Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008386.1 Hibiscus syriacus cultivar Beakdansim tig00111149_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: 339444
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:3225 original size:9 final size:8
Alignment explanation
Indices: 3211--3265 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
3201 TGCTTGAAGA
3211 AAAAAAATG
1 AAAAAAA-G
3220 AAAAAATA-
1 AAAAAA-AG
*
3228 AAAAGAAG
1 AAAAAAAG
3236 AAAAAAA-
1 AAAAAAAG
*
3243 AAAGAAAG
1 AAAAAAAG
3251 AAAAGAAAG
1 AAAA-AAAG
3260 AAAAAA
1 AAAAAA
3266 TGAAGAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
7 7 0.18
8 16 0.42
9 14 0.37
10 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:3230 original size:13 final size:12
Alignment explanation
Indices: 3210--3265 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
3200 ATGCTTGAAG
*
3210 AAAAAAAATGAA
1 AAAAAAAAAGAA
3222 AAAATAAAAAGAAGA
1 AAAA-AAAAAG-A-A
3237 AAAAAAAAAGAA
1 AAAAAAAAAGAA
*
3249 AGAAAAGAAAGAA
1 A-AAAAAAAAGAA
3262 AAAA
1 AAAA
3266 TGAAGAAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 9 0.24
13 17 0.45
14 7 0.18
15 5 0.13
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:3239 original size:15 final size:15
Alignment explanation
Indices: 3221--3254 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3211 AAAAAAATGA
3221 AAAAATAAAAAG-AAG
1 AAAAA-AAAAAGAAAG
3236 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
3251 AAAA
1 AAAA
3255 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:3245 original size:20 final size:20
Alignment explanation
Indices: 3207--3272 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
3197 ATTATGCTTG
3207 AAGAAAA-AAAATGAAAAAATA
1 AAGAAAAGAAAA--AAAAAATA
*
3228 AA-AAGAAGAAAAAAAAAAGA
1 AAGAA-AAGAAAAAAAAAATA
* *
3248 AAGAAAAGAAAGAAAAAATG
1 AAGAAAAGAAAAAAAAAATA
3268 AAGAA
1 AAGAA
3273 GGAGGGTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 28 0.74
21 6 0.16
22 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (20 bp):
AAGAAAAGAAAAAAAAAATA
Found at i:3271 original size:24 final size:24
Alignment explanation
Indices: 3207--3272 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
3197 ATTATGCTTG
* *
3207 AAGAA-AAAAAATGAAAAAATAAA
1 AAGAAGAAAAAATGAAGAAAGAAA
**
3230 AAGAAGAAAAAAAAAAGAAAG-AA
1 AAGAAGAAAAAATGAAGAAAGAAA
3253 AAGAAAGAAAAAATGAAGAA
1 AAG-AAGAAAAAATGAAGAA
3273 GGAGGGTTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (24 bp):
AAGAAGAAAAAATGAAGAAAGAAA
Found at i:4395 original size:135 final size:136
Alignment explanation
Indices: 4215--4703 Score: 765
Period size: 135 Copynumber: 3.6 Consensus size: 136
4205 CAAAAGAGGT
* *
4215 GGATCAGCATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
4280 CATAATGAGAAGAGCTTGTTCGA-CTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
4344 CTTGAG
131 CTTGAG
* ** * *
4350 GAATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
4415 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
4480 CTTGAG
131 CTTGAG
* *
4486 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
* * * *
4550 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA-CAGCATTTCGAGTCAGGGACGCCTC
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGA-CATTTCGAATCAGTGACACCTC
4614 GCTTGAG
130 GCTTGAG
* * * *
4621 GGATCAACATTTTCAGTGAAGAGTTCATAATGAGAAAAACTCATCC-A-AAAGAGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
*
4684 CATAATGCGAAGA-CTTGTTC
66 CATAATGAGAAGAGCTTGTTC
4704 AATCTAACAA
Statistics
Matches: 327, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
133 7 0.02
134 27 0.08
135 203 0.62
136 90 0.28
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (136 bp):
GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
CTTGAG
Found at i:4616 original size:271 final size:268
Alignment explanation
Indices: 4215--4703 Score: 784
Period size: 271 Copynumber: 1.8 Consensus size: 268
4205 CAAAAGAGGT
* *
