Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004946.1 Hibiscus syriacus cultivar Beakdansim tig00011119_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: 99126
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4821 original size:12 final size:12
Alignment explanation
Indices: 4804--4837 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4794 GAAAATAAAG
4804 AAAACTTAATGT
1 AAAACTTAATGT
*
4816 AAAACTTGATGT
1 AAAACTTAATGT
4828 AAAAC-TAATG
1 AAAACTTAATG
4838 GCCATAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:5411 original size:24 final size:23
Alignment explanation
Indices: 5384--5440 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
5374 CAACCGACAT
* *
5384 GCATTAATGTACCAATTCAGCAAA
1 GCATCAATGCACCAATTCAGC-AA
* *
5408 GCATCATTGCATCAATTCAGCAA
1 GCATCAATGCACCAATTCAGCAA
5431 GCATC-ATGCA
1 GCATCAATGCA
5441 TTAAGAAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 17 0.61
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (23 bp):
GCATCAATGCACCAATTCAGCAA
Found at i:5436 original size:23 final size:23
Alignment explanation
Indices: 5396--5441 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
5386 ATTAATGTAC
5396 CAATTCAGCAAAGCATCATTGCAT
1 CAATTCAGCAAAGCATCA-TGCAT
5420 CAATTCAGC-AAGCATCATGCAT
1 CAATTCAGCAAAGCATCATGCAT
5442 TAAGAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (23 bp):
CAATTCAGCAAAGCATCATGCAT
Found at i:8240 original size:18 final size:18
Alignment explanation
Indices: 8196--8231 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8186 TTGGGTTTGG
*
8196 GTTAGGGTTTAGATTCTA
1 GTTAGGGTTTAGATTCAA
*
8214 GTTAAGGTTTAGATTCAA
1 GTTAGGGTTTAGATTCAA
8232 TTTTGGGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.42
Consensus pattern (18 bp):
GTTAGGGTTTAGATTCAA
Found at i:8267 original size:6 final size:6
Alignment explanation
Indices: 8236--8304 Score: 52
Period size: 6 Copynumber: 11.8 Consensus size: 6
8226 ATTCAATTTT
* * * * *
8236 GGGTTC GGG-TC GGGTTT GGATTT GGGTTT GGG-TC GGGTTC GGGTTA
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC
* * *
8282 GGGTTA GGGTTC GAGTTA GGGTT
1 GGGTTC GGGTTC GGGTTC GGGTT
8305 AAAAGATGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 9 0.17
6 43 0.83
ACGTcount: A:0.07, C:0.07, G:0.49, T:0.36
Consensus pattern (6 bp):
GGGTTC
Found at i:8285 original size:23 final size:23
Alignment explanation
Indices: 8236--8305 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
8226 ATTCAATTTT
* * * *
8236 GGGTTCGGGTCGGGTTTGGATTT
1 GGGTTAGGGTCGGGTTAGGGTTA
* *
8259 GGGTTTGGGTCGGGTTCGGGTTA
1 GGGTTAGGGTCGGGTTAGGGTTA
*
8282 GGGTTAGGGTTCGAGTTAGGGTTA
1 GGGTTAGGG-TCGGGTTAGGGTTA
8306 AAAGATGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 27 0.69
24 12 0.31
ACGTcount: A:0.09, C:0.07, G:0.49, T:0.36
Consensus pattern (23 bp):
GGGTTAGGGTCGGGTTAGGGTTA
Found at i:8291 original size:29 final size:29
Alignment explanation
Indices: 8233--8292 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
8223 TAGATTCAAT
* *
8233 TTTGGGTTCGGGTCGGGTTTGGATTTGGG
1 TTTGGGTTCGGGTCGGGTTAGGATTAGGG
*
8262 TTTGGG-TCGGGTTCGGGTTAGGGTTAGGG
1 TTTGGGTTCGGG-TCGGGTTAGGATTAGGG
8291 TT
1 TT
8293 CGAGTTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.05, C:0.07, G:0.48, T:0.40
Consensus pattern (29 bp):
TTTGGGTTCGGGTCGGGTTAGGATTAGGG
Found at i:8293 original size:18 final size:18
Alignment explanation
Indices: 8270--8305 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8260 GGTTTGGGTC
*
8270 GGGTTCGGGTTAGGGTTA
1 GGGTTCGAGTTAGGGTTA
8288 GGGTTCGAGTTAGGGTTA
1 GGGTTCGAGTTAGGGTTA
8306 AAAGATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.47, T:0.33
Consensus pattern (18 bp):
GGGTTCGAGTTAGGGTTA
Found at i:8619 original size:103 final size:101
Alignment explanation
Indices: 8477--8764 Score: 416
Period size: 103 Copynumber: 2.8 Consensus size: 101
8467 GGTGTTTGTA
**** *
8477 AGGGTTTGGGGAAGAAAACAAATGAACAATGAATGAATTTATGGGTGTTTGATCGGAAAAAAAAT
1 AGGGTTTGGGGAAGAACTGGAATGAACAATG-ATGAATTTTTGGGTGTTTGATC-GAAAAAAAAT
8542 GAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
64 GAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
* * *
8580 AGGGTTTTTGGGAAGAACTGGGATGAACATTGATGAATTTTTGGGTGTTTGATCGAAAAATAACA
1 AGGG-TTTGGGGAAGAACTGGAATGAACAATGATGAATTTTTGGGTGTTTGATCGAAAAA-AA-A
*
8645 CGAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
63 TGAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
** *
8684 AGGGTTTGGGGAAGAACTGGAATGAACACGGATGAATTTTTTGGTGTTTGATCG-AAAAAAATGA
1 AGGGTTTGGGGAAGAACTGGAATGAACAATGATGAATTTTTGGGTGTTTGATCGAAAAAAAATGA
8748 AATGGTTTGGGTTTTGG
66 AATGGTTTGGGTTTTGG
8765 GGAAAACTGG
Statistics
Matches: 167, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
100 20 0.12
101 2 0.01
102 10 0.06
103 72 0.43
104 63 0.38
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.33
Consensus pattern (101 bp):
AGGGTTTGGGGAAGAACTGGAATGAACAATGATGAATTTTTGGGTGTTTGATCGAAAAAAAATGA
AATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
Found at i:8812 original size:10 final size:11
Alignment explanation
Indices: 8777--8812 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8767 AAAACTGGGG
*
8777 TGAACAAGTGA
1 TGAACACGTGA
8788 TGAACACGTGA
1 TGAACACGTGA
8799 TGAACACG-GA
1 TGAACACGTGA
8809 TGAA
1 TGAA
8813 TTTCTAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.42, C:0.14, G:0.28, T:0.17
Consensus pattern (11 bp):
TGAACACGTGA
Found at i:9094 original size:60 final size:61
Alignment explanation
Indices: 9014--9149 Score: 220
Period size: 60 Copynumber: 2.2 Consensus size: 61
9004 TCTTAGTTTT
*
9014 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCATATTTC
1 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCATATTTA
* * * *
9075 AACTTT-TTCAATTTAGTCCAAATTTAATGTTTCAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCATATTTA
9135 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
9150 GATTTCCAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 55 0.81
61 13 0.19
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.48
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCATATTTA
Found at i:9133 original size:21 final size:21
Alignment explanation
Indices: 9095--9134 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9085 ATTTAGTCCA
*
9095 AATTTAATGTTTCAATTTATT
1 AATTTAATGCTTCAATTTATT
9116 AATTTAA-GCTTCATATTTA
1 AATTTAATGCTTCA-ATTTA
9135 AAATTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTAATGCTTCAATTTATT
Found at i:9139 original size:20 final size:21
Alignment explanation
Indices: 9094--9140 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9084 AATTTAGTCC
*
9094 AAATTTAATGTTTCAATTTAT
1 AAATTTAATGCTTCAATTTAT
*
9115 TAATTTAA-GCTTCATATTTA-
1 AAATTTAATGCTTCA-ATTTAT
9135 AAATTT
1 AAATTT
9141 GTTCAATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (21 bp):
AAATTTAATGCTTCAATTTAT
Found at i:9230 original size:33 final size:33
Alignment explanation
Indices: 9191--9312 Score: 174
Period size: 33 Copynumber: 3.6 Consensus size: 33
9181 ATTAATAAAT
* * *
9191 TAATATATAGGTTATATATACTAAAGAACT-TT
1 TAATATATAGTTTATATATACTAATGAACTATA
9223 TCAATATATAGTTTATATATACTAATGAACTATA
1 T-AATATATAGTTTATATATACTAATGAACTATA
9257 TAATATATAGTTTATATATACTAATGAACTACATA
1 TAATATATAGTTTATATATACTAATGAACT--ATA
*
9292 TAATGTATAGTTTATATATAC
1 TAATATATAGTTTATATATAC
9313 CATATAGTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
32 1 0.01
33 56 0.68
34 2 0.02
35 23 0.28
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:9258 original size:17 final size:17
Alignment explanation
Indices: 9236--9293 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
9226 ATATATAGTT
9236 TATATATACTAATGAAC
1 TATATATACTAATGAAC
**
9253 TATATA-A-TATAT-AGTT
1 TATATATACTA-ATGA-AC
9269 TATATATACTAATGAAC
1 TATATATACTAATGAAC
*
9286 TACATATA
1 TATATATA
9294 ATGTATAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 3 0.10
16 9 0.29
17 16 0.52
18 3 0.10
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:9310 original size:53 final size:51
Alignment explanation
Indices: 9253--9383 Score: 208
Period size: 51 Copynumber: 2.5 Consensus size: 51
9243 ACTAATGAAC
*
9253 TATATAATATATAGTTTATATATACTAATGAACTACATATAATGTATAGTTTA
1 TATATAATATATAGTTTATATATACTAATAAAC-A-ATATAATGTATAGTTTA
**
9306 TATATACCATATAGTTTATATATACTAATAAACAATATAATGTATAGTTTA
1 TATATAATATATAGTTTATATATACTAATAAACAATATAATGTATAGTTTA
*
9357 TATATATTATATAGTTTATATATACTA
1 TATATAATATATAGTTTATATATACTA
9384 TAGTATAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 42 0.58
52 1 0.01
53 30 0.41
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (51 bp):
TATATAATATATAGTTTATATATACTAATAAACAATATAATGTATAGTTTA
Found at i:9405 original size:53 final size:51
Alignment explanation
Indices: 9253--9416 Score: 186
Period size: 53 Copynumber: 3.1 Consensus size: 51
9243 ACTAATGAAC
* * *
9253 TATATAATATATAGTTTATATATACTAATGAACTACATATAATGTATAGTTTA
1 TATATATTATATAGTTTATATATACTAA-GTA-TAAATATAATGTATAGTTTA
** *
9306 TATATACCATATAGTTTATATATACTAA-TAAACAATATAATGTATAGTTTA
1 TATATATTATATAGTTTATATATACTAAGTATA-AATATAATGTATAGTTTA
* * *
9357 TATATATTATATAGTTTATATATACTATAGTATAAATTATATTATATAGTATA
1 TATATATTATATAGTTTATATATACTA-AGTATAAA-TATAATGTATAGTTTA
*
9410 TAAATAT
1 TATATAT
9417 CAACTATATA
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.01
51 43 0.45
52 3 0.03
53 48 0.51
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (51 bp):
TATATATTATATAGTTTATATATACTAAGTATAAATATAATGTATAGTTTA
Found at i:9410 original size:51 final size:50
Alignment explanation
Indices: 9253--9416 Score: 172
Period size: 51 Copynumber: 3.2 Consensus size: 50
9243 ACTAATGAAC
* *
9253 TATATAATATATAGTTTATATATACTAATGAACTACATATAATGTATAGTTTA
1 TATATAATATATAGTTTATATATACTAA-GTA-TAAATATAATGTATAG-TTA
** *
9306 TATATACCATATAGTTTATATATACTAA-TAAACAATATAATGTATAGTTTA
1 TATATAATATATAGTTTATATATACTAAGTATA-AATATAATGTATAG-TTA
* * *
9357 TATATATTATATAGTTTATATATACTATAGTATAAATTATATTATATAG-TA
1 TATATAATATATAGTTTATATATACTA-AGTATAAA-TATAATGTATAGTTA
9408 TATA-AATAT
1 TATATAATAT
9417 CAACTATATA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
50 5 0.05
51 49 0.51
52 3 0.03
53 39 0.41
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (50 bp):
TATATAATATATAGTTTATATATACTAAGTATAAATATAATGTATAGTTA
Found at i:9478 original size:7 final size:6
Alignment explanation
Indices: 9463--9573 Score: 53
Period size: 7 Copynumber: 17.0 Consensus size: 6
9453 ATATGTAAAT
* * *
9463 TATACTA TATAGTA TATATA GTTTATA TATATA TATAGTA TATAAA TATAAA
1 TATA-TA TATA-TA TATATA -TATATA TATATA TATA-TA TATATA TATATA
* * * * *
9515 CTATAGTA TGTAGTA TATAAA TATAAA CTATAT- TTTATA TTTATA GTATATA
1 -TATA-TA TATA-TA TATATA TATATA -TATATA TATATA TATATA -TATATA
9567 CTATATA
1 -TATATA
9574 GTGTATATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
5 4 0.05
6 31 0.36
7 49 0.58
8 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:9532 original size:27 final size:26
Alignment explanation
Indices: 9458--9547 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 26
9448 AGTTCATATG
* * *
9458 TAAATTATACTATATAGTATATATAGTT
1 TAAACTATA-TATATAGTATATA-AATA
*
9486 TATA-TATATATATAGTATATAAATA
1 TAAACTATATATATAGTATATAAATA
*
9511 TAAACTATAGTATGTAGTATATAAATA
1 TAAACTATA-TATATAGTATATAAATA
9538 TAAACTATAT
1 TAAACTATAT
9548 TTTATATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
25 5 0.09
26 18 0.33
27 29 0.53
28 3 0.05
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (26 bp):
TAAACTATATATATAGTATATAAATA
Found at i:9582 original size:2 final size:2
Alignment explanation
Indices: 9355--9573 Score: 58
Period size: 2 Copynumber: 104.0 Consensus size: 2
9345 ATGTATAGTT
* *
