATATAT
26197 TATATACTAT
Statistics
Matches: 143, Mismatches: 17, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
58 1 0.01
59 23 0.16
60 27 0.19
61 19 0.13
62 71 0.50
63 2 0.01
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (62 bp):
ATATAATATATAATATATAATATATTATATATAATATATATATATACTAATATATAAAACTA
Found at i:26209 original size:16 final size:16
Alignment explanation
Indices: 25992--26240 Score: 118
Period size: 16 Copynumber: 16.0 Consensus size: 16
25982 ATAATATATA
*
25992 ATATATGTATATATTA-
1 ATATAT-TATATACTAT
26008 ATATA-TATA-ACTA-
1 ATATATTATATACTAT
26021 ATATATTATATACTAT
1 ATATATTATATACTAT
* * *
26037 A-AGAATACTATAATAT
1 ATATATTA-TATACTAT
26053 A-ATATTA-ATA-TAT
1 ATATATTATATACTAT
* *
26066 AATATATAATATGATTAT
1 -ATATATTATAT-ACTAT
* *
26084 AATATATAATAGA-TAT
1 -ATATATTATATACTAT
*
26100 AATATATCATATA-TAT
1 -ATATATTATATACTAT
*
26116 -TATATGATATA-TA-
1 ATATATTATATACTAT
* *
26129 ATATATAAAACTACTAT
1 ATATATTATA-TACTAT
*
26146 AATATATAATATA-TA-
1 -ATATATTATATACTAT
*
26161 ATATATTATATACAAT
1 ATATATTATATACTAT
*
26177 ATATATAATATAC--T
1 ATATATTATATACTAT
26191 ATATATTATATACTAT
1 ATATATTATATACTAT
* *
26207 ATACACTATATACTTAT
1 ATATATTATATAC-TAT
* *
26224 ACTATATAATATGCTAT
1 A-TATATTATATACTAT
26241 CCTGGACGAA
Statistics
Matches: 189, Mismatches: 24, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.06
14 55 0.29
15 16 0.08
16 65 0.34
17 11 0.06
18 31 0.16
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATATTATATACTAT
Found at i:26710 original size:108 final size:108
Alignment explanation
Indices: 26553--26936 Score: 382
Period size: 108 Copynumber: 3.5 Consensus size: 108
26543 TAATGTTTTC
* *
26553 AGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
26618 TTTAGGCGCTACATAATATGTTGATAACATTGATAACAAATCA
66 TTTAGGCGCTACATAATATGTTGATAACATTGATAACAAATCA
* * **
26661 AGTAATTAACCTATTTTGTTATCGTCAGATTTTTAAGGC-CCAATTAGCTTTAAACAAGTGCTAC
1 AGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCTCC-ATCAGC-TTAAAC---T--TTG
* * * * * * *** ****
26725 ATATTACATTAAATAAGTGCTACTTGATATGTT-ATTATGGTTGATAATGTTTCCA
59 GTA--ACATT--TTAGGCGCTACATAATATGTTGA-TAACATTGATAACAAAT-CA
*
26780 A-TAATTAACCTATTTTGTTATCCT-AGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
1 AGTAATTAACCTATTTTGTTATCGTCA-GATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
* * *
26843 TTTTAGGCGCTACCTAATATATTGATAATATTGATAACAAATCA
65 TTTTAGGCGCTACATAATATGTTGATAACATTGATAACAAATCA
*
26887 AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGC-CACATCAGCTT
1 AGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCTC-CATCAGCTT
26937 TAAAAAGGTG
Statistics
Matches: 217, Mismatches: 40, Indels: 38
0.74 0.14 0.13
Matches are distributed among these distances:
107 6 0.03
108 108 0.50
109 8 0.04
110 5 0.02
112 4 0.02
114 4 0.02
116 5 0.02
117 8 0.04
118 64 0.29
119 5 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (108 bp):
AGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGCTACATAATATGTTGATAACATTGATAACAAATCA
Found at i:26828 original size:226 final size:226
Alignment explanation
Indices: 26407--27015 Score: 940
Period size: 226 Copynumber: 2.7 Consensus size: 226
26397 ATGTACATGG
* * * *
26407 TAATATATTGATAATGTTGA-AA-AAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * *
26470 AGGCCTC-ATCAGCTTTAAACAGGCGTTACCTATTACATTAAATAAGCGCTACTTGTTATGTGAT
66 AGGCC-CAATCAGCTTTAAACAAGTGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTAT
* *
26534 TATGGTTGATAATGTTTTCAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCTCCATCA
130 TATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCATAGGATTTCTAAGGCTCCATCA
26599 GCTTAAACTTTGGTAACATTTTAGGCGCTACA
195 GCTTAAACTTTGGTAACATTTTAGGCGCTACA
* * *
26631 TAATATGTTGATAACATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * *
26696 AGGCCCAATTAGCTTTAAACAAGTGCTACATATTACATTAAATAAGTGCTACTTGATATGTTATT
66 AGGCCCAATCAGCTTTAAACAAGTGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* *
26761 ATGGTTGATAATGTTTCCAATAATTAACCTATTTTGTTATCCTAGGATTTCTAAGGCTCCATCAG
131 ATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCATAGGATTTCTAAGGCTCCATCAG
*
26826 CTTAAACTTTGGTAACATTTTAGGCGCTACC
196 CTTAAACTTTGGTAACATTTTAGGCGCTACA
*
26857 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * *
26922 AGG-CCACATCAGCTTTAAA-AAGGTGCTACCTATTACGTTACATAAGCGCTACCTGTTATGTTA
66 AGGCCCA-ATCAGCTTTAAACAA-GTGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTA
26985 TTATGGTTGATAATGTTTCCAGTAATTAACC
129 TTATGGTTGATAATGTTTCCAGTAATTAACC
27016 GGTTATGTTA
Statistics
Matches: 348, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
224 17 0.05
225 8 0.02
226 323 0.93
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (226 bp):
TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
AGGCCCAATCAGCTTTAAACAAGTGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
ATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCATAGGATTTCTAAGGCTCCATCAG
CTTAAACTTTGGTAACATTTTAGGCGCTACA
Found at i:29026 original size:2 final size:2
Alignment explanation
Indices: 29021--29051 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29011 TAAATGCAAC
29021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29052 TTTAAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31710 original size:8 final size:8
Alignment explanation
Indices: 31668--31720 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
31658 AAAATGTTAG
31668 TAAAA-AA
1 TAAAATAA
31675 TAAAATAAA
1 TAAAAT-AA
31684 TAAAATAA
1 TAAAATAA
*
31692 -ATACATGAA
1 TA-AAAT-AA
31701 TAAAATAA
1 TAAAATAA
31709 TAAAATAA
1 TAAAATAA
31717 TAAA
1 TAAA
31721 TCAATGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 6 0.15
8 19 0.49
9 13 0.33
10 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (8 bp):
TAAAATAA
Found at i:31730 original size:25 final size:26
Alignment explanation
Indices: 31673--31786 Score: 75
Period size: 24 Copynumber: 4.6 Consensus size: 26
31663 GTTAGTAAAA
* *
31673 AATAAAATAAATAAAATAAATACATG
1 AATAAAATAAATAAAATAAATAAATC
31699 AATAAAAT-AATAAAAT-AATAAATC
1 AATAAAATAAATAAAATAAATAAATC
* * *
31723 AATGAAA-AAAGAAAAGAAA-AGAA--
1 AATAAAATAAATAAAATAAATA-AATC
*
31746 AATAAAATAAA-AGAATAAATCAAA--
1 AATAAAATAAATAAAATAAAT-AAATC
*
31770 AAGAAAAATAAATAAAA
1 AA-TAAAATAAATAAAA
31787 AAAAGAATGG
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
23 12 0.17
24 26 0.37
25 21 0.30
26 11 0.16
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (26 bp):
AATAAAATAAATAAAATAAATAAATC
Found at i:31765 original size:17 final size:17
Alignment explanation
Indices: 31678--31794 Score: 72
Period size: 17 Copynumber: 7.2 Consensus size: 17
31668 TAAAAAATAA
31678 AATAAATAAAATAAATA-
1 AATAAATAAAATAAA-AG
* *
31695 CATGAATAAAATAATAA-
1 AATAAATAAAATAA-AAG
* *
31712 AAT-AAT-AAATCAATG
1 AATAAATAAAATAAAAG
* * *
31727 AAAAAAGAAAAGAAAAG
1 AATAAATAAAATAAAAG
31744 -A-AAATAAAATAAAAG
1 AATAAATAAAATAAAAG
31759 AATAAATCAAAA-AGAAA-
1 AATAAAT-AAAATA-AAAG
31776 AATAAATAAAA-AAAAG
1 AATAAATAAAATAAAAG
31792 AAT
1 AAT
31795 GGAAAAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
14 1 0.01
15 22 0.28
16 15 0.19
17 33 0.42
18 8 0.10
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (17 bp):
AATAAATAAAATAAAAG
Found at i:31800 original size:29 final size:29
Alignment explanation
Indices: 31727--31800 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
31717 TAAATCAATG
*
31727 AAAAAAGAAAAGAAAAGAAAATAAAATAA
1 AAAAAAGAATAGAAAAGAAAATAAAATAA
*
31756 AAGAATA-AATCA-AAAAGAAAA-ATAAATAA