4215 GGATCAGCATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTT
* *
4280 CATAATGAGAAGAGCTTGTTCGACTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGC
66 CATAATGAGAAGAGCTTGTTCGACTATCACTCGATTCAAGACATTTCGAATCAGGGACACCTCGC
** * * *
4345 TTGAGGAATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAG
131 TTGAGGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCC--AAAAGAGAGAAG
4410 AAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACA
194 AAGTTCATAATGAGAAGA-CTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACA
4475 CCTCGCTTGAG
258 CCTCGCTTGAG
4486 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTT
* *
4550 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACAG-CATTTCGAGTCAGGGACGCCTC
66 CATAATGAGAAGAGCTTGTTCGA-CTATCACTCGATTCA-AGACATTTCGAATCAGGGACACCTC
* * *
4614 GCTTGAGGGATCAACATTTTCAGTGAAGAGTTCATAATGAGAAAAACTCATCCAAAAGAGAGAAG
129 GCTTGAGGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCCAAAAGAGAGAAG
*
4679 AAGTTCATAATGCGAAGACTTGTTC
194 AAGTTCATAATGAGAAGACTTGTTC
4704 AATCTAACAA
Statistics
Matches: 201, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
268 7 0.03
269 28 0.14
270 38 0.19
271 127 0.63
272 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (268 bp):
GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTT
CATAATGAGAAGAGCTTGTTCGACTATCACTCGATTCAAGACATTTCGAATCAGGGACACCTCGC
TTGAGGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCCAAAAGAGAGAAGAA
GTTCATAATGAGAAGACTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCT
CGCTTGAG
Found at i:6071 original size:2 final size:2
Alignment explanation
Indices: 6064--6112 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6054 TAATGTTTCC
6064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6106 TA TA TA T
1 TA TA TA T
6113 GCACTGAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11587 original size:22 final size:23
Alignment explanation
Indices: 11550--11593 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11540 GTAATAAAGT
11550 AATAATATACATTTTTAATTTTG
1 AATAATATACATTTTTAATTTTG
* *
11573 AATAATTTA-ATTTTTATTTTT
1 AATAATATACATTTTTAATTTT
11594 CGTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
AATAATATACATTTTTAATTTTG
Found at i:18330 original size:143 final size:143
Alignment explanation
Indices: 18067--18333 Score: 390
Period size: 143 Copynumber: 1.9 Consensus size: 143
18057 TCAAAAACTT
* *
18067 ATTATGAACACCATCAATGCACACATAGTATCATAGTACACATAGTACTACTCCAAGTACACAAA
1 ATTATGAACAACATCAATGCACACATAGTATCATAGTACACAAAGTACTACTCCAAGTACACAAA
** * * *
18132 GTAAAGGTACAATAACACAATAATGCGTTAAACAAAATTGATTGATAACCGCCTTATTCATGGTA
66 GTAAAGGTACAATAACACAATAATGAATTAAACAAAATCGATCGATAACCACCTTATTCATGGTA
18197 CTAACAAGTGCTC
131 CTAACAAGTGCTC
* * * * *
18210 ATTATGAACAACATCATTTCACACATAGTGTTATAGTACACAAAGTACTACTCCAAGTACACAAT
1 ATTATGAACAACATCAATGCACACATAGTATCATAGTACACAAAGTACTACTCCAAGTACACAAA
** * *
18275 GTACCGGTACAATAACGCAATAATGAATTAAACAAAATCGATCGGTAACCACCTTATTC
66 GTAAAGGTACAATAACACAATAATGAATTAAACAAAATCGATCGATAACCACCTTATTC
18334 TTACTATAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
143 108 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (143 bp):
ATTATGAACAACATCAATGCACACATAGTATCATAGTACACAAAGTACTACTCCAAGTACACAAA
GTAAAGGTACAATAACACAATAATGAATTAAACAAAATCGATCGATAACCACCTTATTCATGGTA
CTAACAAGTGCTC
Found at i:22786 original size:12 final size:12
Alignment explanation
Indices: 22769--22809 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
22759 TTTCTCATTG
22769 TTTTATTTTATT
1 TTTTATTTTATT
**
22781 TTTTATTTTAAC
1 TTTTATTTTATT
*
22793 TTTTATTTTTTT
1 TTTTATTTTATT
22805 TTTTA
1 TTTTA
22810 GGAAGTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:25221 original size:31 final size:31
Alignment explanation
Indices: 25160--25221 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
25150 TATCGCTTTA
* **
25160 TTTTTTAGTTTATTTTATTTTATATTTACCT
1 TTTTTTAGTTTATTTTATTTGATAGATACCT
*
25191 TTTTTTAGTTTGATTTT-TTTGGTAGATACCT