9355 TA TA TA TA T- TA TA TA GTT TA TA TA TA CTA TA GTA TA AA T- TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA -TA TA TA TA TA
* * *
9396 TA T- TA TA TA GTA TA TA AA TA TCA -A CTA TA TA TA T- TT TA TGG
1 TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA T-A
* * * *
9437 TT TT TA TA TA TA GT- TCA TA TG TA AA T- TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
9479 TA TA GTT TA TA TA TA TA TA TA GTA TA TA AA TA TA AA CTA TA GTA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA
* * * * *
9523 TG TA GTA TA TA AA TA TA AA CTA TA T- TT TA TA TT TA TA GTA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
9565 TA CTA TA TA
1 TA -TA TA TA
9574 GTGTATATAA
Statistics
Matches: 161, Mismatches: 29, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
1 8 0.05
2 124 0.77
3 29 0.18
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9601 original size:122 final size:121
Alignment explanation
Indices: 9355--9628 Score: 271
Period size: 122 Copynumber: 2.3 Consensus size: 121
9345 ATGTATAGTT
* * * * *
9355 TATATATA--TTATATAGTTTATATATACTATAGTATAAATTATATTATATAGTATATAAATATC
1 TATATATAGTTTATATAGTATATATATACTATAATATAAACTATAGTATATAGTATATAAATATA
* * * * *
9418 AACTATATATATTTTATGGTTTTTATATATAGTTCATATGTAAATTATACTATATAG
66 AACTATATATATTTTATAGTATATATATATAGTTCATA-GTAAATTATACTATAAAC
*
9475 TATATATAGTTTATATA-TATATATAGTA-TATAAATATAAACTATAGTATGTAGTATATAAATA
1 TATATATAGTTTATATAGTATATATA-TACTAT-AATATAAACTATAGTATATAGTATATAAATA
*
9538 TAAACTATATTTTATATTTATAGTATATACTATATAGTGT-ATA-T-AATT-TACTAATAAAC
64 TAAACTATA-TATAT-TTTATAGTATATA-TATATAGT-TCATAGTAAATTATACT-ATAAAC
* *
9597 TATATATAGTTCATAT-GTAAATATCA-ACTATA
1 TATATATAGTTTATATAGTATATAT-ATACTATA
9629 GTTATATGTA
Statistics
Matches: 128, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
120 8 0.06
121 16 0.12
122 76 0.59
123 6 0.05
124 10 0.08
125 11 0.09
126 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (121 bp):
TATATATAGTTTATATAGTATATATATACTATAATATAAACTATAGTATATAGTATATAAATATA
AACTATATATATTTTATAGTATATATATATAGTTCATAGTAAATTATACTATAAAC
Found at i:9696 original size:18 final size:18
Alignment explanation
Indices: 9622--9702 Score: 77
Period size: 17 Copynumber: 4.8 Consensus size: 18
9612 TGTAAATATC
9622 AACTATAGTT-ATATGTA
1 AACTATAGTTCATATGTA
*
9639 AACTATAGTTCATATAT-
1 AACTATAGTTCATATGTA
*
9656 AA-TATCAATT-ATA--TA
1 AACTAT-AGTTCATATGTA
*
9671 TA-TATAGTTCATATGTA
1 AACTATAGTTCATATGTA
9688 AACTATAGTTCATAT
1 AACTATAGTTCATAT
9703 ATATAGTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.08
15 7 0.13
16 6 0.12
17 18 0.35
18 17 0.33
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (18 bp):
AACTATAGTTCATATGTA
Found at i:9703 original size:31 final size:32
Alignment explanation
Indices: 9668--9841 Score: 127
Period size: 31 Copynumber: 5.7 Consensus size: 32
9658 TATCAATTAT
*
9668 ATATATATAGT-TCAT-ATGTAAACTATAGTTC
1 ATATATATAGTAT-ATAATATAAACTATAGTTC
*
9699 ATATATATAGTATATAAATATAAACTATAGTTT
1 ATATATATAGTATAT-AATATAAACTATAGTTC
* * * * **
9732 ATATAAATA--ATATAAAATATAGTATA-TAA
1 ATATATATAGTATATAATATAAACTATAGTTC
9761 ATATATATAGTATATAAATATAAACTATAG-T-
1 ATATATATAGTATAT-AATATAAACTATAGTTC
* * *
9792 ATGTAGTAT-G--TA-AATATAAACTATAATTT
1 ATATA-TATAGTATATAATATAAACTATAGTTC
*
9821 ATATATATAGTATATACTATA
1 ATATATATAGTATATAATATA
9842 TAAATAGTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
27 13 0.12
28 4 0.04
29 16 0.14
30 10 0.09
31 28 0.25
32 19 0.17
33 22 0.20
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (32 bp):
ATATATATAGTATATAATATAAACTATAGTTC
Found at i:9712 original size:18 final size:17
Alignment explanation
Indices: 9665--9712 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
9655 TAATATCAAT
9665 TATATATATATAGTTCA
1 TATATATATATAGTTCA
* *
9682 TATGTAAACTATAGTTCA
1 TATATATA-TATAGTTCA
9700 TATATATAGTATA
1 TATATATA-TATA
9713 TAAATATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (17 bp):
TATATATATATAGTTCA
Found at i:9727 original size:20 final size:20
Alignment explanation
Indices: 9704--9793 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 20
9694 AGTTCATATA
9704 TATAGTATATAAATATAAAC
1 TATAGTATATAAATATAAAC
*
9724 TATAGTTTATATAAATAATATAAAA
1 TATAG--TATAT--A-AATATAAAC
9749 TATAGTATATAAATAT--A-
1 TATAGTATATAAATATAAAC
9766 TATAGTATATAAATATAAAC
1 TATAGTATATAAATATAAAC
9786 TATAGTAT
1 TATAGTAT
9794 GTAGTATGTA
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
17 16 0.26
18 1 0.02
19 1 0.02
20 18 0.30
21 1 0.02
22 5 0.08
23 5 0.08
24 1 0.02
25 13 0.21
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (20 bp):
TATAGTATATAAATATAAAC
Found at i:9752 original size:25 final size:23
Alignment explanation
Indices: 9703--9769 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 23
9693 TAGTTCATAT
9703 ATATAGTATAT--A-AATATAAA
1 ATATAGTATATAAATAATATAAA
*
9723 CTATAGTTTATATAAATAATATAAA
1 ATATAG--TATATAAATAATATAAA
9748 ATATAGTATATAAATATATATA
1 ATATAGTATATAAATA-ATATA
9770 GTATATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 5 0.13
22 5 0.13
23 10 0.26
24 6 0.15
25 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (23 bp):
ATATAGTATATAAATAATATAAA
Found at i:9827 original size:62 final size:59
Alignment explanation
Indices: 9699--9856 Score: 164
Period size: 62 Copynumber: 2.6 Consensus size: 59
9689 ACTATAGTTC
9699 ATATATATAGTATATAAATATAAACTATAGTTTATATAAATAATATAAAATATAGTATATAA
1 ATATATATAGTATATAAATATAAACTATAGTTTATATAAATAATATAAAATATAG-A-AT-A
** * * *
9761 ATATATATAGTATATAAATATAAACTATAGTATGTAGTATGTA-AATATAAACTATA-ATTT
1 ATATATATAGTATATAAATATAAACTATAGT-T-TA-TATAAATAATATAAAATATAGAATA
*
9821 ATATATATAGTATAT-ACTATATAA--ATAGTTTATATA
1 ATATATATAGTATATAAATATA-AACTATAGTTTATATA
9857 GTTCACTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
55 3 0.04
56 2 0.02
57 1 0.01
58 5 0.06
59 5 0.06
60 17 0.20
61 1 0.01
62 32 0.38
63 1 0.01
64 14 0.16
65 4 0.05
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.41
Consensus pattern (59 bp):
ATATATATAGTATATAAATATAAACTATAGTTTATATAAATAATATAAAATATAGAATA
Found at i:9841 original size:18 final size:18
Alignment explanation
Indices: 9748--9854 Score: 59
Period size: 17 Copynumber: 6.3 Consensus size: 18
9738 ATAATATAAA
*
9748 ATATAGTATATAAATA-T
1 ATATACTATATAAATAGT
*
9765 ATATAGTATATAAATA-T
1 ATATACTATATAAATAGT
**
9782 A-A-ACTATAGTATGTAGT
1 ATATACTATA-TAAATAGT
* *
9799 ATGTA-AATATAAACTA-T
1 ATATACTATATAAA-TAGT
* *
9816 A-AT-TTATATATATAGT
1 ATATACTATATAAATAGT
9832 ATATACTATATAAATAGT
1 ATATACTATATAAATAGT
*
9850 TTATA
1 ATATA
9855 TAGTTCACTA
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
15 7 0.10
16 14 0.21
17 26 0.38
18 20 0.29
19 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (18 bp):
ATATACTATATAAATAGT
Found at i:9931 original size:24 final size:24
Alignment explanation
Indices: 9895--9951 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
9885 ATATGTAAAC
9895 TATATAG-TTTAC-ATAGTTTATA
1 TATATAGTTTTACAATAGTTTATA
9917 TATATAGTTTATACATATAGTTTATA
1 TATATAGTTT-TACA-ATAGTTTATA
*
9943 CATATAGTT
1 TATATAGTT
9952 CATATGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 7 0.23
23 2 0.07
24 3 0.10
26 18 0.60
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (24 bp):
TATATAGTTTTACAATAGTTTATA
Found at i:9976 original size:270 final size:268
Alignment explanation
Indices: 9478--9979 Score: 669
Period size: 270 Copynumber: 1.9 Consensus size: 268
9468 TATATAGTAT
* *
9478 ATATAGTTTATATATATATATAGTATATAAATATAAACTATAGTATGTAGTATATAAATATAAAC
1 ATATAGTATATAAATATATATAGTATATAAATATAAACTATAGTATGTAGTATATAAATATAAAC
* * * *
9543 TATATTTTATATTTATAGTATATACTATATAGTGTATATAATTTACTAATAAACTATATATAGTT
66 TATAATTTATATATATAGTATATACTATATAGTGTATATAATTCACTAATAAACTATATATAGGT
** * *
9608 CATATGTAAATATCAACTATAGTTATATGTAAACTATAGTTCATATATAATATCAATTATATATA
131 CATATGTAAATATCAACTATACATATATATAAACTATAGTT-ATATATAATATCAATTATATACA
9673 TATAGTTCATATGTAAACTATAGTTCATATATATAGTATATAAATATAAACTATAGTTTATATAA
195 TATAGTTCATATGTAAACTATAG-TCATATATATAGTATATAAATATAAACTATAGTTTATATAA
9738 ATAATATAAA
259 ATAATATAAA
*
9748 ATATAGTATATAAATATATATAGTATATAAATATAAACTATAGTATGTAGTATGTAAATATAAAC
1 ATATAGTATATAAATATATATAGTATATAAATATAAACTATAGTATGTAGTATATAAATATAAAC
* *
9813 TATAATTTATATATATAGTATATACTATATAAATAGTTTATATAGTTCACTAATAAACTATATAT
66 TATAATTTATATATATAGTATATAC--TAT--ATAGTGTATATAATTCACTAATAAAC--TATAT
* * * * * *
9878 ATAGGTCATATGTAAACTAT-ATAGTTTACATAGTTTATATA-TATAGTT-TATA-CATAT-AGT
125 ATAGGTCATATGTAAA-TATCA-ACTATACATA-TATATAAACTATAGTTATATATAATATCAAT
9938 T-TATACATATAGTTCATATGTAAACTATA-T-AGTATATATAGT
187 TATATACATATAGTTCATATGTAAACTATAGTCA-TATATATAGT
9980 TTACATATAG
Statistics
Matches: 203, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
269 1 0.00
270 96 0.47
272 30 0.15
273 3 0.01
274 27 0.13
275 4 0.02
276 21 0.10
277 16 0.08
278 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (268 bp):
ATATAGTATATAAATATATATAGTATATAAATATAAACTATAGTATGTAGTATATAAATATAAAC
TATAATTTATATATATAGTATATACTATATAGTGTATATAATTCACTAATAAACTATATATAGGT
CATATGTAAATATCAACTATACATATATATAAACTATAGTTATATATAATATCAATTATATACAT
ATAGTTCATATGTAAACTATAGTCATATATATAGTATATAAATATAAACTATAGTTTATATAAAT
AATATAAA
Found at i:10110 original size:2 final size:2
Alignment explanation
Indices: 10103--10406 Score: 81
Period size: 2 Copynumber: 153.0 Consensus size: 2
10093 AACCTTAAAC
* * *
10103 TA TA TA TA TA TA TA TA TA AA CTA TA TA GTT TA TA T- TA -A TA AA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * *
10145 CTA TA TA T- TT TA TA CA -A TA TA TA T- TA TT TA TA -A T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
10183 CA TA -A TA TA TA AA TA TA AA T- TG TA TA GTT TA TA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
10222 TCA TA TA TA -A TT TA TA TA TA AA TA TG TA GTT TC TA TA TA GT-
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* *
10263 TCA -A TA GT- TCA TA TA TA AA CTA TA TA GTA T- TA TA GTT TA TA
1 T-A TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA
* * *
10304 TA TGG TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA -A TA TA
1 TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
10346 TA GTT TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
10387 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
10407 GTTGTTTCAA
Statistics
Matches: 218, Mismatches: 46, Indels: 76
0.64 0.14 0.22
Matches are distributed among these distances:
1 20 0.09
2 180 0.83
3 18 0.08
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10237 original size:9 final size:10
Alignment explanation
Indices: 10161--10242 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
10151 ATTTTATACA
10161 ATATAT-ATT
1 ATATATAATT
*
10170 ATTTATAATT
1 ATATATAATT
*
10180 ATACATAATAT
1 ATATATAAT-T
10191 ATAAATATAAATT
1 AT--ATAT-AATT
*
10204 GTATAGT--TT
1 ATATA-TAATT
10213 ATATATAATT
1 ATATATAATT
10223 CATATATAATTT
1 -ATATATAA-TT
10235 ATATATAA
1 ATATATAA
10243 ATATGTAGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:10240 original size:13 final size:11
Alignment explanation
Indices: 10205--10242 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10195 ATATAAATTG
*
10205 TATAGTTTATA
1 TATAATTTATA
*
10216 TATAATTCATA
1 TATAATTTATA
10227 TATAATTTATA
1 TATAATTTATA
10238 TATAA
1 TATAA
10243 ATATGTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:10323 original size:11 final size:11
Alignment explanation
Indices: 10293--10354 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 11
10283 TATATAGTAT
10293 TATAGTTTATA
1 TATAGTTTATA
*
10304 TAT-G-GTATA
1 TATAGTTTATA
10313 TATAGTTTATA
1 TATAGTTTATA
* * *
10324 CATAATATATA
1 TATAGTTTATA
*
10335 TATA--TAATA
1 TATAGTTTATA
10344 TATAGTTTATA
1 TATAGTTTATA
10355 ATAATATAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
9 14 0.37
10 2 0.05
11 22 0.58