1 AA-AAAAGAAT-AGAAAAGAAAATA-AAATAA
*
31785 AAAAAAGAATGGAAAA
1 AAAAAAGAATAGAAAA
31801 ATAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
28 4 0.11
29 28 0.78
30 4 0.11
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.09
Consensus pattern (29 bp):
AAAAAAGAATAGAAAAGAAAATAAAATAA
Found at i:31903 original size:5 final size:5
Alignment explanation
Indices: 31871--31913 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
31861 AATAAAATAA
* * * *
31871 AAATA AAATT TAATT TAATT AAAAT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
31914 AATGAAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:32877 original size:37 final size:35
Alignment explanation
Indices: 32826--33239 Score: 347
Period size: 37 Copynumber: 11.4 Consensus size: 35
32816 GGCTCCCTTG
*
32826 ACTATATAATATATATTTTTAAAAAATTTGTTTTAAA
1 ACTATATATTATATATTTTTAAAAAA--TGTTTTAAA
** * *
32863 ACTATATATAATATATATTTCAAAAAAATATTTCAAA
1 ACTATATAT--TATATATTTTTAAAAAATGTTTTAAA
* * * *
32900 ACCATATATTATATAATTTTAAAAATTGTTTTCAA
1 ACTATATATTATATATTTTTAAAAAATGTTTTAAA
* * *
32935 ACTATATGTTATATAGTTTTCAAAAATGTTTTAAA
1 ACTATATATTATATATTTTTAAAAAATGTTTTAAA
* * *
32970 AC--TATATTATATGTTTTCAAAAATATTTTTTCAAAA
1 ACTATATATTATATATTTTTAAAAA-ATGTTTT--AAA
* *
33006 ACTATATATTATATATATTTTCAAAATAT-TTTCAAA
1 ACTATATATTATATAT-TTTT-AAAAAATGTTTTAAA
*
33042 ACTATATA--ATATATGTTTTCAAAAATGTTTTCAAAAA
1 ACTATATATTATATAT-TTTTAAAAAATGTTTT---AAA
*
33079 ACTATATATTATATA-TTTT-CAAAATGATTTTAAAA
1 ACTATATATTATATATTTTTAAAAAATG-TTTT-AAA
* ***
33114 ATTATATATATTATATATTTTTTTTAAATGTTTTAAAA
1 A--CTATATATTATATATTTTTAAAAAATGTTTT-AAA
* *
33152 ACTATATATTATATAATTTTCAAAAATGTTTTAAAA
1 ACTATATATTATATATTTTTAAAAAATGTTTT-AAA
* *
33188 ACTATATAATATATATATTTTAAAAAATATTTTGAAA
1 ACTATATATTATATAT-TTTTAAAAAATGTTTT-AAA
33225 ACTATATATTATATA
1 ACTATATATTATATA
33240 CGTATTTTCA
Statistics
Matches: 308, Mismatches: 48, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
33 21 0.07
34 19 0.06
35 55 0.18
36 66 0.21
37 86 0.28
38 27 0.09
39 30 0.10
40 4 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (35 bp):
ACTATATATTATATATTTTTAAAAAATGTTTTAAA
Found at i:33071 original size:12 final size:12
Alignment explanation
Indices: 33054--33078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33044 TATATAATAT
33054 ATGTTTTCAAAA
1 ATGTTTTCAAAA
33066 ATGTTTTCAAAA
1 ATGTTTTCAAAA
33078 A
1 A
33079 ACTATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:37445 original size:3 final size:3
Alignment explanation
Indices: 37439--37502 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
37429 CATTTGCTTA
*
37439 TAT TATT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
37484 TGT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
37503 AATAATAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 3 0.06
3 48 0.89
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:38865 original size:2 final size:2
Alignment explanation
Indices: 38826--38850 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38816 TTATAAATAA
38826 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38851 AGAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39224 original size:22 final size:22
Alignment explanation
Indices: 39197--39258 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
39187 TTCTATATAT
39197 TATAATATATTAGATTATTATC
1 TATAATATATTAGATTATTATC
*
39219 TATAATAT-TCTAAATTATTATC
1 TATAATATAT-TAGATTATTATC
*
39241 TAT-ATA-ATTAGATAATTA
1 TATAATATATTAGATTATTA
39259 AATTAGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 8 0.23
21 5 0.14
22 22 0.63
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (22 bp):
TATAATATATTAGATTATTATC
Found at i:40137 original size:18 final size:17
Alignment explanation
Indices: 40104--40153 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
40094 TGGCGACTCC
40104 CAAAATATTT-TTTAAT
1 CAAAATATTTATTTAAT
40120 CAAAATCATTTATTTAAT
1 CAAAAT-ATTTATTTAAT
40138 CAAAATTATTTATTTA
1 CAAAA-TATTTATTTA
40154 TTTGTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.19
17 4 0.13
18 20 0.65
19 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (17 bp):
CAAAATATTTATTTAAT
Found at i:47512 original size:19 final size:18
Alignment explanation
Indices: 47488--47524 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
47478 GCAATCATTC
*
47488 TTTACATTCTTTACATTTT
1 TTTACATTCATTA-ATTTT
47507 TTTACATTCATTAATTTT
1 TTTACATTCATTAATTTT
47525 CATTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTACATTCATTAATTTT
Found at i:51433 original size:18 final size:18
Alignment explanation
Indices: 51410--51444 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51400 CAAGTTTATC
51410 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
51428 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
51445 GTTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:52435 original size:22 final size:21
Alignment explanation
Indices: 52384--52435 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
52374 CATCTACATC
52384 TTCAAAGATGATAGATTCTCT
1 TTCAAAGATGATAGATTCTCT
* * * *
52405 CTCTGAAGATGATAGTTTCTTTT
1 TTC-AAAGATGATAGATTC-TCT
52428 TTCAAAGA
1 TTCAAAGA
52436 CGAAAGCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.09
22 17 0.74
23 4 0.17
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCAAAGATGATAGATTCTCT
Found at i:53154 original size:124 final size:123
Alignment explanation
Indices: 52930--53354 Score: 580
Period size: 124 Copynumber: 3.5 Consensus size: 123
52920 CACTCGATGA
52930 ATCAACTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG--AAGAAGTTCAT
1 ATCAACTTTTCCAGAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAGAAGTTCAT
* * *
52992 AATTAGAAGAGCTTGTTTAACCTTTTGCATGACTCTATCACAGAAGGAGTTAGATCAGT
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCA-T
* *
53051 ATCAACTTCTCCA-AAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAAAAGAAGTTCA
1 ATCAACTTTTCCAGAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AAAAGAAGTTCA
* *
53115 TAATGAGAAGAGCTTGTTCAGCCTTTTGCATGACTCTATCACAGAATGAGATAGATCAT
65 TAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAT
*
53174 CATCAACTTTTCCAGAA-AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTC
1 -ATCAACTTTTCCAGAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-AAGAAGTTC
* * * * * *
53237 ATAATGAGAAGAACTTGTTCAACCTTTAT--TTAATTCTATCACAGAAGAAGATCGATCAAT
64 ATAATGAGAAGAGCTTGTTCAACCTTT-TGCATGACTCTATCACAGAAGGAGATAGATC-AT
* * *
53297 ATCAGCATTTCCAGAAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAA
1 ATCAACTTTTCCAGAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAGAA
53355 TTTGTTCAAC
Statistics
Matches: 271, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
121 48 0.18
122 72 0.27
123 44 0.16
124 105 0.39
125 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (123 bp):
ATCAACTTTTCCAGAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAT
Found at i:53256 original size:20 final size:20
Alignment explanation
Indices: 53194--53257 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
53184 TCCAGAAAAA
53194 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
53214 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
53233 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
53253 GTTCA
1 GTTCA
53258 ACCTTTATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:53611 original size:16 final size:15
Alignment explanation
Indices: 53590--53628 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