1 TTTTTTAGTTT-ATTTTATTTGATAGATACCT
25222 ATTTCGAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (31 bp):
TTTTTTAGTTTATTTTATTTGATAGATACCT
Found at i:27947 original size:21 final size:21
Alignment explanation
Indices: 27905--27947 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27895 TTTCTGGGCT
* *
27905 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
27926 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
27947 A
1 A
27948 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:28592 original size:13 final size:13
Alignment explanation
Indices: 28574--28638 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
28564 ATATGATTTC
28574 ATAAGAATATGAA
1 ATAAGAATATGAA
28587 ATAAGAAGTATGAA
1 ATAAGAA-TATGAA
* *
28601 A-AGGACATA--AG
1 ATAAGA-ATATGAA
28612 A-AAGAATATGAA
1 ATAAGAATATGAA
28624 ATAAGAAGTATGAA
1 ATAAGAA-TATGAA
28638 A
1 A
28639 AGGACATAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 2 0.05
13 17 0.40
14 15 0.36
ACGTcount: A:0.60, C:0.02, G:0.20, T:0.18
Consensus pattern (13 bp):
ATAAGAATATGAA
Found at i:28612 original size:20 final size:20
Alignment explanation
Indices: 28587--28650 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
28577 AGAATATGAA
28587 ATAAGAAGTATGAAAAGGAC
1 ATAAGAAGTATGAAAAGGAC
* * *
28607 ATAAGAA--A-GAATATGAA
1 ATAAGAAGTATGAAAAGGAC
28624 ATAAGAAGTATGAAAAGGAC
1 ATAAGAAGTATGAAAAGGAC
28644 ATAAGAA
1 ATAAGAA
28651 AGAATATGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.37
18 1 0.03
19 1 0.03
20 20 0.57
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.16
Consensus pattern (20 bp):
ATAAGAAGTATGAAAAGGAC
Found at i:28620 original size:37 final size:37
Alignment explanation
Indices: 28576--28663 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
28566 ATGATTTCAT
28576 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
1 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
28613 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
1 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
28650 AAGAATATGAAATA
1 AAGAATATGAAATA
28664 TACAGAATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.60, C:0.02, G:0.20, T:0.17
Consensus pattern (37 bp):
AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
Found at i:28985 original size:30 final size:30
Alignment explanation
Indices: 28944--29340 Score: 722
Period size: 30 Copynumber: 13.2 Consensus size: 30
28934 AAGGAACATA
28944 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
28974 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
29004 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29034 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
29064 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29094 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29124 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29154 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29184 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
29214 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29244 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
29274 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
29304 TGGATGGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
29334 TGGATAG
1 TGGATAG
29341 GTCCTTCGGA
Statistics
Matches: 353, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 353 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:32705 original size:21 final size:21
Alignment explanation
Indices: 32663--32705 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32653 TTTCTGGGCT
* *
32663 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
32684 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
32705 A
1 A
32706 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:33355 original size:13 final size:12
Alignment explanation
Indices: 33339--33461 Score: 69
Period size: 13 Copynumber: 10.0 Consensus size: 12