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:10361 original size:30 final size:30
Alignment explanation
Indices: 10310--10409 Score: 143
Period size: 30 Copynumber: 3.3 Consensus size: 30
10300 TATATATGGT
10310 ATATATAGTTTATACATAATATATATATATA
1 ATATATAGTTTATA-ATAATATATATATATA
*
10341 ATATATAGTTTATAATAATATAAATATA-A
1 ATATATAGTTTATAATAATATATATATATA
10370 ACTATATAGTTTAT-AT-ATATATATATATA
1 A-TATATAGTTTATAATAATATATATATATA
10399 TATATATAGTT
1 -ATATATAGTT
10410 GTTTCAATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.16
29 14 0.22
30 26 0.41
31 14 0.22
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (30 bp):
ATATATAGTTTATAATAATATATATATATA
Found at i:11172 original size:214 final size:215
Alignment explanation
Indices: 10506--11413 Score: 1537
Period size: 215 Copynumber: 4.3 Consensus size: 215
10496 TTGATCCCTT
10506 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
10571 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTTTATTTTTTAATTGGCCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
* *
10636 TTTTTAAATGAGTATAATTTAGTATTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
131 TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTC
10701 GATTTGATCCCTCATCAATG
196 GATTTGATCCCTCATCAATG
**
10721 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
10786 TTATATTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
* * * *
10851 TTTTTAGATGGGCATAATTTAGTATTTTTTGTATTAATTTCATCCTCACAATTTAAAATTTTTTC
131 TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTC
*
10916 GATTTGATCCCTCATCAATA
196 GATTTGATCCCTCATCAATG
*
10936 TGTGTTGTTTAATTTATTTAAA-TTTATATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAA
1 TGTGTTGTTTAATTTATTTAAATTTTA-ATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAA
*
11000 ATTATATTTGCATCTGAAATTGACTCATACTTATTACTTATTTATA-TTTTTAATTGGCCCATAA
65 ATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAA
* *
11064 CTTTTTAAATGGGTATAATTTAGCATTTTTTGTATTAATTTCAACCTCTCAATTTAAAATTATTT
130 CTTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
11129 CGATTTGATCCCTCATCAATG
195 CGATTTGATCCCTCATCAATG
* *
11150 TGTGTTATTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCCCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
11215 TTATATTTACATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
* * *
11280 TTTTTAAATGGGTATAATTTATTACTTTTTTGTATTAATTTCAACATCATAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTA-TTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
*
11345 CGATTTGATCCCTCTTCAATG
195 CGATTTGATCCCTCATCAATG
11366 TGTGTTG------TT-TTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTA
11414 ATTCTTAAAT
Statistics
Matches: 654, Mismatches: 35, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
209 39 0.06
210 2 0.00
214 201 0.31
215 349 0.53
216 63 0.10
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (215 bp):
TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTC
GATTTGATCCCTCATCAATG
Found at i:15958 original size:199 final size:196
Alignment explanation
Indices: 15486--16208 Score: 855
Period size: 199 Copynumber: 3.6 Consensus size: 196
15476 TAGGTAGCGC
* * *
15486 TTATGTTGACCTATTTTATAAGTAAACCGGTATATTTATACCGGTAACGTTGCAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-TAAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTAT
* *
15551 TGCATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTAT
65 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTTT
* * **
15616 ATGCGTTCACCCTTTTGGGCATTCATT-TGGA-AAAAAGTATTAACACAACATTAAAAGTGTCGA
130 ATGCGTGCACCCGTTTGGGCATTCATTATGGACAAAAA-TATCGACACAA-ATTAAAAGTGTCGA
*
15679 CACA
193 TACA
* * * ** * * * *
15683 TTCTGTAGACCTATTCT-TACATAAAACCGGTATAAATAAACCGGTTATATTACAAAATTACCTA
1 TTATGTTGACCTATTTTCTA-AT-AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTA
* *
15747 TTACATTATAATTATGGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAATGTATCGACACTT
64 TTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTT
* *
15812 TATGAGTGCACCCGTCT-GGCATTCATTATGGACAAAATATATCGACACAAATTTAATAAGTGTC
129 TATGCGTGCACCCGTTTGGGCATTCATTATGGACAAAA-ATATCGACACAAA-TTAA-AAGTGTC
*
15876 GATACT
191 GATACA
* * * * * * * *
15882 TTATGATGACCTATTTTCTCATAAAACCGATATATTTATACCGATTATATTGTAAATTTACATGT
1 TTATGTTGACCTATTTTCTAAT-AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTAT
* * *
15947 TACATTATAATTATCGGTTTCGAT-TTTATTGGGATCGATACTTTTAATAATTGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTT-TTTGGATCGATACTTTTTATAAATGTATCGACACTT
* *
16011 TATGCGTGCACCACGTTTGGGCATTCATTATAGACAATAAGTATCGACACAAATTACACAAGTGT
129 TATGCGTGCACC-CGTTTGGGCATTCATTATGGACAA-AAATATCGACACAAATTA-A-AAGTGT
16076 CGATACA
190 CGATACA
* * * **
16083 TTATGTTGACATGTTTTCTAATTAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATT
* * * *
16148 ACATTATAATTATTGGTTTCGATGTTTTTTGGGTCGATAC-TTTTAGAAAATGCATCGACAC
66 ACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTTA-TAAATGTATCGACAC
16209 ATATTTAGGT
Statistics
Matches: 445, Mismatches: 66, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
196 13 0.03
197 127 0.29
198 20 0.04
199 131 0.29
200 89 0.20
201 63 0.14
202 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (196 bp):
TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTTTA
TGCGTGCACCCGTTTGGGCATTCATTATGGACAAAAATATCGACACAAATTAAAAGTGTCGATAC
A
Found at i:20263 original size:199 final size:199
Alignment explanation
Indices: 19539--20703 Score: 1263
Period size: 199 Copynumber: 5.8 Consensus size: 199
19529 CGTTATTTAC
* ** *
19539 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATTCTAAAA-GTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGG
* ** * * **
19603 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTTATGTTTTT
65 TATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTTT
* * * *
19668 AGGATTGATACTTTTTATAAATGTATCGACACTTTCTGCGTTCACCCTTTTGGGCATTCATTCTA
130 GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
*
19733 GCTAA
195 GCAAA
* * * * * * *
19738 AAGTAACGACATATCATT-TAAAAGTGTCGACAAATTATGTAGACCTATTATGACATAAAATCGG
1 AAGTATCGACACA-AATTCTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGG
* * * * *
19802 TATATTTATATCGGTTATATTAC-AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTA
65 TATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTTT
* * * * * ** * * *
19866 GGGATCGATACTGTTTAAAAATATATCGACACTTTATGGGTGCAATCTTTTTGG-ATTTTCCTTG
130 GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATTC
*
19930 TGGACCAA
193 TGG-CAAA
* * ** * * * *
19938 AAGTATCGACACAAA-TCTAAAACGCGTCGATACATTATGTTCACTTATTTTCTCAAAAAAGCGG
1 AAGTATCGACACAAATTCTAAAA-GTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGG
* * * ** *
20002 TACATTTAGACCGGTGACATTGTAAATTTACCTATTACATTATAATTATC-AGTTTCGATGTTTT
65 TATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGA-TTTCGATGTTTT
20066 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
129 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
*
20131 AGCAAA
194 GGCAAA
* * * *
20137 AAGTATCGACACAACATTC-AAAAGTGTTGACACATTATGTAGAACTATTCTAACATAAAACCGG
1 AAGTATCGACACAA-ATTCTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGG
* * * *
20201 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTTGATGTTTCT
65 TATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTTT
* * * * * * ** * *
20266 GGGATCAATACTGTTTAAAAATGTATCGACACTTTATGGGTGCACCATTTTTTG-ATTTTCCTTG
130 GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATTC
*
20330 TGGACCAA
193 TGG-CAAA
* * * * * * * *
20338 AAGTATCAACACAAATTCTACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCAGT
1 AAGTATCGACACAAATTCTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGGT
* ** * * *
20403 TTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTG
66 ATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTTTG
* *
20468 GGATCGATACTTTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTATGG
131 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
20533 CAAA
196 CAAA
* * *
20537 AAATATTGACACAACA-T-TAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCG
1 AAGTATCGACACAA-ATTCTAA-AAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACCG
* * * *
20600 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATTGATTTCGATGTTTC
64 GTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTT
20665 TGGGATCGATACTTTTTA-AAACTGTATCGACACTTTATG
129 TGGGATCGATACTTTTTATAAA-TGTATCGACACTTTATG
20704 GGAAACTTTA
Statistics
Matches: 783, Mismatches: 162, Indels: 42
0.79 0.16 0.04
Matches are distributed among these distances:
197 1 0.00
198 85 0.11
199 360 0.46
200 99 0.13
201 236 0.30
202 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
AAGTATCGACACAAATTCTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACCGGT
ATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATCGATTTCGATGTTTTTG
GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
CAAA
Found at i:20450 original size:400 final size:398
Alignment explanation
Indices: 19539--20705 Score: 1806
Period size: 400 Copynumber: 2.9 Consensus size: 398
19529 CGTTATTTAC
*
19539 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCA-CTATTTTCTCAAAAAACCGGT
** *
19604 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTTATGTTTTTA
65 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* *
19669 GGATTGATACTTTTTATAAATGTATCGACACTTTCTGCGTTCACCCTTTTGGGCATTCATTCTAG
130 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTAG
* * * * * * * *
19734 CTAAAAGTAACGACATATCATTTAAAAGTGTCGACAAATTATGTAGACCTATTATGACATAAAAT
195 CAAAAAGTATCGACACAACA-TTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAAC
* * * *
19799 CGGTATATTTATATCGGTTATATTAC-AAATTACCTATTACATTATAATTATGGGTTTCGATGTT
259 CGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTCGATGTT
*
19863 T-TAGGGATCGATACTGTTTAAAAATATATCGACACTTTATGGGTGCAATCTTTTTGGATTTTCC
324 TCT-GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGCAATCTTTTTGGATTTTCC
19927 TTGTGGACCAA
388 TTGTGGACCAA
* *
19938 AAGTATCGACACAAATCTAAAACGCGTCGATACATTATGTTCACTTATTTTCTCAAAAAAGCGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCAC-TATTTTCTCAAAAAACCGGT
* * *
20003 ACATTTAGACCGGTGACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTG
65 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
20068 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTAG
130 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTAG
* *
20133 CAAAAAGTATCGACACAACATTCAAAAGTGTTGACACATTATGTAGAACTATTCTAACATAAAAC
195 CAAAAAGTATCGACACAACATT-AAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAAC
*
20198 CGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTTGATGTT
259 CGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTCGATGTT
*
20263 TCTGGGATCAATACTGTTTAAAAATGTATCGACACTTTATGGGTGCACCAT-TTTTT-GATTTTC
324 TCTGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGCA--ATCTTTTTGGATTTTC
20326 CTTGTGGACCAA
387 CTTGTGGACCAA
* * *
20338 AAGTATCAACACAAATTCTACAA-GTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCA
1 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGT-TCA-CTATTTTCTCAAAAAACCG
** *
20401 GTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTT
63 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
20466 TGGGATCGATACTTTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTAT
128 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
* * * *
20531 GGCAAAAAATATTGACACAACATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAA
193 AGCAAAAAGTATCGACACAACATTAA-AAGTGTCGACACATTATGTAGACCTATTCTAACATAAA
*
20596 ACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATTGATTTCGATG
257 ACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTCGATG
* *
20661 TTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATGGG
322 TTTCTGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGG
20706 AAACTTTAAG
Statistics
Matches: 706, Mismatches: 52, Indels: 19
0.91 0.07 0.02
Matches are distributed among these distances:
398 3 0.00
399 261 0.37
400 426 0.60
401 14 0.02
402 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (398 bp):
AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACTATTTTCTCAAAAAACCGGTA
CATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
GATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTAGC
AAAAAGTATCGACACAACATTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATCGATTTCGATGTTTC
TGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGCAATCTTTTTGGATTTTCCTTG
TGGACCAA
Found at i:20724 original size:15 final size:15
Alignment explanation
Indices: 20704--20757 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
20694 ACACTTTATG
20704 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTTT
20719 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTTT
* *
20734 GGAAACTTTATGTAT
1 GGAAACTTTAAGTTT
*
20749 GAAAACTTT
1 GGAAACTTT
20758 GTTGTGGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (15 bp):
GGAAACTTTAAGTTT
Found at i:21044 original size:25 final size:25
Alignment explanation
Indices: 21015--21067 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
21005 GTACACAAGA
*
21015 AATTTATATATAACAAAGTTCAAAT
1 AATTTATACATAACAAAGTTCAAAT
*
21040 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAAAGTTCAAAT
21065 AAT
1 AAT
21068 ATACCCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTATACATAACAAAGTTCAAAT
Found at i:21079 original size:25 final size:25
Alignment explanation
Indices: 21026--21081 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21016 ATTTATATAT
* * *
21026 AACAAAGTTCAAATAATTTATACAT
1 AACAAAGTTCAAATAATATACACAC
* *
21051 AACAATGTTCAAATAATATACCCAC
1 AACAAAGTTCAAATAATATACACAC
21076 AACAAA
1 AACAAA
21082 ATAATCCGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (25 bp):
AACAAAGTTCAAATAATATACACAC
Found at i:22061 original size:9 final size:9
Alignment explanation
Indices: 22047--22102 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
22037 ACTTGTTTGG
*
22047 ATCATCATA
1 ATCATCATC
22056 ATCATCATC
1 ATCATCATC
22065 ATCATCATC
1 ATCATCATC
*
22074 ATCATCTTC
1 ATCATCATC
*
22083 ATCTTCATC
1 ATCATCATC
* *
22092 GTCATCTTC
1 ATCATCATC
22101 AT
1 AT
22103 ATTCATTGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.02, T:0.39
Consensus pattern (9 bp):
ATCATCATC
Found at i:22065 original size:6 final size:6
Alignment explanation
Indices: 22047--22102 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
22037 ACTTGTTTGG
* * * *
22047 ATCATC ATAATC ATCATC ATCATC ATCATC ATCTTC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
*
22095 ATCTTC AT
1 ATCATC AT
22103 ATTCATTGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.29, C:0.30, G:0.02, T:0.39
Consensus pattern (6 bp):
ATCATC
Found at i:22091 original size:18 final size:18
Alignment explanation
Indices: 22051--22108 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
22041 GTTTGGATCA
* * *
22051 TCATAATCATCATCATCA
1 TCATCATCATCTTCATCT
22069 TCATCATCATCTTCATCT
1 TCATCATCATCTTCATCT
* *
22087 TCATCGTCATCTTCATAT
1 TCATCATCATCTTCATCT
22105 TCAT
1 TCAT
22109 TGACCTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.28, C:0.29, G:0.02, T:0.41
Consensus pattern (18 bp):
TCATCATCATCTTCATCT
Found at i:24401 original size:200 final size:200
Alignment explanation
Indices: 24053--25138 Score: 1807
Period size: 200 Copynumber: 5.4 Consensus size: 200
24043 TATATAAAAT
* *
24053 CGGTATATATTACAAAATTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCGACA
1 CGGT-TATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACA
* *
24118 CTTTTTATAAATGTATCGACACTTTATTCGTTCATCCTTTTTGGCATTCATTCTGGATAAAAAGT
65 CTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGT
* *
24183 AACGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATAT
130 ATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATAT
24248 TTATAC
195 TTATAC
**
24254 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTCAGATCGACAC
1 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
*
24319 TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTAATTCTGGACAAAAAGTA
66 TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTA
*
24384 TCGACACAAAATAAAAAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
131 TCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
24449 TATAC
196 TATAC
*
24454 CGGTTATATTACAAAATTACCTATTATATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
1 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
* * *
24519 TTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTA
66 TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTA
* *
24584 TCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCATATAAAACTGGTATATT
131 TCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
24649 TATAC
196 TATAC
* * *
24654 TGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACAC
1 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
* * *
24719 TTTTTATATATGTATCGACACTTTATTCATTCATCATTTTTGGCATTCA-TCATGGACAAAAAAT
66 TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC-TGGACAAAAAGT
* *
24783 ATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACTTATTCTCACATAAAATCGGTATAT
130 ATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATAT
24848 TTATAC
195 TTATAC
** * ** *
24854 CGGTTATATTACAAAATTACCTATTACGCTATAATTATATGTTTAAATATTTTTGGGATCGACAC
1 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
* *
24919 TTTTTATATATGTATCGACACTTTATTCGTTCATCA-TTTTGGCATTCATTATGGACAAAAAGTA
66 TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTA
*
24983 TTGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
131 TCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
25048 TATAC
196 TATAC
* * *
25053 CGGTTATATTACAAAATTACATATTACATTATTATTATCTGTTTCGATGTTTTTGGGATCAACAC
1 CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
*
25118 GTTTTATAAATGTATCGACAC
66 TTTTTATAAATGTATCGACAC
25139 ATATGCTTAC
Statistics
Matches: 827, Mismatches: 56, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
199 167 0.20
200 656 0.79
201 4 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (200 bp):
CGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC
TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTA
TCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATT
TATAC
Found at i:24621 original size:400 final size:398
Alignment explanation
Indices: 23621--25138 Score: 2090
Period size: 400 Copynumber: 3.8 Consensus size: 398
23611 ATTTAACAAT
* * * * **
23621 TGTCGATACTTTATG-ATGACCTATT-TCTCATAAAATCGATATATTTATACCGGTTACATTGGA
1 TGTCGATACATTATGTA-GACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACA
* * * * * * *
23684 AATTTACTTATTACATTATAATTATCGGTTTCGATGTTATTAGGATTGACACTTTTTAAAAATGT
65 AAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGT
* * * * * *
23749 ATCGACACTTTATTCGTGCA--ACTTTGG-ATTTCCTTCTGGAC-AAAAGTATCGACACAAATTC
130 ATCGACACTTTATTCGTTCATCATTTTGGCA-TTCATTATGGACAAAAAGTATCGACACAAAATA
* * * * * * *
23810 CACAAGTGTTGATACATGT-TGTAGACTTATTCTCTCATAAAACCAGTAT-TGTTATACCAGTTA
194 AAAAAGTGTCGATACAT-TATGTAGACCTATTCTCACATAAAACCGGTATAT-TTATACCGGTTA
* ** * * ** * * *
23873 CATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGGTATCAATACTTTTTA
257 TATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAG-ATCAACACTTTTTA
* *
23938 TAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGGACAAAAAGTATCGATA
321 TAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACA
24003 CAAAATAAAAAAG
386 CAAAATAAAAAAG
* * * *
24016 TGTCGATATATTATGTAGACATATTCTTATATAAAATCGG--------TA-----TATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
* *
24068 AATTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCGACACTTTTTATAAATGTA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
* * * *
24133 TCGACACTTTATTCGTTCATCCTTTTTGGCATTCATTCTGGATAAAAAGTAACGACACAAAATAA
131 TCGACACTTTATTCGTTCAT-CATTTTGGCATTCATTATGGACAAAAAGTATCGACACAAAATAA
*
24198 AAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATAT
195 AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATAT
*
24263 TACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTCAGATCGACACTTTTTATAA
260 TACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT-AGATCAACACTTTTTATAA
*
24328 ATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTAATTCTGGACAAAAAGTATCGACACAA
324 ATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAA
24393 AATAAAAAAG
389 AATAAAAAAG
* *
24403 TGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
* *
24468 AATTACCTATTATATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATATATGTA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
*
24533 TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTATCGACACAAAATAA
131 TCGACACTTTATTCGTTCATCA-TTTTGGCATTCATTATGGACAAAAAGTATCGACACAAAATAA
* * *
24598 AAAAGTGTCGATACATTATGTAGACCTATTCTCATATAAAACTGGTATATTTATACTGGTTATAT
195 AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATAT
* * *
24663 TACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACACTTTTTATAT
260 TACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTA-GATCAACACTTTTTATAA
* *
24728 ATGTATCGACACTTTATTCATTCATCATTTTTGGCATTCA-TCATGGACAAAAAATATCGACACA
324 ATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC-TGGACAAAAAGTATCGACACA
24792 AAATAAAAAAG
388 AAATAAAAAAG
*
24803 TGTCGATACATTATGTAGACTTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
** * ** * *
24868 AATTACCTATTACGCTATAATTATATGTTTAAATATTTTTGGGATCGACACTTTTTATATATGTA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
*
24933 TCGACACTTTATTCGTTCATCATTTTGGCATTCATTATGGACAAAAAGTATTGACACAAAATAAA
131 TCGACACTTTATTCGTTCATCATTTTGGCATTCATTATGGACAAAAAGTATCGACACAAAATAAA
24998 AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
196 AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
* * * *
25063 ACAAAATTACATATTACATTATTATTATCTGTTTCGATGTTTTTGGGATCAACACGTTTTATAAA
261 ACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT-AGATCAACACTTTTTATAAA
25128 TGTATCGACAC
325 TGTATCGACAC
25139 ATATGCTTAC
Statistics
Matches: 1001, Mismatches: 95, Indels: 50
0.87 0.08 0.04
Matches are distributed among these distances:
383 81 0.08
386 16 0.02
387 230 0.23
388 4 0.00
395 22 0.02
396 11 0.01
399 175 0.17
400 462 0.46
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (398 bp):
TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
TCGACACTTTATTCGTTCATCATTTTGGCATTCATTATGGACAAAAAGTATCGACACAAAATAAA
AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
ACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGATCAACACTTTTTATAAAT
GTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAA
TAAAAAAG
Found at i:24934 original size:600 final size:586
Alignment explanation
Indices: 23621--25138 Score: 2149
Period size: 600 Copynumber: 2.6 Consensus size: 586
23611 ATTTAACAAT
* * * * **
23621 TGTCGATACTTTATG-ATGACCTATT-TCTCATAAAATCGATATATTTATACCGGTTACATTGGA
1 TGTCGATACATTATGTA-GACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACA
* * * * * *
23684 AATTTACTTATTACATTATAATTATCGGTTTCGATGTTATTAGGATTGACACTTTTTAAAAATGT
65 AAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGGATCGACACTTTTTATAAATGT
* * * * *
23749 ATCGACACTTTATTCGTGCA--ACTTTGG-ATTTCCTTCTGGAC-AAAAGTATCGACACAAATTC
130 ATCGACACTTTATTCGTTCATCATTTTGGCA-TTCATTCTGGACAAAAAGTATCGACACAAAATA
* * * * * *
23810 CACAAGTGTTGATACATGT-TGTAGACTTATTCTCTCATAAAACCAGTAT-TGTTATACCAGTTA
194 AAAAAGTGTTGATACAT-TATGTAGACCTATTCTCACATAAAACCGGTATAT-TTATACCGGTTA
* ** * * ** * * *