53580 CATTTGCTTA
53590 TATTATTTATTATTAT
1 TATTATTTA-TATTAT
53606 TATTATGTTATATTAT
1 TATTAT-TTATATTAT
53622 TATTATT
1 TATTATT
53629 AAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:54365 original size:25 final size:25
Alignment explanation
Indices: 54295--54365 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
54285 AGTCATTAAC
*
54295 TTTAAATTAT-TA-GTTTATTA-TT
1 TTTAATTTATATATGTTTATTATTT
*
54317 TTTAATTTCATTTAT-TTTAGTTATTGT
1 TTTAATTT-ATATATGTTTA-TTATT-T
54344 TTTAATTT-TATATGTTTATTAT
1 TTTAATTTATATATGTTTATTAT
54366 CACTATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 7 0.17
23 2 0.05
24 6 0.15
25 11 0.28
26 5 0.12
27 9 0.22
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (25 bp):
TTTAATTTATATATGTTTATTATTT
Found at i:54427 original size:2 final size:2
Alignment explanation
Indices: 54379--54412 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
54369 TATATTTAAA
54379 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54413 AGAAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55012 original size:18 final size:19
Alignment explanation
Indices: 54989--55035 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
54979 TGACGACTCC
*
54989 CAAAAT-ATTTTTTTTAAT
1 CAAAATCATTTTGTTTAAT
55007 CAAAATCA-TTTGTTTAAT
1 CAAAATCATTTTGTTTAAT
*
55025 TAAAATCATTT
1 CAAAATCATTT
55036 ATTTATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (19 bp):
CAAAATCATTTTGTTTAAT
Found at i:55040 original size:18 final size:18
Alignment explanation
Indices: 55001--55040 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
54991 AAATATTTTT
*
55001 TTTAATCAAAATCATTTG
1 TTTAATCAAAATCATTTA
*
55019 TTTAATTAAAATCATTTA
1 TTTAATCAAAATCATTTA
55037 TTTA
1 TTTA
55041 TTCATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTAATCAAAATCATTTA
Found at i:56656 original size:16 final size:15
Alignment explanation
Indices: 56630--56660 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
56620 ATGTATGACC
56630 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
56645 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
56661 CCGGCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:56838 original size:4 final size:4
Alignment explanation
Indices: 56807--56866 Score: 59
Period size: 4 Copynumber: 15.0 Consensus size: 4
56797 GACCTGAAAC
* * **
56807 AAAT -AAT AAAT AAGT AAAT GAAAA AAAT AAAT AAAT AAAT AAAT GGAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
56855 AAAT TAAT AAAT
1 AAAT AAAT AAAT
56867 TAATTAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 3 0.07
4 38 0.86
5 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:56849 original size:25 final size:24
Alignment explanation
Indices: 56801--56866 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
56791 ATCCTGGACC
* *
56801 TGAAACAAATAATAAATAAGTAAA
1 TGAAAAAAATAATAAATAAATAAA
56825 TGAAAAAAATAAATAAATAAATAAA
1 TGAAAAAAAT-AATAAATAAATAAA
* * *
56850 TGGATAAATTAATAAAT
1 TGAAAAAAATAATAAAT
56867 TAATTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.24
Consensus pattern (24 bp):
TGAAAAAAATAATAAATAAATAAA
Found at i:56979 original size:36 final size:35
Alignment explanation
Indices: 56870--57077 Score: 267
Period size: 35 Copynumber: 5.8 Consensus size: 35
56860 AATAAATTAA
* *
56870 TTAAAAAC--ATTTTTAAAACTATACAATATATACTT
1 TTAAAAACTAATTTTCAAAACTATATAATATAT--TT
*
56905 TTAAAAAAAATAATTTTCAAAACTATATAATATATTT
1 TT--AAAAACTAATTTTCAAAACTATATAATATATTT
56942 TTAAAAACTAATTTTCAAAACTATATAATATATTTT
1 TTAAAAACTAATTTTCAAAACTATATAATATA-TTT
56978 TTAAAAACTAATTTTCAAAACTATATAATATATATATT
1 TTAAAAACTAATTTTCAAAACTATAT-A-ATATAT-TT
* *
57016 TTAAAAACTAATTTTCAAAATTATATAATATATAT
1 TTAAAAACTAATTTTCAAAACTATATAATATATTT
* *
57051 TTAGAAACTAATTTTCAAAATTATATA
1 TTAAAAACTAATTTTCAAAACTATATA
57078 TACGTTTTTT
Statistics
Matches: 158, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
35 58 0.37
36 35 0.22
37 12 0.08
38 32 0.20
39 21 0.13
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (35 bp):
TTAAAAACTAATTTTCAAAACTATATAATATATTT
Found at i:57059 original size:109 final size:106
Alignment explanation
Indices: 56870--57157 Score: 327
Period size: 109 Copynumber: 2.7 Consensus size: 106
56860 AATAAATTAA
* *
56870 TTAAAAAC-ATTTTTAAAACTATACAATATATACT-TTTAAAAAAAATAATTTTCAAAACTATAT
1 TTAAAAACTATTTTTAAAACTATATAATATATA-TATTT--TAAAAATAATTTTCAAAACTATAT
* *
56933 AATATATTTTTAAAAACTAATTTTCAAAACTATATAATATATTTT
63 AATATATATTTAAAAACTAATTTTCAAAACTATAT-ATACATTTT
* *
56978 TTAAAAACTAATTTTCAAAACTATATAATATATATATTTTAAAAACTAATTTTCAAAATTATATA
1 TTAAAAACT-ATTTTTAAAACTATATAATATATATATTTTAAAAA-TAATTTTCAAAACTATATA
* * *
57043 ATATATATTTAGAAACTAATTTTCAAAATTATATATACGTTTT
64 ATATATATTTAAAAACTAATTTTCAAAACTATATATACATTTT
* * * *
57086 TTCAAAA-TGTTTTTAAAAGCTATAT-ATGATATATA-CTTAAAAA-AAGTTTTCAAAACAATAT
1 TTAAAAACTATTTTTAAAA-CTATATAAT-ATATATATTTTAAAAATAA-TTTTCAAAACTATAT
*
57147 AATATGTATTT
63 AATATATATTT
57158 TCAAAAATGT
Statistics
Matches: 157, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
104 2 0.01
105 23 0.15
106 17 0.11
107 14 0.09
108 26 0.17
109 50 0.32
110 25 0.16
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (106 bp):
TTAAAAACTATTTTTAAAACTATATAATATATATATTTTAAAAATAATTTTCAAAACTATATAAT
ATATATTTAAAAACTAATTTTCAAAACTATATATACATTTT
Found at i:57164 original size:36 final size:35
Alignment explanation
Indices: 56870--57194 Score: 248
Period size: 36 Copynumber: 9.0 Consensus size: 35
56860 AATAAATTAA
* * *
56870 TTAAAAACATTTTTAAAACTATACAATATATACTTT
1 TTAAAAAAATTTTCAAAACTATATAATATATA-TTT
*
56906 TAAAAAAAATAATTTTCAAAACTATAT-A-ATATATTT
1 T--TAAAAA-AATTTTCAAAACTATATAATATATATTT
56942 TTAAAAACTAATTTTCAAAACTATATAATATAT-TTT
1 TTAAAAA--AATTTTCAAAACTATATAATATATATTT
56978 TTAAAAACTAATTTTCAAAACTATATAATATATATATT
1 TTAAAAA--AATTTTCAAAACTATATAATATATAT-TT
*
57016 TTAAAAACTAATTTTCAAAATTATATAATATATATTT
1 TTAAAAA--AATTTTCAAAACTATATAATATATATTT
** ** * **
57053 AGAAACTAATTTTCAAAATTATAT-ATACGT-TTT
1 TTAAAAAAATTTTCAAAACTATATAATATATATTT
* ** * **
57086 TTCAAAATGTTTTTAAAAGCTATAT-ATGATATATAC
1 TTAAAAAAATTTTCAAAA-CTATATAAT-ATATATTT
* *
57122 TTAAAAAAAGTTTTCAAAACAATATAATATGTATTT
1 TTAAAAAAA-TTTTCAAAACTATATAATATATATTT
* ** * *
57158 TCAAAAATGTTTTCAAAAATTATATATTATATATTT
1 TTAAAAAAATTTTC-AAAACTATATAATATATATTT
57194 T
1 T
57195 CGAAATATTT
Statistics
Matches: 235, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
33 13 0.06
34 16 0.07
35 42 0.18
36 83 0.35
37 25 0.11
38 42 0.18
39 14 0.06
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.43
Consensus pattern (35 bp):
TTAAAAAAATTTTCAAAACTATATAATATATATTT
Found at i:57195 original size:36 final size:35
Alignment explanation
Indices: 56872--57236 Score: 210
Period size: 36 Copynumber: 10.1 Consensus size: 35
56862 TAAATTAATT
* * * * *
56872 AAAAACATTTTTAAAACTATACAATATATACTTTTAAA
1 AAAAATATTTTCAAAACTATATATTATATA-TTTT--C
*
56910 AAAAATAATTTTCAAAACTATATA--ATATATTTTT
1 AAAAAT-ATTTTCAAAACTATATATTATATATTTTC
* *
56944 AAAAACTAATTTTCAAAACTATATAATATAT-TTTTT
1 AAAAA-T-ATTTTCAAAACTATATATTATATATTTTC
56980 AAAAACTAATTTTCAAAACTATATAATATATATATTTT-
1 AAAAA-T-ATTTTCAAAACTATAT-AT-TATATATTTTC
* *
57018 AAAAACTAATTTTCAAAATTATATAATATATA-TTT-
1 AAAAA-T-ATTTTCAAAACTATATATTATATATTTTC
* * ** *
57053 AGAAACTAATTTTCAAAATTATATA-TACGTTTTTTC
1 A-AAAAT-ATTTTCAAAACTATATATTATATATTTTC
* * * *
57089 -AAAATGTTTTTAAAAGCTATATATGATATATACTT-
1 AAAAATATTTTCAAAA-CTATATATTATATAT-TTTC
* * * *
57124 AAAAAAAGTTTTCAAAACAATATAATATGTATTTTC