33329 ATGATTTCAT
33339 AAGAATATGAAA
1 AAGAATATGAAA
33351 TAAGAAGTATGAAA
1 -AAGAA-TATGAAA
* *
33365 AGGACATA--AGA
1 AAGA-ATATGAAA
33376 AAGAATATGAAA
1 AAGAATATGAAA
33388 TAAGAAGTATGAAA
1 -AAGAA-TATGAAA
* *
33402 AGGACATA--AGA
1 AAGA-ATATGAAA
33413 AAGAATATGAAA
1 AAGAATATGAAA
33425 TAAGAAGTATGAAA
1 -AAGAA-TATGAAA
* *
33439 AGGACATA--AGA
1 AAGA-ATATGAAA
33450 AAGAATATGAAA
1 AAGAATATGAAA
33462 TATACAGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
10 9 0.11
11 15 0.18
12 6 0.07
13 30 0.36
14 24 0.29
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.16
Consensus pattern (12 bp):
AAGAATATGAAA
Found at i:33375 original size:20 final size:20
Alignment explanation
Indices: 33350--33450 Score: 106
Period size: 20 Copynumber: 5.3 Consensus size: 20
33340 AGAATATGAA
33350 ATAAGAAGTATGAAAAGGAC
1 ATAAGAAGTATGAAAAGGAC
* * *
33370 ATAAGAA--A-GAATATGAA
1 ATAAGAAGTATGAAAAGGAC
33387 ATAAGAAGTATGAAAAGGAC
1 ATAAGAAGTATGAAAAGGAC
* * *
33407 ATAAGAA--A-GAATATGAA
1 ATAAGAAGTATGAAAAGGAC
33424 ATAAGAAGTATGAAAAGGAC
1 ATAAGAAGTATGAAAAGGAC
33444 ATAAGAA
1 ATAAGAA
33451 AGAATATGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
17 26 0.41
18 2 0.03
19 2 0.03
20 33 0.52
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.16
Consensus pattern (20 bp):
ATAAGAAGTATGAAAAGGAC
Found at i:33383 original size:37 final size:37
Alignment explanation
Indices: 33339--33463 Score: 250
Period size: 37 Copynumber: 3.4 Consensus size: 37
33329 ATGATTTCAT
33339 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
1 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
33376 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
1 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
33413 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
1 AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
33450 AAGAATATGAAATA
1 AAGAATATGAAATA
33464 TACAGAATAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (37 bp):
AAGAATATGAAATAAGAAGTATGAAAAGGACATAAGA
Found at i:33788 original size:30 final size:30
Alignment explanation
Indices: 33747--34143 Score: 740
Period size: 30 Copynumber: 13.2 Consensus size: 30
33737 AAGGAAAATA
33747 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
33777 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
33807 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
33837 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
33867 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
33897 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
33927 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
33957 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
33987 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
34017 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
34047 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
34077 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
34107 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
34137 TGGATAG
1 TGGATAG
34144 GTCATTCGGA
Statistics
Matches: 357, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 357 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:39287 original size:4 final size:4
Alignment explanation
Indices: 39278--39303 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
39268 ACTAATTGAC
39278 AGTT AGTT AGTT AGTT AGTT AGTT AG
1 AGTT AGTT AGTT AGTT AGTT AGTT AG
39304 ATTGAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (4 bp):
AGTT
Found at i:46672 original size:33 final size:32
Alignment explanation
Indices: 46612--46712 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
46602 GAGCCATCCT
* *
46612 AAGAGAATACCTTGGGGCCTTAA-AGCCTACCA
1 AAGAGAGTACTTTGGGG-CTTAAGAGCCTACCA
*
46644 AAGAGAGTACTTTAGGGGCTTAAGAGCCTACCC
1 AAGAGAGTACTTT-GGGGCTTAAGAGCCTACCA
* *
46677 AAG-GCAGTA-TCTCGGGGCCTAAGAGCCTACCCA
1 AAGAG-AGTACT-TTGGGGCTTAAGAGCCTA-CCA
46710 AAG
1 AAG
46713 GTCACCTTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