23873 CATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGGTATCAATACTTTTTA
257 TATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCAACACTTTTTA
* *
23938 TAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGGACAAAAAGTATCGATA
322 TAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTATCGACA
*
24003 CAAAATAAAAAAGTGTCGATATATTATGTAGACATATTCTTATATAAAATCGGTATATATTACAA
387 CAAAATAAAAAAGTGTCGATACATTATGTAGACATATTCTTATATAAAATCGGTATATATTACAA
* * * *
24068 AATTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCGACACTTTTTATAAATGTA
452 AATTACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACACTTTTTATAAATGTA
* * * *
24133 TCGACACTTTATTCGTTCATCCTTTTTGGCATTCATTCTGGATAAAAAGTAACGACACAAAATAA
517 TCGACACTTTATTCATTCATCATTTTTGGCATTCATTCTGGACAAAAAATAACGACACAAAATAA
24198 AAAAG
582 AAAAG
* *
24203 TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
24268 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTCA-GATCGACACTTTTTATAAATGT
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT-AGGATCGACACTTTTTATAAATGT
*
24332 ATCGACACTTTATTCGTTCATCATTTTTGGCATTAATTCTGGACAAAAAGTATCGACACAAAATA
130 ATCGACACTTTATTCGTTCATCA-TTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
24397 AAAAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATA
194 AAAAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATA
* *
24462 TTACAAAATTACCTATTATATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATA
259 TTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCAACACTTTTTATA
*
24527 TATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTATCGACACA
324 AATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTATCGACACA
* *
24592 AAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCATATAAAA-CTGGTATATTTATACTG
389 AAATAAAAAAGTGTCGATACATTATGTAGACATATTCTTATATAAAATC-GG--------TA---
24656 GTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACACTT
442 --TATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACACTT
* *
24721 TTTATATATGTATCGACACTTTATTCATTCATCATTTTTGGCATTCA-TCATGGACAAAAAATAT
505 TTTATAAATGTATCGACACTTTATTCATTCATCATTTTTGGCATTCATTC-TGGACAAAAAATAA
24785 CGACACAAAATAAAAAAG
569 CGACACAAAATAAAAAAG
*
24803 TGTCGATACATTATGTAGACTTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
** * ** * * *
24868 AATTACCTATTACGCTATAATTATATGTTTAAATATTTTTGGGATCGACACTTTTTATATATGTA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGGATCGACACTTTTTATAAATGTA
* *
24933 TCGACACTTTATTCGTTCATCATTTTGGCATTCATTATGGACAAAAAGTATTGACACAAAATAAA
131 TCGACACTTTATTCGTTCATCATTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAA
*
24998 AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
196 AAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
* * *
25063 ACAAAATTACATATTACATTATTATTATCTGTTTCGATGTTTTTGGGATCAACACGTTTTATAAA
261 ACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCAACACTTTTTATAAA
25128 TGTATCGACAC
326 TGTATCGACAC
25139 ATATGCTTAC
Statistics
Matches: 835, Mismatches: 75, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
582 22 0.03
583 108 0.13
584 1 0.00
585 1 0.00
586 17 0.02
587 235 0.28
588 1 0.00
595 2 0.00
599 176 0.21
600 272 0.33
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (586 bp):
TGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGGATCGACACTTTTTATAAATGTA
TCGACACTTTATTCGTTCATCATTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAA
AAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATT
ACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCAACACTTTTTATAAA
TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGAACAAAAAGTATCGACACAAA
ATAAAAAAGTGTCGATACATTATGTAGACATATTCTTATATAAAATCGGTATATATTACAAAATT
ACCTATTACATTATAATTATCTGTTTCGATATTTTTAGGATCGACACTTTTTATAAATGTATCGA
CACTTTATTCATTCATCATTTTTGGCATTCATTCTGGACAAAAAATAACGACACAAAATAAAAAA
G
Found at i:25428 original size:19 final size:19
Alignment explanation
Indices: 25404--25452 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
25394 TTACATCCAC
25404 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
25423 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
25442 ATATAAAATTA
1 ATACAAAATTA
25453 ACTCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:27030 original size:18 final size:18
Alignment explanation
Indices: 27007--27097 Score: 128
Period size: 18 Copynumber: 5.1 Consensus size: 18
26997 TCCTCCTCAT
*
27007 TTCCTCCATCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
*
27025 TTCCTCCCTCTTTTTTTC
1 TTCCTCCCTCTTTTCTTC
* * *
27043 TTTCTCCCTCTTTTTTTA
1 TTCCTCCCTCTTTTCTTC
*
27061 TTCCTCTCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
27079 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
27097 T
1 T
27098 AAATATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:27392 original size:21 final size:21
Alignment explanation
Indices: 27350--27393 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
27340 CCCATTATAC
*
27350 CTCTAAAGTTTCTCTTTAACT
1 CTCTAAAGTTTCTCTTCAACT
* *
27371 CTCTCAAGTTTCTCTTCGACT
1 CTCTAAAGTTTCTCTTCAACT
27392 CT
1 CT
27394 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.07, T:0.45
Consensus pattern (21 bp):
CTCTAAAGTTTCTCTTCAACT
Found at i:30177 original size:181 final size:181
Alignment explanation
Indices: 29759--30292 Score: 782
Period size: 181 Copynumber: 2.9 Consensus size: 181
29749 TATGCGTACT
* * * *
29759 TATTAAAGTATCGACACTTTTAATATATCCGGTAGCGCTTTATCGGTTTTGTCATTTAGAGACCG
1 TATTAAAGTATCGACAC-TTTAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCA
* * * *
29824 GTTTTATCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
65 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
29889 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTATAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
29941 TATTAAATTATCGACACTCTCAATATATCAGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCT
1 TATTAAAGTATCGACACT-TTAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCA
30006 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
65 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
30071 TTATA-GTGCTAAAACTGATTCTCCTTTATATTCACAATGTGTCGATACTTA
130 TTATAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * **
30122 TATTAAAGTATCGACACTTGTAAAATATCCGATATCTCTTTACCGGTTTTGTCTTTTCCTGACCA
1 TATTAAAGTATCGACACTT-TAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCA
* *
30187 GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATATTTATAAAGAATCGACACT
65 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
30252 TTATAGGAGCTAAAATTGCTTCTCCTTTAAATTCATAATGT
130 TTATAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGT
30293 AACATCCTAA
Statistics
Matches: 316, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 1 0.00
181 163 0.52
182 152 0.48
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCAG
TTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
TATAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:30946 original size:11 final size:11
Alignment explanation
Indices: 30930--30954 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30920 CTTAAAATAA
30930 TTTTTAGGAAT
1 TTTTTAGGAAT
30941 TTTTTAGGAAT
1 TTTTTAGGAAT
30952 TTT
1 TTT
30955 CCGACATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTTAGGAAT
Found at i:31085 original size:13 final size:13
Alignment explanation
Indices: 31067--31092 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31057 TAACCCGACA
31067 CGTTTACCTGACC
1 CGTTTACCTGACC
31080 CGTTTACCTGACC
1 CGTTTACCTGACC
31093 AGACCCGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
CGTTTACCTGACC
Found at i:34103 original size:13 final size:13
Alignment explanation
Indices: 34056--34092 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34046 GTTATAACCC
34056 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
34069 TACCCGACCTGTT
1 GACCCGACCCGTT
34082 GACCCGACCCG
1 GACCCGACCCG
34093 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:38240 original size:11 final size:11
Alignment explanation
Indices: 38215--38257 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
38205 CGGTAACGTC
* *
38215 GTATATTATCC
1 GTATATTAACT
*
38226 GTATATTAATT
1 GTATATTAACT
38237 GTATATTAACT
1 GTATATTAACT
*
38248 GTTTATTAAC
1 GTATATTAAC
38258 CCGTCTTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (11 bp):
GTATATTAACT
Found at i:38254 original size:22 final size:22
Alignment explanation
Indices: 38215--38256 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38205 CGGTAACGTC
*
38215 GTATATTATCCGTATATTAATT
1 GTATATTAACCGTATATTAATT
* *
38237 GTATATTAACTGTTTATTAA
1 GTATATTAACCGTATATTAA
38257 CCCGTCTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (22 bp):
GTATATTAACCGTATATTAATT
Found at i:39168 original size:117 final size:117
Alignment explanation
Indices: 39004--39394 Score: 394
Period size: 117 Copynumber: 3.4 Consensus size: 117
38994 ACCAAAGTTT
* *
39004 AAGCTGATGGAGCCTTAGAAATCCGATGATAACATAATCA-GTTAATTACTGGAAACATTAACAA
1 AAGCTGATGGAGCCTTAGAAATCCGATGATAACAAAAT-AGGTTAATTACTGGAAACATTATCAA
*
39068 CCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCACATTATTA
65 CCATAATAACATATTAGGTAGCGC-TATGTAACGTAATAGGTAACACATTATTA
* * * * **
39122 AAGTTGATGG-GCCTTAGAAATCTGATGATAACAAAATATGTTAATTACT-TAATTTATTATCAA
1 AAGCTGATGGAGCCTTAGAAATCCGATGATAACAAAATAGGTTAATTACTGGAA-ACATTATCAA
* * * * * * * * *
39185 -TATTATCAACATATTAGGTAACGC---CTAA---AAT-GTTACCAAAGT-GT-
65 CCATAAT-AACATATTAGGTAGCGCTATGTAACGTAATAGGTAACACATTATTA
* * **
39229 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAC
1 AAGCTGATGGAGCCTTAGAAATCCGATGATAACAAAATAGGTTAATTACTGGAAACATTATCAAC
39294 CATAATAACATATTAGGTAGCGCATATGTAACGTAATAGGTAACACATTATTA
66 CATAATAACATATTAGGTAGCGC-TATGTAACGTAATAGGTAACACATTATTA
* * * * * *
39347 AAGCGGAAGGGGCTTTAGAAATCTGATAATAACAAAATAGGTTAATTA
1 AAGCTGATGGAGCCTTAGAAATCCGATGATAACAAAATAGGTTAATTA
39395 ATTAATTTGT
Statistics
Matches: 212, Mismatches: 45, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
107 9 0.04
108 58 0.27
109 13 0.06
110 3 0.01
112 3 0.01
113 3 0.01
115 3 0.01
116 14 0.07
117 59 0.28
118 47 0.22
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (117 bp):
AAGCTGATGGAGCCTTAGAAATCCGATGATAACAAAATAGGTTAATTACTGGAAACATTATCAAC
CATAATAACATATTAGGTAGCGCTATGTAACGTAATAGGTAACACATTATTA
Found at i:39234 original size:225 final size:224
Alignment explanation
Indices: 38802--39417 Score: 892
Period size: 225 Copynumber: 2.7 Consensus size: 224
38792 AAAAACTATA
* * * *
38802 GACGATAACATAACCGATTAATTACTGGAAATATTATTAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACAG-TTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCT
* * * * * * * *
38867 TATATAATGTAATAGGTAGCGCCTTTTTAAAGTTGATGGAG-CTTTGAAAATCCGACGATAACAA
65 TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGG-GCCTTAG-AAATCTGATGATAACAA
* * *
38931 AATAAGTTAATTACTTAATTTTTTATTATTATTATCAACATATTAGGTAACGCCTAAAATGTTAC
128 AATAAGTTAATTACTTAATTTATTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTAC
*
38996 CAAAGTTTAAGCTGATGGAGCCTTAGAAATCC
193 CAAAGTGTAAGCTGATGGAGCCTTAGAAATCC
* *
39028 GATGATAACATAATCAGTTAATTACTGGAAACATTAACAACCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAA-CAGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCT
39093 TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGCCTTAGAAATCTGATGATAACAAAA
65 TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGCCTTAGAAATCTGATGATAACAAAA
*
39158 TATGTTAATTACTTAATTTATTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
130 TAAGTTAATTACTTAATTTATTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
39223 AAGTGTAAGCTGATGGAGCCTTAGAAATCC
195 AAGTGTAAGCTGATGGAGCCTTAGAAATCC
* *
39253 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCA
1 GACGATAACATAA-CAGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCT
* ** * * *
39318 TATGTAACGTAATAGGTAACACATTATTAAAGCGGAAGGGGCTTTAGAAATCTGATAATAACAAA
65 TATGTAACGTAATAGGTAGCACATTATTAAAGTTG-ATGGGCCTTAGAAATCTGATGATAACAAA
* * * *
39383 ATAGGTTAATTAATTAATTTGTTATCAGTATTATC
129 ATAAGTTAATTACTTAATTTATTATCAATATTATC
39418 GCCTAAAATG
Statistics
Matches: 353, Mismatches: 34, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
225 200 0.57
226 151 0.43
227 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (224 bp):
GACGATAACATAACAGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTT
ATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGCCTTAGAAATCTGATGATAACAAAAT
AAGTTAATTACTTAATTTATTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAA
AGTGTAAGCTGATGGAGCCTTAGAAATCC
Found at i:41310 original size:169 final size:169
Alignment explanation
Indices: 41024--41360 Score: 647
Period size: 169 Copynumber: 2.0 Consensus size: 169
41014 TAATGAAGAA
41024 CAATTAAAGATCTGAATACAACTATTGTATGTAATGTTCAATCATGCAGTCCTTACCTGGGAGGG
1 CAATTAAAGATCTGAATACAACTATTGTATGTAATGTTCAATCATGCAGTCCTTACCTGGGAGGG
*
41089 GTTGAGCCCCTAAACCTTCAAAGGAAGCTTGTCTTACCAATTTCTTGCTTACGATTTGGACCTTG
66 GTTGAGCCCCTAAACCTTCAAAGGAAGCTTGTCTTACCAATTTCTGGCTTACGATTTGGACCTTG
*
41154 CCCTATGGATTTTATTGGTTATGCATTCAACATGATTAC
131 CCCTATAGATTTTATTGGTTATGCATTCAACATGATTAC
41193 CAATTAAAGATCTGAATACAACTATTGTATGTAATGTTCAATCATGCAGTCCTTACCTGGGAGGG
1 CAATTAAAGATCTGAATACAACTATTGTATGTAATGTTCAATCATGCAGTCCTTACCTGGGAGGG
41258 GTTGAGCCCCTAAACCTTCAAAGGAAGCTTGTCTTACCAATTTCTGGCTTACGATTTGGACCTTG
66 GTTGAGCCCCTAAACCTTCAAAGGAAGCTTGTCTTACCAATTTCTGGCTTACGATTTGGACCTTG
*
41323 CCCTCTAGATTTTATTGGTTATGCATTCAACATGATTA
131 CCCTATAGATTTTATTGGTTATGCATTCAACATGATTA
41361 TCAACTTCCT
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 165 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (169 bp):
CAATTAAAGATCTGAATACAACTATTGTATGTAATGTTCAATCATGCAGTCCTTACCTGGGAGGG
GTTGAGCCCCTAAACCTTCAAAGGAAGCTTGTCTTACCAATTTCTGGCTTACGATTTGGACCTTG
CCCTATAGATTTTATTGGTTATGCATTCAACATGATTAC
Found at i:43543 original size:18 final size:17
Alignment explanation
Indices: 43520--43567 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
43510 AGAGAAATGG
**
43520 AAAATAACAAAACACGTA
1 AAAATAACAAAA-AAATA
*
43538 AAAATAATAAAAAAATA
1 AAAATAACAAAAAAATA
43555 AAAATAAACAAAA
1 AAAAT-AACAAAA
43568 TGAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.12
Consensus pattern (17 bp):
AAAATAACAAAAAAATA
Found at i:43548 original size:9 final size:9
Alignment explanation
Indices: 43536--43576 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
43526 ACAAAACACG
43536 TAAAAATAA
1 TAAAAATAA
43545 TAAAAA-AA
1 TAAAAATAA
43553 TAAAAATAA
1 TAAAAATAA
43562 -ACAAAATGAA
1 TA-AAAAT-AA
43572 TAAAA
1 TAAAA
43577 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 9 0.32
9 13 0.46
10 5 0.18
11 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (9 bp):
TAAAAATAA
Found at i:43826 original size:47 final size:48
Alignment explanation
Indices: 43728--43826 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 48
43718 AATACTAAGT
* *
43728 AAAACAAATAAAAAATAAAGATATACATGATATTAAAAAAATAATAAA
1 AAAACAAATAAAAAATAAAAATATACATGATATTAAAAAAATAAAAAA
* * *
43776 AAAACAAA-ATAAAGTAAAAATATA-AT-ATATATAAATAAATAAAAACA
1 AAAACAAATAAAAAATAAAAATATACATGATAT-TAAAAAAATAAAAA-A
43823 AAAA
1 AAAA
43827 TAGAATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
45 4 0.09
46 14 0.32
47 18 0.41
48 8 0.18
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (48 bp):
AAAACAAATAAAAAATAAAAATATACATGATATTAAAAAAATAAAAAA
Found at i:43963 original size:14 final size:14
Alignment explanation
Indices: 43955--44031 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
43945 TATAAGATAT
43955 ATATAATAAAAATA
1 ATATAATAAAAATA
*
43969 ATATAATATAAATA
1 ATATAATAAAAATA
* * *
43983 A-AAAATGAATATA
1 ATATAATAAAAATA
* *
43996 GTA-AATAAATAAAAA
1 ATATAAT-AA-AAATA
44011 ATATAATTAAAAATA
1 ATATAA-TAAAAATA
44026 TATATA
1 -ATATA
44032 GGGAACGAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
13 11 0.24
14 16 0.35
15 9 0.20
16 9 0.20
17 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:43972 original size:25 final size:27
Alignment explanation
Indices: 43924--43974 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
43914 ACATCTATAT
* *
43924 ATATATATATATACATAATGATATAAG
1 ATATATATATATACAAAATAATATAAG
43951 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATACAAAATAATATAA
43975 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
ATATATATATATACAAAATAATATAAG
Found at i:43982 original size:20 final size:20
Alignment explanation
Indices: 43953--44021 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
43943 GATATAAGAT
43953 ATATATAATAAAAATAATATA
1 ATATA-AATAAAAATAATATA
43974 ATATAAATAAAAAATGAATATA
1 ATATAAAT-AAAAAT-AATATA
*
43996 GTAAATAAAT-AAAA-AATATA
1 --ATATAAATAAAAATAATATA
44016 AT-TAAA
1 ATATAAA
44022 AATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
20 9 0.21
21 11 0.26
22 10 0.24
24 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATAAATAAAAATAATATA
Found at i:44465 original size:17 final size:17
Alignment explanation
Indices: 44445--44487 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
44435 CTATTAACAA
*
44445 TAGAATCCTAATGCAAC
1 TAGACTCCTAATGCAAC
44462 TAGACTCCTAATGCAAC
1 TAGACTCCTAATGCAAC
44479 TAGACTCCT
1 TAGACTCCT
44488 TGCTCGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (17 bp):
TAGACTCCTAATGCAAC
Found at i:45683 original size:106 final size:106
Alignment explanation
Indices: 45369--45846 Score: 579
Period size: 106 Copynumber: 4.5 Consensus size: 106
45359 GTATTGTTCC
*
45369 GAGTCCAATAT-CCTC-CGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATAT-TTTGTTGA
1 GAGTCCAATATCCCTCGC-T-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-ATGTTTGTTGA
* * * *
45431 CAGCCAGCCGCCCCTTCGCTGTGAAGTTAAGCTTGTGTTATCTC
63 CAGCCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTT
* * * * *
45475 GAGTTCAATATCCTTCGCTATGAAGTTAAAATTGACTCTGAATGAAACT--GAAAACTTGTTTGT
1 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAAA--TGTTTGT
** * * * * * *
45538 TGACAATCAGTCGCCCCTTCATTGTGAAGTTGAGATTGTGTTGTCAT
60 TGACAGCCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTT
*
45585 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAAATGTTTGTTGACAG
1 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
* *
45650 CCAGCCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTT
* * *
45691 GAGTCCAATATCCCTCGATGTGAAGTTGAAATTGGCTCTGGAACTGGGAAAATGTTTGTTGATAG
1 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
* *
45756 CCAGTCACCCATTCGTTGTGAAGTTGAGCTTGTGTTATCTT
66 CCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTT
* * *
45797 GAGTCCAATATCCCTCACTGTGAAGTTAAAATTGGCTCTGAAACTTGGAA
1 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAA
45847 GCCCCTTCGT
Statistics
Matches: 318, Mismatches: 43, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
106 221 0.69
107 5 0.02
108 10 0.03
109 1 0.00
110 81 0.25
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
CCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTT
Found at i:46686 original size:67 final size:66
Alignment explanation
Indices: 46584--46711 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 66
46574 CTCAAGGGAA
**
46584 ACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAA-GAGAAACTATCTCAAT
1 ACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGA-AAACTATCTCAAT
46648 CTAG
63 CTAG
*
46652 ACAAAA-TTTGTTTT-AGGAGAAATAAATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAA
1 ACAAAATTTTGTTTTAAGG-GAAATAAATTCAAAGATTTTGTTTCAAGGAAAACTATCTCAA
46712 GAGAGACAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
65 19 0.35
66 8 0.15
67 22 0.40
68 6 0.11
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (66 bp):
ACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGGAAAACTATCTCAATCTA
G
Found at i:47029 original size:106 final size:105
Alignment explanation
Indices: 46844--47166 Score: 414
Period size: 106 Copynumber: 3.0 Consensus size: 105
46834 TGTATCGTTC
* * * * **
46844 CGAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCT-CTAGAACTAAGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGA-AATTGGGAAATTGTTTGTTGAC
** * * * *
46908 AGTCAGCCGCCCCTTCGCTGTGAAGTTAAGCTTGTGCTGTCT
65 AACCAGTCGACCCTTCGTTGTGAAGTTAA-CTTGTGTTGTCT
*
46950 CGAGTCCAATATCCTTCGCTGTGAAGTTCAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
47015 ACCAGTCGACCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGTCGACCCTTCGTTGTGAAGTT-AACTTGTGTTGTCT
* * * *
47056 CGCGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
* * * *
47121 ACAAGTCGTCCCTTCATTGTGGAGTTAAACTTGTGTTGTCT
66 ACCAGTCGACCCTTCGTTGTGAAGTT-AACTTGTGTTGTCT
47162 CGAGT
1 CGAGT
47167 GGCACGATAT
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
106 188 0.98
107 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
ACCAGTCGACCCTTCGTTGTGAAGTTAACTTGTGTTGTCT
Found at i:47707 original size:31 final size:32
Alignment explanation
Indices: 47624--47735 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
47614 TTTGCATCAG
* * * * *
47624 GATGTTGAAT-TCCCAAAGATGCCCAAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
47656 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
*
47688 GATGTTAAATCT-AAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
47719 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
47736 GATGCCCTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
31 29 0.41
32 37 0.53
33 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:48710 original size:69 final size:69
Alignment explanation
Indices: 48595--48732 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
48585 TGTCTCTCTC
* * * *
48595 TTGATGCTCTATGATCTTTGAGTGGAGTGATTTAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTAGGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
48660 TCAT
66 TCAT
* *
48664 TTGATGCTCTAGGATCTTCGAGTGAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTAGGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
48729 TCAT
66 TCAT
48733 AGTTTGAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTAGGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:48865 original size:11 final size:12
Alignment explanation
Indices: 48805--48866 Score: 74
Period size: 13 Copynumber: 5.0 Consensus size: 12
48795 TTTTCTTCAA
48805 TTTTC-CTTTGTT
1 TTTTCTCTTT-TT
48817 TTTTCTCTTTTT
1 TTTTCTCTTTTT
48829 ATTTTCTCTTTGTT
1 -TTTTCTCTTT-TT
48843 TTTT-TCTCTTTT
1 TTTTCTCT-TTTT
48855 TTTTCTCTTTTT
1 TTTTCTCTTTTT
48867 GTTCTAATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
12 20 0.44
13 23 0.51
14 2 0.04
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:48869 original size:27 final size:27
Alignment explanation
Indices: 48804--48864 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
48794 TTTTTCTTCA
48804 ATTTTC-CTTTG-TTTTTTCTCTTTTT
1 ATTTTCTCTTTGTTTTTTTCTCTTTTT
48829 ATTTTCTCTTTGTTTTTTTCTC-TTTT
1 ATTTTCTCTTTGTTTTTTTCTCTTTTT
48855 -TTTTCTCTTT
1 ATTTTCTCTTT
48865 TTGTTCTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 16 0.47
26 9 0.26
27 9 0.26
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (27 bp):
ATTTTCTCTTTGTTTTTTTCTCTTTTT
Found at i:53592 original size:42 final size:42
Alignment explanation
Indices: 53546--53628 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
53536 AAAATAATAG
* * *
53546 AAAAAAAAAAATAAAGTAAAAATAATATATATATATATAAAT
1 AAAAAAAAAAATAAAATAAAAAGAAAATATATATATATAAAT
* **
53588 AAAAACAAAAATAAAATATTAAGAAAATATATATATATAAA
1 AAAAAAAAAAATAAAATAAAAAGAAAATATATATATATAAA
53629 CGTATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.25
Consensus pattern (42 bp):