1 AAAAATA-TTTTCAAAACTATATATTATATATTTTC
* *
57160 AAAAATGTTTTCAAAAATTATATATTATATATTTTC
1 AAAAATATTTTC-AAAACTATATATTATATATTTTC
* ** *
57196 -GAAATATTTAAAAAAAACCATATATTATATAATTTTC
1 AAAAATATTT--TCAAAACTATATATTATAT-ATTTTC
57233 AAAA
1 AAAA
57237 TGATTTCAAA
Statistics
Matches: 265, Mismatches: 41, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
33 8 0.03
34 18 0.07
35 62 0.23
36 98 0.37
37 25 0.09
38 35 0.13
39 19 0.07
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.41
Consensus pattern (35 bp):
AAAAATATTTTCAAAACTATATATTATATATTTTC
Found at i:57922 original size:82 final size:81
Alignment explanation
Indices: 57858--59273 Score: 849
Period size: 85 Copynumber: 17.0 Consensus size: 81
57848 GCTTGATTTT
* *
57858 CCTCTAAGTTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
57923 GCTGCAAATGATGTGC
66 GCTGCAAATGATGTGC
* * * ** * *
57939 CCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
*
58004 ACTGCAAATGATGTG-
66 GCTGCAAATGATGTGC
* * * * * * * * *
58019 CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTGGTGGGCAGATAGCCCTTCTGGCCTTGAGC
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTT--T-AGCAGATAGCCCTTCTCGACTTAAGC
* * *
58084 TATGCTGTAAATAATATGC
63 TATGCTGCAAATGATGTGC
* * * * * **
58103 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTAACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
58167 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * * *
58188 CTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTAT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
*
58253 TCTGCAAATGATGTG-
66 GCTGCAAATGATGTGC
* * *** * * * * * *
58268 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGGT-GACAGATAACCCTTCTAGCCTTGAG
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTT---TAG-CAGATAGCCCTTCTCGACTTAAG
* * *
58332 TTATGCTGTAAATGATATGC
62 CTATGCTGCAAATGATGTGC
* * * * * *
58352 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
58416 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * *
58437 CTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
*
58502 TCTGC-AATGATGTG-
66 GCTGCAAATGATGTGC
* * *** * * * * * *
58516 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGGT-GACAGATAACCCTTCTAGCCTTGAG
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTT---TAG-CAGATAGCCCTTCTCGACTTAAG
* * *
58580 TTATGCTGTAAATGATATGC
62 CTATGCTGCAAATGATGTGC
* * * * * *
58600 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
58664 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * * * * * * *
58685 CTTCGAAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTT--AG-CAGATAGCCCTTCTCGACTTAAGC
* *
58750 TATGCTGTAAATGATATGC
63 TATGCTGCAAATGATGTGC
* * * * * *
58769 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
58833 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * * * * * * *
58854 CTTCGAAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTT--AG-CAGATAGCCCTTCTCGACTTAAGC
* *
58919 TATGCTGTAAATGATATGC
63 TATGCTGCAAATGATGTGC
* * * * * *
58938 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
59002 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * * * * * * *
59023 CTTCGAAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTT--AG-CAGATAGCCCTTCTCGACTTAAGC
* *
59088 TATGCTGTAAATGATATGC
63 TATGCTGCAAATGATGTGC
* * * * * *
59107 CCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
1 CCTCGAAGCTGAATATAATCGAACTCGAA-GGTCTTTA----GCAGATAGCCCTTCTCGACTTAA
* *
59171 GTTATACTGCAAATGATGTGC
61 GCTATGCTGCAAATGATGTGC
* ** * * *
59192 CTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
59257 TCTGCAAATGATATGC
66 GCTGCAAATGATGTGC
59273 C
1 C
59274 TTTGAGCGTA
Statistics
Matches: 1071, Mismatches: 202, Indels: 124
0.77 0.14 0.09
Matches are distributed among these distances:
79 29 0.03
80 67 0.06
81 181 0.17
82 29 0.03
83 93 0.09
84 277 0.26
85 381 0.36
86 14 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (81 bp):
CCTCGAAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATGTGC
Found at i:58158 original size:249 final size:250
Alignment explanation
Indices: 57895--59346 Score: 2052
Period size: 249 Copynumber: 5.8 Consensus size: 250
57885 AAGGTCTTTA
* * * * * ** *
57895 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
* * * *
57960 AACTTGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGG
66 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
* * * * * *
58025 AGCTGAGTGTAGTCGAACTCGAAGGTC-TTGGTGGGCAGATAGCCCTTCTGGCCTTGAGCTATGC
131 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAGTTATGC
*
58089 TGTAAATAATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
196 TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
*
58144 GCAGATAACCCTTCTTAACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
*
58209 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATTCTGCAAATGATGTGCCTTGG
66 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
*
58274 AGCTGAGCGTAGTCGAACTCAAAGGTCTTGGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGC
131 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAGTTATGC
58338 TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
196 TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
58393 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
58458 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGC-AATGATGTGCCTTGG
66 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
*
58522 AGCTGAGCGTAGTCGAACTCAAAGGTCTTGGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGC
131 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAGTTATGC
58586 TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
196 TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
58641 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
* * * * * * * * * *
58706 AACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCC
66 AACTCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-CC
* * * * * * * * *
58771 TTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGG-CAGATAACCCTTCTTGACTTAAGT
127 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GGTGGACAGATAACCCTTCTAGCCTTGAGT
* * * ** * * * *
58835 TATACTGCAAATGATGTG-CCTTCGAAGCTGAACGTAGTCGAACTCAAAGGTCTTT-GGTG
191 TATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
* * * * * * * ** *
58894 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAATC
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTG-CCTTCGAAGCTGAACGTAGTC
** * * * *
58958 GAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGC
65 GAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGC
* *
59023 CTTCGAAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGT-GACAGATAACCCTTCTAGCCTTGAG
126 CTT-GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAG
59087 TTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
190 TTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
59148 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
*
59213 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATGCCTT--
66 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
*
59276 ---TGAGCGTAGTTGAACTCAAAGGTCTTTGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGC
131 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAGTTATGC
59337 TGTAAATGAT
196 TGTAAATGAT
59347 TTGTTTAAAA
Statistics
Matches: 1076, Mismatches: 108, Indels: 43
0.88 0.09 0.04
Matches are distributed among these distances:
244 69 0.06
248 212 0.20
249 335 0.31
250 50 0.05
251 25 0.02
252 10 0.01
253 170 0.16
254 199 0.18
255 3 0.00