32 33 0.57
33 25 0.43
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.18
Consensus pattern (32 bp):
AAGAGAGTACTTTGGGGCTTAAGAGCCTACCA
Found at i:48065 original size:22 final size:23
Alignment explanation
Indices: 48027--48070 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
48017 GTAATAAAGT
48027 AATAATATATATTTTTAATTTTTG
1 AATAATATATATTTTT-ATTTTTG
48051 AATAAT-TA-ATTTTTATTTTT
1 AATAATATATATTTTTATTTTT
48071 CGTATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 2 0.10
24 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AATAATATATATTTTTATTTTTG
Found at i:50800 original size:15 final size:16
Alignment explanation
Indices: 50782--50811 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50772 AAATAAATTA
50782 TTTATAA-ATTTAAAG
1 TTTATAATATTTAAAG
50797 TTTATAATATTTAAA
1 TTTATAATATTTAAA
50812 TATATTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTATAATATTTAAAG
Found at i:50845 original size:19 final size:20
Alignment explanation
Indices: 50820--50874 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
50810 AATATATTCA
50820 AAAAATAAATATAAATT-TCT
1 AAAAATAAATATAAATTGT-T
50840 -AAAATAAGA-ATAAATTGTT
1 AAAAATAA-ATATAAATTGTT
50859 AAAAATTAAATATAAA
1 AAAAA-TAAATATAAA
50875 AATACTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
19 15 0.50
20 7 0.23
21 8 0.27
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATAAATATAAATTGTT
Found at i:55902 original size:15 final size:15
Alignment explanation
Indices: 55882--55913 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55872 TGTAACATAT
55882 ATCAAATTATCTCAA
1 ATCAAATTATCTCAA
55897 ATCAAATTATCTCAA
1 ATCAAATTATCTCAA
55912 AT
1 AT
55914 TGGTCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (15 bp):
ATCAAATTATCTCAA
Found at i:57790 original size:27 final size:28
Alignment explanation
Indices: 57726--57796 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
57716 CTAATAAAAT
57726 AAACTTGTCTACCACAATTTAATGTGAAG
1 AAACTTGTCTACCACAATTTAA-GTGAAG
*
57755 AAACTTGTCTACCACAGTTTAA-TGAAG
1 AAACTTGTCTACCACAATTTAAGTGAAG
*
57782 AAACGTGTCTACCAC
1 AAACTTGTCTACCAC
57797 TTTGAGTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 19 0.47
29 21 0.52
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (28 bp):
AAACTTGTCTACCACAATTTAAGTGAAG
Found at i:61358 original size:29 final size:29
Alignment explanation
Indices: 61321--61403 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
61311 CTCAAGATGC
*
61321 TAATATGAATAAACTTGTCTACCACAATT
1 TAATATGAAGAAACTTGTCTACCACAATT
*
61350 TAATGTGAAGAAACTTGTCTACCACAATT
1 TAATATGAAGAAACTTGTCTACCACAATT
* *
61379 TAATATGAAGAAACGTGTCAACCAC
1 TAATATGAAGAAACTTGTCTACCAC
61404 TTTGAGTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (29 bp):
TAATATGAAGAAACTTGTCTACCACAATT
Found at i:62996 original size:157 final size:158
Alignment explanation
Indices: 62652--63053 Score: 587
Period size: 158 Copynumber: 2.5 Consensus size: 158
62642 AGTTACATAA
* * * **
62652 GTATTCTATTATGGTAT-GTGAGTATGTGGTTTAAATTTGGTACAAAAAATAAACTTAAAATAAA
1 GTATTCTACTATGGTTTAG-GAGTATGTGGTTCAAATTTGGT--AAAAAATGGACTTAAAATAAA
*
62716 TGACAAATTGAATG-AATAAGGAGATTATGGAAAATTGAAGGACCAAATTGAAAAATAAATAATT
63 TGACAAATTGAA-GAAATAAGGAGATTATGAAAAATTGAAGGACCAAATTGAAAAATAAATAATT
62780 TGTAATCAAAAAGAGGAATTGAAAGTACACAT
127 TGTAATCAAAAAGAGGAATTGAAAGTACACAT
* * *
62812 GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAAAGGGACTTAAAATAAATGA
1 GTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAATGGACTTAAAATAAATGA
* *
62877 CAAATTGAAGAAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAA-AATTTGTT
66 CAAATTGAAGAAATAAGGAGATTATGAAAAATTGAAGGACCAAATTGAAAAATAAATAATTTGTA
62941 ATCAAAAAGAGGAATTGAAAGTA-AGCAT
131 ATCAAAAAGAGGAATTGAAAGTACA-CAT
* *
62969 GTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAATATGGACTTAAAATGAAGG
1 GTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAA-ATGGACTTAAAATAAATG