AAAAAAAAAAATAAAATAAAAAGAAAATATATATATATAAAT
Found at i:53700 original size:2 final size:2
Alignment explanation
Indices: 53693--53745 Score: 74
Period size: 2 Copynumber: 27.0 Consensus size: 2
53683 TTAATACATC
53693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
53735 TA -A GA TA TA TA
1 TA TA TA TA TA TA
53746 ATAAAAATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:53758 original size:23 final size:22
Alignment explanation
Indices: 53708--53797 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 22
53698 ATATATATAT
* * *
53708 ATATATATATATATATATAATATG
1 ATATAGATATATA-ATA-AAAATA
53732 ATATAAGATATATAATAAAAATA
1 ATAT-AGATATATAATAAAAATA
*
53755 ATATA-ATATA-AATAAAAAGGA
1 ATATAGATATATAATAAAAA-TA
*
53776 ATATAG-TAAATAAATAAAAATA
1 ATATAGATATAT-AATAAAAATA
53798 TAATTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
20 8 0.15
21 14 0.25
22 2 0.04
23 16 0.29
24 7 0.13
25 8 0.15
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (22 bp):
ATATAGATATATAATAAAAATA
Found at i:53763 original size:19 final size:19
Alignment explanation
Indices: 53741--53806 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
53731 GATATAAGAT
*
53741 ATATAATAAAAATAATATA
1 ATATAATAAAAAAAATATA
*
53760 ATATAAATAAAAAGGAATATA
1 ATAT-AATAAAAA-AAATATA
*
53781 GTA-AATAAATAAAAATATA
1 ATATAATAAA-AAAAATATA
53800 AT-TAATA
1 ATATAATA
53807 TATATATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 21 0.54
20 10 0.26
21 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATATAATAAAAAAAATATA
Found at i:55637 original size:24 final size:24
Alignment explanation
Indices: 55604--55696 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 24
55594 AGTGGAGCCG
*
55604 AAATTGAAATTGAAATTGAAACTC
1 AAATTAAAATTGAAATTGAAACTC
55628 AAATTAAAATTGATATTGAAATTGAAACTC
1 AAATT--AA---A-ATTGAAATTGAAACTC
** ** *
55658 AAATTAAAATTGAAATCCAGTCTG
1 AAATTAAAATTGAAATTGAAACTC
55682 AAATTAAAATTGAAA
1 AAATTAAAATTGAAA
55697 AATGCGTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 31 0.54
25 1 0.02
26 1 0.02
28 2 0.04
29 1 0.02
30 21 0.37
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (24 bp):
AAATTAAAATTGAAATTGAAACTC
Found at i:55640 original size:30 final size:30
Alignment explanation
Indices: 55604--55673 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
55594 AGTGGAGCCG
55604 AAATTGAAATTGAAATTGAAACTCAAATTA
1 AAATTGAAATTGAAATTGAAACTCAAATTA
*
55634 AAATTGATATTGAAATTGAAACTCAAATTA
1 AAATTGAAATTGAAATTGAAACTCAAATTA
55664 AAATTGAAAT
1 AAATTGAAAT
55674 CCAGTCTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (30 bp):
AAATTGAAATTGAAATTGAAACTCAAATTA
Found at i:55692 original size:6 final size:6
Alignment explanation
Indices: 55603--55673 Score: 79
Period size: 6 Copynumber: 11.8 Consensus size: 6
55593 TAGTGGAGCC
* * * *
55603 GAAATT GAAATT GAAATT GAAACT CAAATT AAAATT GATATT GAAATT
1 GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT
* * *
55651 GAAACT CAAATT AAAATT GAAAT
1 GAAATT GAAATT GAAATT GAAAT
55674 CCAGTCTGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (6 bp):
GAAATT
Found at i:57898 original size:33 final size:34
Alignment explanation
Indices: 57861--57955 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
57851 TTTTCTAACT
* *
57861 TACTAACATCCTAAC-TTTTATTTTATTTGTTCA
1 TACTAACATACTAACATTTTATTTTATTTATTCA
* * *
57894 TACTAACATACTTACTTTTTATTTT-TATTATTCT
1 TACTAACATACTAACATTTTATTTTAT-TTATTCA
* *
57928 TACTAACTTGCTAACATTTTATTTTATT
1 TACTAACATACTAACATTTTATTTTATT
57956 GTATATATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 14 0.27
34 36 0.71
35 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (34 bp):
TACTAACATACTAACATTTTATTTTATTTATTCA
Found at i:58120 original size:34 final size:32
Alignment explanation
Indices: 58073--58157 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 32
58063 AAACAACCTC
58073 CTAACTTTTATTTTATT-TTTTCATACTAACATT-
1 CTAACTTTTATTTTATTGTTTT--TACTAAC-TTA
58106 CTAACTTTTTATTTTTATTGTTTTTACTAACTTA
1 CTAAC-TTTTA-TTTTATTGTTTTTACTAACTTA
*
58140 CTAACATTTATTTTATTG
1 CTAACTTTTATTTTATTG
58158 CACAAACTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
32 8 0.17
33 11 0.23
34 17 0.36
35 7 0.15
36 4 0.09
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (32 bp):
CTAACTTTTATTTTATTGTTTTTACTAACTTA
Found at i:58232 original size:201 final size:201
Alignment explanation
Indices: 57869--58283 Score: 616
Period size: 201 Copynumber: 2.1 Consensus size: 201
57859 CTTACTAACA
*
57869 TCCTAACTTTTATTTTATTTGTTCATACTAACATACTTACTTTTTATTTTTATTATTCTTACTAA
1 TCCTAACTTTTATTTTATTTGTTCATACTAACATACTAACTTTTTATTTTTATTATTCTTACTAA
* * * * *
57934 CTTGCTAACATTTTATTTTATTGTATATATTAACCCGCTAATATTCTAACATTCGAATATTCAAC
66 CTTACTAACATTTTATTTTATTGCACAAACTAACCCGCTAATATTCTAACATTCGAATATTCAAC
* * *
57999 GACCTTGCGGTGACCTGCCCTGGGGGACGATCCGCATTATTTATGATCCGGGTTAAACGATTAAA
131 GACCTTACGGTGACCCGCCCTGGGGGACGATCCACATTATTTATGATCCGGGTTAAACGATTAAA
58064 AACAACC
196 AACAA-C
* * * *
58071 TCCTAACTTTTATTTTATTTTTTCATACTAACATTCTAACTTTTTATTTTTATTGTTTTTACTAA
1 TCCTAACTTTTATTTTATTTGTTCATACTAACATACTAACTTTTTATTTTTATTATTCTTACTAA
* *
58136 CTTACTAACA-TTTATTTTATTGCACAAACTAACCCGCTAATTTTCTAACATTCGAATATTTAAC
66 CTTACTAACATTTTATTTTATTGCACAAACTAACCCGCTAATATTCTAACATTCGAATATTCAAC
* * * * * *
58200 GACCTTATGGTGACCCGTCTTGTGGGACGATCCACATTATTTATGGTCCGGGTTAAACGGTTAAA
131 GACCTTACGGTGACCCGCCCTGGGGGACGATCCACATTATTTATGATCCGGGTTAAACGATTAAA
58265 AACAAC
196 AACAAC
58271 TGCCTAACTTTTA
1 T-CCTAACTTTTA
58284 AATTTATGCA
Statistics
Matches: 191, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
200 2 0.01
201 120 0.63
202 69 0.36
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (201 bp):
TCCTAACTTTTATTTTATTTGTTCATACTAACATACTAACTTTTTATTTTTATTATTCTTACTAA
CTTACTAACATTTTATTTTATTGCACAAACTAACCCGCTAATATTCTAACATTCGAATATTCAAC
GACCTTACGGTGACCCGCCCTGGGGGACGATCCACATTATTTATGATCCGGGTTAAACGATTAAA
AACAAC
Found at i:59446 original size:2 final size:2
Alignment explanation
Indices: 59439--59465 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59429 GATCGTAATT
59439 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
59466 TCGAGTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62164 original size:22 final size:22
Alignment explanation
Indices: 62139--62180 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
62129 TTCGGTTTTA
62139 ATCGAATTAA-CTGAATTAACCG
1 ATCGAATTAATC-GAATTAACCG
62161 ATCGAATTAATCGAATTAAC
1 ATCGAATTAATCGAATTAAC
62181 TAAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCGAATTAATCGAATTAACCG
Found at i:69288 original size:20 final size:21
Alignment explanation
Indices: 69263--69314 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
69253 TTTTCTCAAT
*
69263 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
69283 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
69304 TCGCAATGCGA
1 TCGCAATGCGA
69315 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:69328 original size:20 final size:20
Alignment explanation
Indices: 69303--69396 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
69293 AATTGGGAAA
69303 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
69323 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
69343 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
69364 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
69384 TTCGCAACGCGAT
1 ATCGCAATGCGAT
69397 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:69948 original size:19 final size:19
Alignment explanation
Indices: 69910--69976 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
69900 TTCGAGAATG
69910 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
69930 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
69949 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
69968 AAAATCGCA
1 AAAATCGCA
69977 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:70042 original size:52 final size:53
Alignment explanation
Indices: 69977--70078 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
69967 CAAAATCGCA
** **
69977 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
*
70029 TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTCTC
70079 ATTATCTCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 29 0.66
53 15 0.34
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.42
Consensus pattern (53 bp):
TTGCGATAGTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
Found at i:70100 original size:20 final size:19
Alignment explanation
Indices: 69972--70103 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
69962 GAAACCAAAA
*
69972 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
69991 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
70010 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
70024 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
70043 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
70062 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
70082 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
70102 TC
1 TC
70104 AACCAAAAGA
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
14 10 0.10
16 2 0.02
17 3 0.03
19 50 0.51
20 32 0.33
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:72275 original size:21 final size:20
Alignment explanation
Indices: 72251--72320 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
72241 TCATTCATCG
72251 AGAGTCCCCTCCCACCGTTCA
1 AGAG-CCCCTCCCACCGTTCA
* ** * *
72272 AGAGGCCACTGTCATCGTTGA
1 AGA-GCCCCTCCCACCGTTCA
*
72293 AGAGCTCCCTCCCACCATTCA
1 AGAGC-CCCTCCCACCGTTCA
72314 AGAGCCC
1 AGAGCCC
72321 GATTCATATG
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
20 4 0.11
21 31 0.86
22 1 0.03
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19
Consensus pattern (20 bp):
AGAGCCCCTCCCACCGTTCA
Found at i:73649 original size:14 final size:14
Alignment explanation
Indices: 73630--73665 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
73620 ATTGTTTAAT
73630 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
73644 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
73658 TGATTTGT
1 TGATTTGT
73666 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:73818 original size:33 final size:33
Alignment explanation
Indices: 73773--73836 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
73763 AAAAAGTACT
*
73773 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
73806 ATCGCAACGCGAAATGAAAATCGCAACGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGA
73837 AATTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:73832 original size:19 final size:19
Alignment explanation
Indices: 73773--73839 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
73763 AAAAAGTACT
*
73773 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
73792 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
73806 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
73825 ATCGCAACGAGAAAT
1 ATCGCAACGCGAAAT
73840 TAAATTCACG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:73892 original size:33 final size:32
Alignment explanation
Indices: 73855--73973 Score: 170
Period size: 33 Copynumber: 3.7 Consensus size: 32
73845 TCACGTTGTA
73855 ATTTTCATTTCGCATTGCGATTCCCTCGTTGCG
1 ATTTTCATTTCGCATTGCGATT-CCTCGTTGCG
*
73888 ATTTTCATTTCGCATTGCGAAATT-CGCGTTGCG
1 ATTTTCATTTCGCATTGCG--ATTCCTCGTTGCG
*
73921 ATTTTCATTTTGCATTGCGATTCTCTCGTTGCG
1 ATTTTCATTTCGCATTGCGATTC-CTCGTTGCG
73954 A-TTTCATTTCGCATTGCGAT
1 ATTTTCATTTCGCATTGCGAT
73974 AGTAATTTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
31 3 0.04
32 18 0.23
33 54 0.69
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (32 bp):
ATTTTCATTTCGCATTGCGATTCCTCGTTGCG
Found at i:73925 original size:66 final size:65
Alignment explanation