256 1 0.00
257 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (250 bp):
GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCG
AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGACAGATAACCCTTCTAGCCTTGAGTTATGC
TGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
Found at i:58733 original size:169 final size:169
Alignment explanation
Indices: 57876--59278 Score: 1823
Period size: 169 Copynumber: 8.4 Consensus size: 169
57866 TTGAATATAA
* * * * * * * * *
57876 TCGAACTCGAAGGTCTTT--AG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
* ** * * *
57938 CCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC--T--TTGGCAGATAGCTCTTCTCGACTTAA
66 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
* * **
57999 GCTATACTGCAAATGATGTGCCTT-GGAGCTGAGTGTAG
131 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
* * * * * *
58037 TCGAACTCGAAGGTC-TTGGTGGGCAGATAGCCCTTCTGGCCTTGAGCTATGCTGTAAATAATAT
1 TCGAACTCAAAGGTCTTTGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATAT
*
58101 GCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTAACTTA
65 GCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTA
58166 AGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
130 AGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
* * * * * * * * *
58206 TCGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCA-ACTTAAGCTATTCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCT-AGCCTTGAGTTATGCTGTAAATGATAT
* * * * * * * * * * *
58267 G-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTGGGTGACAGATAACCCTTCTAGCCTTG
65 GCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTA
* * * ** *
58330 AGTTATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAA
130 AGTTATACTGCAAATGATGTG-CCTTCGAAGCTGAACGTAG
* * * * * * * * * *
58370 TCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGT
1 TCGAACTCAAAGGTCTTT-GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATAT
** * ** * *
58435 G-CCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTT
65 GCCCTT-GAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTT
* * * *
58495 AAGCTATTCTGC-AATGATGTGCCTT-GGAGCTGAGCGTAG
129 AAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
*
58534 TCGAACTCAAAGGTCTTGGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
58599 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
66 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
58664 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
131 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
58703 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
58768 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
66 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
58833 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
131 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
58872 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
58937 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
66 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
59002 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
131 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
59041 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
59106 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
66 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
59171 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
131 GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
* * * * * * * * *
59210 TCGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
*
59272 CCTTTGA
66 CCCTTGA
59279 GCGTAGTTGA
Statistics
Matches: 1116, Mismatches: 101, Indels: 45
0.88 0.08 0.04
Matches are distributed among these distances:
160 2 0.00
161 15 0.01
163 64 0.06
164 168 0.15
165 41 0.04
166 103 0.09
167 35 0.03
168 101 0.09
169 585 0.52
170 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (169 bp):
TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAA
GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAG
Found at i:62708 original size:18 final size:19
Alignment explanation
Indices: 62667--62711 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
62657 AGTTAATGTG
62667 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
62686 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
62704 AATGCAAA
1 AATGCAAA
62712 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:64492 original size:20 final size:21
Alignment explanation
Indices: 64456--64498 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
64446 AATAAATCAG
64456 AAATAAAAGGGAAAAAA-AAC
1 AAATAAAAGGGAAAAAATAAC
*
64476 AAATCAAAA-GGAGAAAATAAC
1 AAAT-AAAAGGGAAAAAATAAC
64497 AA
1 AA
64499 TAATAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (21 bp):
AAATAAAAGGGAAAAAATAAC
Found at i:65674 original size:16 final size:15
Alignment explanation
Indices: 65648--65678 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
65638 ATGTATGACC
65648 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
65663 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
65679 CCGGCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:65865 original size:23 final size:23
Alignment explanation
Indices: 65820--65867 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
65810 ATCCTGGACC
* *
65820 TGAAACAAATAATAAATAGTAAA
1 TGAAACAAAAAATAAATAATAAA
65843 TGAAA-AAAAAATAAATAAATAAA
1 TGAAACAAAAAATAAAT-AATAAA
65866 TG
1 TG
65868 GATAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (23 bp):
TGAAACAAAAAATAAATAATAAA
Found at i:65925 original size:35 final size:35
Alignment explanation
Indices: 65886--66209 Score: 268
Period size: 35 Copynumber: 9.1 Consensus size: 35
65876 AATAAATTAA
* *
65886 TTAAAAAC-ATTTTTAAAACTATACAATATATACTT
1 TTAAAAACAATTTTCAAAACTATATAATATATA-TT
*
65921 TTAAAAAAAATAATTTTCAAAACTATATAATATAT-TT
1 TT---AAAAACAATTTTCAAAACTATATAATATATATT
65958 TTAAAAACTAATTTTCAAAACTATATAATATAT-TT
1 TTAAAAAC-AATTTTCAAAACTATATAATATATATT
65993 TTAAAAACTAATTTTCAAAACTATATAATATATATATT
1 TTAAAAAC-AATTTTCAAAACTATAT-A-ATATATATT
*
66031 TTAAAAACTAATTTTCAAAATTATATAATATATA-T
1 TTAAAAAC-AATTTTCAAAACTATATAATATATATT
* * ** *
66066 TTAGAAACTAATTTTCAAAATTATAT-ATACGTTTT
1 TTAAAAAC-AATTTTCAAAACTATATAATATATATT
* ** * * *
66101 TTCAAAA-TGTTTTTAAAAGCTATATATTATATATAC
1 TTAAAAACAATTTTCAAAA-CTATATAATATATAT-T
* *
66137 TTAAAAA-AAGTTTTCAAAACAATATAATATGTATT
1 TTAAAAACAA-TTTTCAAAACTATATAATATATATT
** * *
66172 TTCAAAAA-TGTTTTCAAAAATTATATATTATATATT
1 TT-AAAAACAATTTTC-AAAACTATATAATATATATT
66208 TT
1 TT
66210 CGAAATATTT
Statistics
Matches: 240, Mismatches: 34, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
33 8 0.03
34 14 0.06
35 97 0.40
36 49 0.20
37 19 0.08
38 32 0.13
39 21 0.09
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (35 bp):
TTAAAAACAATTTTCAAAACTATATAATATATATT
Found at i:65952 original size:73 final size:71
Alignment explanation
Indices: 65875--66209 Score: 276
Period size: 73 Copynumber: 4.7 Consensus size: 71
65865 ATGGATAAAT
* * * * *
65875 TAATAAATTAATTAAAAAC-ATTTTTAAAACTATACAATATATACTTTTAAAAAAAATAATTTTC
1 TAATATATTATTTAAAAACAATTTTCAAAACTATATAATATATA-TTTT--AAAAACTAATTTTC
65939 AAAACTATA
63 AAAACTATA
65948 TAATATATT-TTTAAAAACTAATTTTCAAAACTATATAATATAT-TTTTAAAAACTAATTTTCAA
1 TAATATATTATTTAAAAAC-AATTTTCAAAACTATATAATATATATTTTAAAAACTAATTTTCAA
66011 AACTATA
65 AACTATA
* *
66018 TAATATATATATTTTAAAAACTAATTTTCAAAATTATATAATATATA-TTTAGAAACTAATTTTC
1 TAATATAT-TA-TTTAAAAAC-AATTTTCAAAACTATATAATATATATTTTAAAAACTAATTTTC