* *
63034 AGAAATTGAATAAATAAGGA
65 ACAAATTGAAGAAATAAGGA
63054 AATCAGAGAC
Statistics
Matches: 220, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
156 1 0.00
157 78 0.35
158 106 0.48
160 34 0.15
161 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (158 bp):
GTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAATGGACTTAAAATAAATGA
CAAATTGAAGAAATAAGGAGATTATGAAAAATTGAAGGACCAAATTGAAAAATAAATAATTTGTA
ATCAAAAAGAGGAATTGAAAGTACACAT
Found at i:63351 original size:60 final size:60
Alignment explanation
Indices: 63247--63371 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
63237 TAAAGAAAGC
* * *
63247 AAATGATCCTCTGACTATAGGGGACTACTTTATTAAGTCTCTCGATTATTAAAAGTTACA
1 AAATGATCCTCTGACTATAGGGGACTACTTTATTAAGTCCCTCGACTATAAAAAGTTACA
* * * *
63307 AAATGATCCT-TCGACTATAGGGTG-TTGCTTTTTTGAGTCCCTCGACTATAAAAAGTTACA
1 AAATGATCCTCT-GACTATAGGG-GACTACTTTATTAAGTCCCTCGACTATAAAAAGTTACA
63367 AAATG
1 AAATG
63372 GTCACCTGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 1 0.02
60 54 0.96
61 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (60 bp):
AAATGATCCTCTGACTATAGGGGACTACTTTATTAAGTCCCTCGACTATAAAAAGTTACA
Found at i:64240 original size:31 final size:31
Alignment explanation
Indices: 64205--64273 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
64195 GGTAGTATCG
64205 ATACTATAGTTTAAGGATTTAATAAAACATT
1 ATACTATAGTTTAAGGATTTAATAAAACATT
64236 ATACTATAGTTTAAGGATTTAATAAAACATT
1 ATACTATAGTTTAAGGATTTAATAAAACATT
64267 ATACTAT
1 ATACTAT
64274 TGTCGGGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (31 bp):
ATACTATAGTTTAAGGATTTAATAAAACATT
Found at i:66132 original size:20 final size:20
Alignment explanation
Indices: 66081--66136 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
66071 AAATGACCAA
*
66081 CAAA-TTCGCAACGCGATCT
1 CAAATTTCGCAACGCGAACT
66100 CAAATTT-GCAACGCGAACT
1 CAAATTTCGCAACGCGAACT
*
66119 CCAATTTCGCAACGCGAA
1 CAAATTTCGCAACGCGAA
66137 TTTAGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAATTTCGCAACGCGAACT
Found at i:66258 original size:19 final size:19
Alignment explanation
Indices: 66181--66252 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
66171 ACACGTTTGC
*
66181 CAAATTCGCAACACTGAATTT
1 CAAATTCGC-A-ACTAAATTT
66202 CAAATTCGCAACTAAATTT
1 CAAATTCGCAACTAAATTT
*
66221 CAAATTTGCAACTAAATTT
1 CAAATTCGCAACTAAATTT
*
66240 CAAATTCGTAACT
1 CAAATTCGCAACT
66253 CGATTTTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 37 0.79
20 1 0.02
21 9 0.19
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (19 bp):
CAAATTCGCAACTAAATTT
Found at i:66466 original size:14 final size:15
Alignment explanation
Indices: 66447--66484 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
66437 TCCCCATCTC
66447 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
66461 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
66477 TAATTTTT
1 TAATTTTT
66485 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:67275 original size:24 final size:24
Alignment explanation
Indices: 67224--67277 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
67214 GTATTCAAAA
*
67224 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
67248 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
67272 TTTGAT
1 TTTGAT
67278 GATGTTTTAG
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:69799 original size:34 final size:34
Alignment explanation
Indices: 69761--69825 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
69751 ATGTGAAAGT
** * *
69761 CAAATTCGCATTGCGATTTTTGCGTTGCGATAGA
1 CAAATTCGCAACGCGATTATAGCGTTGCGATAGA
*
69795 CAAATTTGCAACGCGATTATAGCGTTGCGAT
1 CAAATTCGCAACGCGATTATAGCGTTGCGAT
69826 TGTTACGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (34 bp):
CAAATTCGCAACGCGATTATAGCGTTGCGATAGA
Found at i:71427 original size:21 final size:21
Alignment explanation
Indices: 71403--71520 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 21
71393 GTGAATCGGA
*
71403 CTCTTGAACGGTGGAAGGGAC