Indices: 73841--73972 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 65
73831 ACGAGAAATT
*
73841 AAATTCACGTTGTAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGA-TTTCATTTCGCATTGC
73906 G
65 G
* * * *
73907 AAATTCGCGTTGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCG
1 AAATTCACGTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTCATTTCGCATTGCG
73972 A
1 A
73973 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 18 0.30
66 43 0.70
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.42
Consensus pattern (65 bp):
AAATTCACGTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTCATTTCGCATTGCG
Found at i:76270 original size:12 final size:12
Alignment explanation
Indices: 76253--76277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76243 TCTTCGAGGA
76253 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76265 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76277 C
1 C
76278 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:76485 original size:24 final size:24
Alignment explanation
Indices: 76451--76504 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
76441 CTGAAACATC
*
76451 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
76475 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
76499 ATCAAA
1 ATCAAA
76505 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:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:77300 original size:19 final size:20
Alignment explanation
Indices: 77276--77326 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
77266 TTTTCCTAAT
*
77276 TCGCAATGCGAA-TAGTAAA
1 TCGCAATGCGAATTAGAAAA
*
77295 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TTAGAAAA
77316 TCGCAATGCGA
1 TCGCAATGCGA
77327 TACTGACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
21 16 0.57
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATTAGAAAA
Found at i:77378 original size:20 final size:20
Alignment explanation
Indices: 77311--77382 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
77301 TGCGAATTTG
* *
77311 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
77331 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
77351 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
77372 GAAAATCGCAA
1 GAAAATCGCAA
77383 TCATCTTCAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:77669 original size:20 final size:20
Alignment explanation
Indices: 77594--77661 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
77584 CAACGGGGAA
77594 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
77614 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
77634 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
77654 ATCGCAAC
1 ATCGCAAC
77662 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:77673 original size:34 final size:34
Alignment explanation
Indices: 77578--77681 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
77568 ATTCATTTGA
** *
77578 CTATCGCAACGGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
77612 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
77652 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
77682 TGAAAATCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 25 0.42
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 29 0.49
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:77752 original size:18 final size:19
Alignment explanation
Indices: 77706--77751 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
77696 CGATTTTTCG
77706 TTGCGATTTTCATTT-GCA
1 TTGCGATTTTCATTTCGCA
77724 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
77743 TTGCGATTT
1 TTGCGATTT
77752 CTCGTTGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:79831 original size:19 final size:19
Alignment explanation
Indices: 79763--79896 Score: 83
Period size: 20 Copynumber: 7.5 Consensus size: 19
79753 CAAAAAACTT
*
79763 AAAATCGCAACGCGAAAATG
1 AAAATCGCAATGCG-AAATG
** *
79783 ACTATCGCAACGCGGAAATG
1 AAAATCGCAATGC-GAAATG
***
79803 GCTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
* *
79822 AAAATTGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
79836 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
79855 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
79869 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
79888 -AAATCGCAA
1 AAAATCGCAA
79897 CGACAAAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 11 0.12
19 22 0.24
20 27 0.30
21 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:79845 original size:14 final size:14
Alignment explanation
Indices: 79822--79912 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
79812 ATGCGAAATG
*
79822 AAAATTGCAACGAC
1 AAAATCGCAACGAC
*
79836 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
79855 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
79869 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
79885 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
79901 AAAATAGCAACG
1 AAAATCGCAACG
79913 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 29 0.47
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:79897 original size:32 final size:33
Alignment explanation
Indices: 79806--79917 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
79796 GGAAATGGCT
*
79806 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
79839 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
79872 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
79904 ATAGCAACGCGAAA
1 ATCGCAATGCGAAA
79918 CACAAATCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 48 0.63
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:79925 original size:65 final size:66
Alignment explanation
Indices: 79806--79928 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
79796 GGAAATGGCT
* * * *
79806 ATCGCAATGCGAAATGAAAATTGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATAGCAACGCGAAATCAAAATCGCAACGACAA
79871 A
66 A
79872 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATAGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATAGCAACGCGAAATCA-AAATCGCA
79929 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 35 0.67
66 16 0.31
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATAGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:79946 original size:19 final size:18
Alignment explanation
Indices: 79924--80019 Score: 73
Period size: 19 Copynumber: 5.7 Consensus size: 18
79914 GAAACACAAA
79924 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
79943 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
*
79959 T--CTTTGCGATTTCATT
1 TCGCATTGCGATTTCATT
* *
79975 TCGCATTACGATTT--TG
1 TCGCATTGCGATTTCATT
79991 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
80008 TCGCATTGCGAT
1 TCGCATTGCGAT
80020 AGCAATTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
14 15 0.25
15 3 0.05
16 8 0.14
17 4 0.07
18 13 0.22
19 16 0.27
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:80002 original size:14 final size:14
Alignment explanation
Indices: 79946--80003 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
79936 TTTCATTTCG
79946 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
79960 CTTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
79976 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
79992 CGTTGCGATTTT
1 CGTTGCGATTTT
80004 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.56
16 7 0.21
18 8 0.24
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:80010 original size:33 final size:33
Alignment explanation
Indices: 79929--80019 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
79919 ACAAATCGCA
* *
79929 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCT
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
79962 TTGCGA-TTTCATTTCGCATTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
79994 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
80020 AGCAATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:80047 original size:20 final size:19
Alignment explanation
Indices: 79992--80047 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
79982 ACGATTTTGT
**
79992 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
80011 CATTGCGATAG-CAATTTCCG
1 CGTTGCGATAGTC-ATTT-CG
80031 CGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
80048 TCATGTTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 16 0.53
21 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:80562 original size:18 final size:18
Alignment explanation
Indices: 80536--80580 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
80526 GTCGATCAGA
80536 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
80554 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
80572 TGATGGCTC
1 TGATGGCTC
80581 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:81957 original size:19 final size:20
Alignment explanation
Indices: 81887--81959 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 20
81877 AATAGTTTCT
*
81887 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACGC
**
81907 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
* *
81927 G-AATTGACAATCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
81946 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
81960 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 24 0.53
20 21 0.47
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:82218 original size:22 final size:22
Alignment explanation
Indices: 82191--82234 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
82181 GATGGAGATA
82191 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
82213 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
82235 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:82503 original size:20 final size:20
Alignment explanation
Indices: 82417--82531 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
82407 GCGATTATGT
* *
82417 TATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * *
82437 AATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * * *
82457 TATCTCGTTGCGATTTTGT-AT
1 TATCGCATTGCGA--TAGTCAG
*
82478 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTCAG
82498 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTCAG
82518 TATCGCATTGCGAT
1 TATCGCATTGCGAT
82532 TTTCCCAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCATTGCGATAGTCAG
Found at i:82503 original size:61 final size:61
Alignment explanation
Indices: 82399--82534 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 61
82389 CGCTTTGAAA
* * * *
82399 ATCGCATTGCGATTATG--TTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
82458 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
82519 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
82535 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 14 0.22
61 50 0.78
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:82574 original size:21 final size:21
Alignment explanation
Indices: 82520--82574 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
82510 ATAGTCAGTA
* *
82520 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGAATTTACCAAT
* **
82541 TCGCGTTGC-AATTTACTTAT
1 TCGCATTGCGAATTTACCAAT
82561 TCGCATTGCGAATT
1 TCGCATTGCGAATT
82575 GGGAAAATCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGAATTTACCAAT
Found at i:82932 original size:31 final size:31
Alignment explanation
Indices: 82875--82938 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
82865 TTTTATATTA
* **
82875 AATTTGATCTTCAATCTTTTTGAAATAATTG
1 AATTTGATCTTAAATCTTTTAAAAATAATTG
*
82906 AATTTGATCTTAAATCTTTTAAAAATAGTTG
1 AATTTGATCTTAAATCTTTTAAAAATAATTG
82937 AA
1 AA
82939 AAGGTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (31 bp):
AATTTGATCTTAAATCTTTTAAAAATAATTG
Done.