*
66082 AAAATTATA
63 AAAACTATA
** * * ** * * *
66091 T-ATACGTTTTTTCAAAA-TGTTTTTAAAAGCTATATATTATATATACTTAAAAA--AAGTTTTC
1 TAATATATTATTTAAAAACAATTTTCAAAA-CTATATAATATATAT-TTTAAAAACTAA-TTTTC
*
66152 AAAACAATA
63 AAAACTATA
* ** * *
66161 TAATATGTATT-TTCAAAAA-TGTTTTCAAAAATTATATATTATATATTTT
1 TAATA--TATTATTTAAAAACAATTTTC-AAAACTATATAATATATATTTT
66210 CGAAATATTT
Statistics
Matches: 220, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
68 8 0.04
69 14 0.06
70 50 0.23
71 13 0.06
72 42 0.19
73 72 0.33
74 21 0.10
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (71 bp):
TAATATATTATTTAAAAACAATTTTCAAAACTATATAATATATATTTTAAAAACTAATTTTCAAA
ACTATA
Found at i:65977 original size:13 final size:13
Alignment explanation
Indices: 65956--66050 Score: 51
Period size: 13 Copynumber: 7.6 Consensus size: 13
65946 TATAATATAT
65956 TTTTAAAAACTAA
1 TTTTAAAAACTAA
*
65969 TTTTCAAAACT-A
1 TTTTAAAAACTAA
* * *
65981 -TAT-AATA-TAT
1 TTTTAAAAACTAA
65991 TTTTAAAAACTAA
1 TTTTAAAAACTAA
*
66004 TTTTCAAAACT-A
1 TTTTAAAAACTAA
* *
66016 -TATAATATA-TATA
1 TTTTAA-AAACTA-A
66029 TTTTAAAAACTAA
1 TTTTAAAAACTAA
66042 TTTTCAAAA
1 TTTT-AAAA
66051 TTATATAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 19
0.65 0.14 0.21
Matches are distributed among these distances:
9 1 0.02
10 3 0.05
11 8 0.14
12 7 0.12
13 30 0.51
14 10 0.17
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTTAAAAACTAA
Found at i:66208 original size:36 final size:35
Alignment explanation
Indices: 65888--66251 Score: 219
Period size: 35 Copynumber: 10.1 Consensus size: 35
65878 TAAATTAATT
* * * * *
65888 AAAAACATTTTTAAAACTATACAATATATACTTTTAAA
1 AAAAATATTTTCAAAACTATATATTATATA-TTTT--C
*
65926 AAAAATAATTTTCAAAACTATATA--ATATATTTTT
1 AAAAAT-ATTTTCAAAACTATATATTATATATTTTC
*
65960 AAAAACTAATTTTCAAAACTATATA--ATATATTTTT
1 AAAAA-T-ATTTTCAAAACTATATATTATATATTTTC
65995 AAAAACTAATTTTCAAAACTATATAATATATATATTTT-
1 AAAAA-T-ATTTTCAAAACTATAT-AT-TATATATTTTC
* *
66033 AAAAACTAATTTTCAAAATTATATAATATATA-TTT-
1 AAAAA-T-ATTTTCAAAACTATATATTATATATTTTC
* * ** *
66068 AGAAACTAATTTTCAAAATTATATA-TACGTTTTTTC
1 A-AAAAT-ATTTTCAAAACTATATATTATATATTTTC
* * *
66104 -AAAATGTTTTTAAAAGCTATATATTATATATACTT-
1 AAAAATATTTTCAAAA-CTATATATTATATAT-TTTC
* * * *
66139 AAAAAAAGTTTTCAAAACAATATAATATGTATTTTC
1 AAAAATA-TTTTCAAAACTATATATTATATATTTTC
* *
66175 AAAAATGTTTTCAAAAATTATATATTATATATTTTC
1 AAAAATATTTTC-AAAACTATATATTATATATTTTC
* ** *
66211 -GAAATATTTAAAAAAAACCATATATTATATAATTTTC
1 AAAAATATTT--TCAAAACTATATATTATAT-ATTTTC
66248 AAAA
1 AAAA
66252 TGATTTCAAA
Statistics
Matches: 268, Mismatches: 38, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
33 8 0.03
34 18 0.07
35 97 0.36
36 71 0.26
37 20 0.07
38 30 0.11
39 24 0.09
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (35 bp):
AAAAATATTTTCAAAACTATATATTATATATTTTC
Found at i:68106 original size:17 final size:16
Alignment explanation
Indices: 68058--68096 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
68048 TTAATTAAAA
*
68058 ATTAAA-ATAAT-TTA
1 ATTAAATATAATATTT
68072 ATTAAATATAATATTT
1 ATTAAATATAATATTT
68088 ATTAAATAT
1 ATTAAATAT
68097 TAGTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAAATATAATATTT
Found at i:72185 original size:17 final size:17
Alignment explanation
Indices: 72141--72178 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
72131 GTGTTATTGA
72141 AGTATCGATACACGACG
1 AGTATCGATACACGACG
72158 AGTATCGATACACGACG
1 AGTATCGATACACGACG
72175 AGTA
1 AGTA
72179 CTGATACTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (17 bp):
AGTATCGATACACGACG
Found at i:73165 original size:211 final size:211
Alignment explanation
Indices: 72801--73222 Score: 799
Period size: 211 Copynumber: 2.0 Consensus size: 211
72791 AAACTACAAA
*
72801 AATCCTTCATGGTTTTTGCAAGGATTTCAAGGGATTTCATCTCTGAACAATGAACCGTGCATACT
1 AATCCTTCATGGTTTTTGCAAGCATTTCAAGGGATTTCATCTCTGAACAATGAACCGTGCATACT
72866 CATCACATTATTCCTAGGTATTATCCGAATTTCATTTAACTTATTCATCTGAATATTACTTTTTT
66 CATCACATTATTCCTAGGTATTATCCGAATTTCATTTAACTTATTCATCTGAATATTACTTTTTT
72931 ACCTTTTTGTATCTAGATTGAACCTTTATGGTTTTTTGTTTTTAGTTTAATTTATTCACAAATTA
131 ACCTTTTTGTATCTAGATTGAACCTTTATGGTTTTTTGTTTTTAGTTTAATTTATTCACAAATTA
72996 TATTTGTTTTTAGGTT
196 TATTTGTTTTTAGGTT
73012 AATCCTTCATGGTTTTTGCAAGCATTTCAAGGGATTTCATCTCTGAACAATGAACCGTGCATACT
1 AATCCTTCATGGTTTTTGCAAGCATTTCAAGGGATTTCATCTCTGAACAATGAACCGTGCATACT
* * *
73077 CATCACATTATTCCTAGTTATTATTCGAATTTCATTTAACTTATTCATCTGAATATTATTTTTTT
66 CATCACATTATTCCTAGGTATTATCCGAATTTCATTTAACTTATTCATCTGAATATTACTTTTTT
*
73142 AGCTTTTTGTATCTAGATTGAACCTTTATGGTTTTTTGTTTTTAGTTTAATTTATTCACAAATTA
131 ACCTTTTTGTATCTAGATTGAACCTTTATGGTTTTTTGTTTTTAGTTTAATTTATTCACAAATTA
73207 TATTTGTTTTTAGGTT
196 TATTTGTTTTTAGGTT
73223 TTTACATATA
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
211 206 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.48
Consensus pattern (211 bp):
AATCCTTCATGGTTTTTGCAAGCATTTCAAGGGATTTCATCTCTGAACAATGAACCGTGCATACT
CATCACATTATTCCTAGGTATTATCCGAATTTCATTTAACTTATTCATCTGAATATTACTTTTTT
ACCTTTTTGTATCTAGATTGAACCTTTATGGTTTTTTGTTTTTAGTTTAATTTATTCACAAATTA
TATTTGTTTTTAGGTT
Found at i:75026 original size:15 final size:16
Alignment explanation
Indices: 74988--75028 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
74978 TGTGTCAAAG
74988 GTACCGATACGAGGAT
1 GTACCGATACGAGGAT
*
75004 GTATCGATACTG-GG-T
1 GTACCGATAC-GAGGAT
75019 GTACCGATAC
1 GTACCGATAC
75029 ACACTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 11 0.50
17 1 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (16 bp):
GTACCGATACGAGGAT
Found at i:75068 original size:98 final size:97
Alignment explanation
Indices: 74821--75107 Score: 328
Period size: 98 Copynumber: 2.9 Consensus size: 97
74811 TTTGGTCTAT
* *
74821 GTGTACCGATACAGC-TTTGTAAAATGTACTAGTACACTTACATTTTATGAAA-TTCTAGTATGT
1 GTGTACCGATACA-CACTTGT-AAATGTACCAGTACACTTACATTTTATGAAATTTC-AGTATGT
* * * *
74884 GTCAAAGGTACCAATACTA-ATAGTATTGATATTGC
63 GTCAAAGGTACCGATACGAGAT-GTATCGATACTGC
* * * * *
74919 GTGTATCGATACACACCTGTAAATGTATCGGTACGCTTACATTTTATGAAATTTCAGTATGTGTC
1 GTGTACCGATACACACTTGTAAATGTACCAGTACACTTACATTTTATGAAATTTCAGTATGTGTC
*
74984 AAAGGTACCGATACGAGGATGTATCGATACTGG
66 AAAGGTACCGATACGA-GATGTATCGATACTGC
* * * *
75017 GTGTACCGATACACACTTGTAATTGTACCAGTACACTTACATTTTATGAAATTCCAGTATTTCTC
1 GTGTACCGATACACACTTGTAAATGTACCAGTACACTTACATTTTATGAAATTTCAGTATGTGTC
* **
75082 CAAGGTATTGATACGAGAATGTATCG
66 AAAGGTACCGATACGAG-ATGTATCG
75108 GTACGATCAC
Statistics
Matches: 160, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
97 53 0.33
98 105 0.66
99 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (97 bp):
GTGTACCGATACACACTTGTAAATGTACCAGTACACTTACATTTTATGAAATTTCAGTATGTGTC
AAAGGTACCGATACGAGATGTATCGATACTGC
Found at i:79112 original size:133 final size:132
Alignment explanation
Indices: 78871--79296 Score: 638
Period size: 133 Copynumber: 3.2 Consensus size: 132
78861 TAAAAATTCG
* ** * * * * * *
78871 TTCCACTACTATTCAATGGAGATCGAACTTTTGATTTGATCTTGCTTCACTACTCTTTTGTGAAG
1 TTCCACTACTCTTCCGTGGAGACCAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
*
78936 GCTGGATTTGCTTGAAAAGAATCTGTTTCACTACTCTTTTGTGAAGATCAGATTCGA-GATTGAT
66 GCTGGATTTGCTTGAAAAGAATCTGCTTCACTACTC-TTTGTGAAGATCAGATTCGATG-TTGAT
**
79000 TTTA
129 TTGC
* *
79004 TTCCACTACTCTTCTGTTGAGACCAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
1 TTCCACTACTCTTCCGTGGAGACCAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
*
79069 GCTGGATTTGCTTGAAAAGAATCTGCTTCACTACTCTTCTGTGAAGATCAGATTAGATGTTGATT