1 CTCTTGAACGATGGAAGGGAC
*
71424 CTCTTGAACGAT-GACAGGGGC
1 CTCTTGAACGATGGA-AGGGAC
* *
71445 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGGAAGGGAC
* *
71466 CTCTTGAACGAT-AACAGGGGC
1 CTCTTGAACGATGGA-AGGGAC
* *
71487 CTCTTGAACGATGGGAGGCAC
1 CTCTTGAACGATGGAAGGGAC
*
71508 CTCTTGAATGATG
1 CTCTTGAACGATG
71521 ACAGGTGCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.03
21 76 0.96
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGGAAGGGAC
Found at i:71464 original size:42 final size:42
Alignment explanation
Indices: 71403--71525 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
71393 GTGAATCGGA
*
71403 CTCTTGAACGGTGGAAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
*
71445 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATAACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
* * *
71487 CTCTTGAACGATGGGAGGCACCTCTTGAATGATGACAGG
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGG
71526 TGCATCGGGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:71827 original size:21 final size:21
Alignment explanation
Indices: 71803--71852 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
71793 TGAAACAATC
*
71803 TCACGTAGAG-CGACTACCTCA
1 TCACGTAGAGTAGA-TACCTCA
*
71824 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGTAGATACCTCA
*
71845 CCACGTAG
1 TCACGTAG
71853 CACACCATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (21 bp):
TCACGTAGAGTAGATACCTCA
Found at i:71948 original size:63 final size:64
Alignment explanation
Indices: 71838--71977 Score: 151
Period size: 63 Copynumber: 2.2 Consensus size: 64
71828 GTAAAGTAGA
* * * *
71838 TACCTCACCACGTAGCACACCATTGTCATCGCATAAAACATCCACCTCACCATGTAAAG-ACCG
1 TACCTCATCACGTAGCACACCATTGTCATCACATAAAACATCCACCTCACCACGCAAAGCACCG
* * * ** **
71901 TACCTCATCACGTAGCGCACCATTGTCTTCACGTAAAGTA-CCGACCTCATGACGCAAAGCACCG
1 TACCTCATCACGTAGCACACCATTGTCATCACATAAAACATCC-ACCTCACCACGCAAAGCACCG
71965 -ACCTCATCACGTA
1 TACCTCATCACGTA
71978 ACTCCCCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 2 0.03
63 58 0.91
64 4 0.06
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.20
Consensus pattern (64 bp):
TACCTCATCACGTAGCACACCATTGTCATCACATAAAACATCCACCTCACCACGCAAAGCACCG
Found at i:73700 original size:20 final size:20
Alignment explanation
Indices: 73671--73787 Score: 171
Period size: 20 Copynumber: 5.8 Consensus size: 20
73661 TCTGAAACTT
*
73671 AAATCTGCAATGCGAAAATGA
1 AAATC-GCAACGCGAAAATGA
* *
73692 AAATCGCAATGAGAAAATGA
1 AAATCGCAACGCGAAAATGA
73712 AAATCGCAACGCGAAAATGA
1 AAATCGCAACGCGAAAATGA
* *
73732 AAATCGCAACGTGAACATGA
1 AAATCGCAACGCGAAAATGA
73752 AAATCGCAACGCGAAAATGA
1 AAATCGCAACGCGAAAATGA
*
73772 AAATCACAACGCGAAA
1 AAATCGCAACGCGAAA
73788 CTAAATTCGC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
20 83 0.94
21 5 0.06
ACGTcount: A:0.50, C:0.18, G:0.19, T:0.13
Consensus pattern (20 bp):
AAATCGCAACGCGAAAATGA
Found at i:74191 original size:22 final size:24
Alignment explanation
Indices: 74166--74230 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 24
74156 GATGGAGATA
74166 GACGGATTTCGTCGA-AGAT-GGG
1 GACGGATTTCGTCGAGAGATGGGG
*
74188 GACGGATTACGTC-AGAGATGGGG
1 GACGGATTTCGTCGAGAGATGGGG
*
74211 GACGGATGTCGTCGTAGAGA
1 GACGGATTTCGTCG-AGAGA
74231 GTGAGAGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 16 0.44
23 14 0.39
25 5 0.14
ACGTcount: A:0.25, C:0.14, G:0.42, T:0.20
Consensus pattern (24 bp):
GACGGATTTCGTCGAGAGATGGGG
Found at i:74366 original size:20 final size:20
Alignment explanation
Indices: 74341--74379 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
74331 ATAAACGCGC
74341 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
74361 TTTGACTTCTGTGTTGCGA
1 TTTGACTTCTGTGTTGCGA
74380 TTTACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (20 bp):
TTTGACTTCTGTGTTGCGAA
Found at i:74663 original size:15 final size:15
Alignment explanation
Indices: 74643--74677 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