66 GCTGGATTTGCTTGAAAAGAATCTGCTTCACTACTCTT-TGTGAAGATCAGATTCGATGTTGATT
79134 TGC
130 TGC
* **
79137 TTCCACCACTCTTCCGTGGAGAGAAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
1 TTCCACTACTCTTCCGTGGAGACCAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
*
79202 GCTGGATTTGCTTAAAAAGAATCTGCTTCACTACTCTTTCGTGAAGATCAGATTCGATGTTGATT
66 GCTGGATTTGCTTGAAAAGAATCTGCTTCACTACTCTTT-GTGAAGATCAGATTCGATGTTGATT
79267 TGC
130 TGC
79270 TTCCACTACTCTTCCGTGGAGACCAAA
1 TTCCACTACTCTTCCGTGGAGACCAAA
79297 TCTTCATCGT
Statistics
Matches: 266, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
132 3 0.01
133 262 0.98
134 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (132 bp):
TTCCACTACTCTTCCGTGGAGACCAAACTTTTGGTATGTTCCTGCTTCACTACTCTTTTGTGAAG
GCTGGATTTGCTTGAAAAGAATCTGCTTCACTACTCTTTGTGAAGATCAGATTCGATGTTGATTT
GC
Found at i:89294 original size:31 final size:31
Alignment explanation
Indices: 89238--89313 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
89228 GTCTTTCGAG
* * *
89238 ACATATGGACAGTATACTTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
** *
89269 ACATATGGACAGTTTACCTAGGTTCTTCGGG
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
*
89300 ACCTATGGACAGTT
1 ACATATGGACAGTT
89314 GCCAAGGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:95478 original size:21 final size:21
Alignment explanation
Indices: 95449--95490 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
95439 ATATGCTCAA
* *
95449 TAATTTTTCAAATTGGCCATT
1 TAATCTTTCAAATTGACCATT
95470 TAATCTTTCAAATTGACCATT
1 TAATCTTTCAAATTGACCATT
95491 CATTATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (21 bp):
TAATCTTTCAAATTGACCATT
Found at i:103704 original size:20 final size:21
Alignment explanation
Indices: 103679--103730 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
103669 TTTTCCCAAT
*
103679 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
103699 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
103720 TCGCAATGCGA
1 TCGCAATGCGA
103731 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:103744 original size:20 final size:20
Alignment explanation
Indices: 103719--103812 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
103709 AATTGGGAAA
*
103719 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
103739 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
103760 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
103780 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
103800 TTCGCAACGCGAT
1 ATCGCAACGCGAT
103813 TTACATAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:103761 original size:41 final size:41
Alignment explanation
Indices: 103716--103793 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
103706 GCGAATTGGG
* * * *
103716 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATAATAA
* *
103757 AAAATCGCAACGAGATACTTACTTTCACAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATA
103794 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCACAACGCGATAATAA
Found at i:104392 original size:19 final size:19
Alignment explanation
Indices: 104332--104412 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
104322 TTCGAGAATG
104332 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
104352 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
104368 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
104385 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
104404 AAAATCGCA
1 AAAATCGCA
104413 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:104454 original size:20 final size:19
Alignment explanation
Indices: 104408--104573 Score: 118
Period size: 19 Copynumber: 9.1 Consensus size: 19
104398 GAAACCAAAA
*
104408 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
104427 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
104446 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
104466 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
104482 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
104499 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
104515 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
104532 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* *
104552 ATCTCGTTACGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
104572 TC
1 TC
104574 AACCAAAAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
14 20 0.17
15 2 0.02
16 2 0.02
17 2 0.02
18 1 0.01
19 45 0.38
20 45 0.38
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:104489 original size:39 final size:38
Alignment explanation
Indices: 104408--104522 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 38
104398 GAAACCAAAA
* * **
104408 TCGCATTGCGATTTTCATTTCGCGTTGCGATT-TTTATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GG
104446 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTCTGG
1 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTGTCTGG
**
104485 T--C---GCGATAGTCATTTCGCGTTGCGATTGTCTGG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCTGG
104518 TCGCG
1 TCGCG
104523 ATAGTCATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
33 30 0.45
35 1 0.02
37 1 0.02
38 4 0.06
39 28 0.42
40 2 0.03
ACGTcount: A:0.10, C:0.21, G:0.27, T:0.42
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCTGG
Found at i:104498 original size:33 final size:33
Alignment explanation
Indices: 104461--104545 Score: 161
Period size: 33 Copynumber: 2.5 Consensus size: 33
104451 GTTGCGATTT
104461 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
104494 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
104527 TCATTTCCGCGTTGCGATT
1 TCATTT-CGCGTTGCGATT
104546 CTCATTATCT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 39 0.76
34 12 0.24
ACGTcount: A:0.12, C:0.22, G:0.28, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
Found at i:106634 original size:42 final size:42
Alignment explanation
Indices: 106574--106696 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
106564 GCCCGACTCG
* * *
106574 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
106616 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
106658 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
106697 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:106654 original size:21 final size:21
Alignment explanation
Indices: 106630--106696 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
106620 TCATTCCTCG
106630 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
106651 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
106672 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
106693 AGAG
1 AGAG
106697 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:108072 original size:14 final size:14
Alignment explanation
Indices: 108052--108102 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
108042 GATTGTTTAA
108052 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
108066 GTGATTTGTAAAAG
1 TTGATTTGTAAAAG
108080 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
108094 TTGATTTGT
1 TTGATTTGT
108103 TTAATTGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:108327 original size:33 final size:31
Alignment explanation
Indices: 108284--108444 Score: 205
Period size: 33 Copynumber: 4.9 Consensus size: 31
108274 AATTAAATTC
*
108284 GCGTTGCGATTTTCATTTCGCATTGCGATTCCC
1 GCGTTGCGATTTTCATTTCGCATTGCGATT--A
*
108317 TCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
108350 GCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
*
108383 GCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 GCGTTGCGATTTTCATTTCGCATTGCGA-T-TA
* *
108416 TCGTTGCGATTTTCATTTCACATTGCGAT
1 GCGTTGCGATTTTCATTTCGCATTGCGAT
108445 AGTAATTTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
31 1 0.01
32 2 0.02
33 112 0.95
35 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (31 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTA
Found at i:108374 original size:66 final size:64
Alignment explanation
Indices: 108278--108444 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 64
108268 ACGCGAAATT
**
108278 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATT--AGCGTTGCGATTTTCATTTCGCATTGC
108343 G
64 G
*
108344 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG--ATTAGCGTTGCGATTTTCATTTCGCATTGC
108409 G
64 G
* * *
108410 -ATTCTCTCGTTGCGATTTTCATTTCACATTGCGAT
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCGAT
108445 AGTAATTTCC
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
64 2 0.02
65 2 0.02
66 84 0.92
68 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (64 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTAGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:110753 original size:12 final size:12
Alignment explanation
Indices: 110736--110760 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110726 TCTTCAGGGA
110736 CTTTTTCTTCTT
1 CTTTTTCTTCTT
110748 CTTTTTCTTCTT
1 CTTTTTCTTCTT
110760 C
1 C
110761 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:110969 original size:24 final size:24
Alignment explanation
Indices: 110935--110988 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
110925 CTGAAACATC
* *
110935 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
110959 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
110983 ATCAAA
1 ATCAAA
110989 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:112071 original size:20 final size:20
Alignment explanation
Indices: 112046--112103 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
112036 ATTCATTTGA
112046 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
112066 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
112086 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
112104 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:112163 original size:19 final size:19
Alignment explanation
Indices: 112122--112189 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
112112 GAAATGAAAA
112122 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
112138 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
112155 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
112174 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
112190 TCGTTGTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.22
16 3 0.07
17 3 0.07
19 29 0.64
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:114239 original size:20 final size:19
Alignment explanation
Indices: 114204--114270 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
114194 GAAACTTAAA
114204 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
114223 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
114243 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
114262 ATCGCAACG
1 ATCGCAACG
114271 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:114278 original size:14 final size:14
Alignment explanation
Indices: 114259--114316 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
114249 ATGCGAAATG
114259 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
114273 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
114289 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
114305 AAAATCGCAACG
1 AAAATCGCAACG
114317 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:114301 original size:32 final size:33
Alignment explanation
Indices: 114243--114321 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
114233 GGAAATGGCT
*
114243 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
114276 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
114308 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
114322 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:114368 original size:14 final size:14
Alignment explanation
Indices: 114349--114406 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
114339 TTTCATTTCG
114349 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
114363 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
114379 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
114395 CGTTGCGATTTT
1 CGTTGCGATTTT
114407 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:114374 original size:32 final size:32
Alignment explanation
Indices: 114333--114422 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
114323 ACAAATCGCA
114333 TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
114365 TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
*
114397 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGA-TTTCATTTCGCGTTGCGAT
114423 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 38 0.68
33 18 0.32
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
Found at i:114441 original size:20 final size:19
Alignment explanation
Indices: 114407--114461 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
114397 TTGCGATTTT
*
114407 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
114426 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
114446 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
114462 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:114954 original size:18 final size:18
Alignment explanation
Indices: 114931--114978 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
114921 CGGGTTGATC
*
114931 AGATGATGGCTCTGGGTG
1 AGATGATGGCTCTGGGCG
*
114949 AGATGATAGCTCTGGGCG
1 AGATGATGGCTCTGGGCG
*
114967 AGGTGATGGCTC
1 AGATGATGGCTC
114979 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.42, T:0.25
Consensus pattern (18 bp):
AGATGATGGCTCTGGGCG
Found at i:116320 original size:20 final size:20
Alignment explanation
Indices: 116295--116332 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
116285 AATAGTTTCT
116295 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
116315 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
116333 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:122668 original size:16 final size:16
Alignment explanation
Indices: 122647--122678 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
122637 GATGTCTAAA
122647 ACAAGGGAGAATGTTT
1 ACAAGGGAGAATGTTT
122663 ACAAGGGAGAATGTTT
1 ACAAGGGAGAATGTTT
122679 GGCATTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
ACAAGGGAGAATGTTT
Found at i:123755 original size:2 final size:2
Alignment explanation
Indices: 123748--123796 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
123738 GATTATTAAA
*
123748 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123789 -T AT AT AT A
1 AT AT AT AT A
123797 CGTCCTTAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:123774 original size:21 final size:20
Alignment explanation
Indices: 123748--123796 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
123738 GATTATTAAA
123748 ATATATATATATATAATATAT
1 ATATATATATATATAA-ATAT
123769 ATATATATATATATAAATAT
1 ATATATATATATATAAATAT
123789 -TATATATA
1 ATATATATA
123797 CGTCCTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.29
20 4 0.14
21 16 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATATATATATAAATAT
Done.