74633 AAGTAACGAG
74643 AGCATCATATTGACT
1 AGCATCATATTGACT
74658 AGCATCATATTGACT
1 AGCATCATATTGACT
74673 AGCAT
1 AGCAT
74678 AAAAGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (15 bp):
AGCATCATATTGACT
Found at i:87759 original size:64 final size:64
Alignment explanation
Indices: 87683--87810 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
87673 CACATTACCA
* *
87683 GGGGAATGGAATGTTATTCTCCCG-TTTGGATTGCAAACATTCCCAACCTCCGGTAATAAGTTAT
1 GGGGAATGGAATGTCATTCTCCCGATTT-GATTGCAAACATTCACAACCTCCGGTAATAAGTTAT
87747 GGGGAATGGAATGTCATTCTCCCGATTTGATTGCAAACATTCACAACCTCCGGTAATAAGTTAT
1 GGGGAATGGAATGTCATTCTCCCGATTTGATTGCAAACATTCACAACCTCCGGTAATAAGTTAT
87811 TCCCAACAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 58 0.95
65 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (64 bp):
GGGGAATGGAATGTCATTCTCCCGATTTGATTGCAAACATTCACAACCTCCGGTAATAAGTTAT
Found at i:88166 original size:11 final size:11
Alignment explanation
Indices: 88152--88178 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
88142 ATATATAAAT
88152 TAATTATAGTA
1 TAATTATAGTA
88163 TAATTATAGTA
1 TAATTATAGTA
88174 TAATT
1 TAATT
88179 CAACTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (11 bp):
TAATTATAGTA
Found at i:89569 original size:60 final size:60
Alignment explanation
Indices: 89450--89582 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
89440 ATGTTCTAAC
**
89450 TTCATCCCTAAAACTATGACTATCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAA-T
1 TTCATCCC--AAACTATGACTATCATTCTAAATTAATCCCCAAACTTTTGAACATTTCAAGT
* * * *
89511 TTCGTACCCAAACTATGACCT-TCATTTTAAATTAGTCCCCAGACATTTTGAACA-TTCAAGT
1 TTCAT-CCCAAACTATGA-CTATCATTCTAAATTAATCCCCAAAC-TTTTGAACATTTCAAGT
89572 TTCATCCCAAA
1 TTCATCCCAAA
89583 ATTATACATA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
60 38 0.62
61 20 0.33
62 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (60 bp):
TTCATCCCAAACTATGACTATCATTCTAAATTAATCCCCAAACTTTTGAACATTTCAAGT
Found at i:90491 original size:22 final size:22
Alignment explanation
Indices: 90461--90510 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
90451 TGCTCCTTAA
*
90461 AATA-TATATATT-CTTATTTT
1 AATATTATATATTCCATATTTT
90481 -ATATTATATATTCCATATTTT
1 AATATTATATATTCCATATTTT
90502 AATATTATA
1 AATATTATA
90511 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 8 0.31
21 7 0.27
22 8 0.31
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
AATATTATATATTCCATATTTT
Found at i:93586 original size:41 final size:37
Alignment explanation
Indices: 93498--93583 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 37
93488 ATCGGGCGGG
93498 TATAT-ATATTTAAATTAAATATATAATATATATATAT
1 TATATAAT-TTTAAATTAAATATATAATATATATATAT
* *
93535 T-TTTAA-TTTAAATTAAATTTATTAATATTATATATAT
1 TATATAATTTTAAATTAAATATA-TAATA-TATATATAT
93572 ATATATAATTTT
1 -TATATAATTTT
93584 TAATATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
35 14 0.35
36 7 0.17
37 11 0.28
38 1 0.03
39 4 0.10
40 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TATATAATTTTAAATTAAATATATAATATATATATAT
Found at i:93704 original size:29 final size:30
Alignment explanation
Indices: 93639--93709 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
93629 TCCCCGTCCT
93639 CGTCCCCGTTTAGCATAAACGGTTTTTTCC
1 CGTCCCCGTTTAGCATAAACGGTTTTTTCC
*
93669 CATCCCCGTTTAGCATAAACGG-TTTTTCC
1 CGTCCCCGTTTAGCATAAACGGTTTTTTCC
93698 CGTCCCCGTTTA
1 CGTCCCCGTTTA
93710 ATTCGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 18 0.46
30 21 0.54
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.35
Consensus pattern (30 bp):
CGTCCCCGTTTAGCATAAACGGTTTTTTCC
Found at i:99664 original size:137 final size:138
Alignment explanation
Indices: 99402--99697 Score: 380
Period size: 137 Copynumber: 2.1 Consensus size: 138
99392 ATACATATAT
* * * * *
99402 ACATACATACAAACAAACAAATTTGGAAGCAAACCCTGATCTTAAATTTGGTTTCAGGCACATCT
1 ACATACATACATACATACAAATTTAGAAACAAACCCTGATCTTAAATTTGATTTCAGGCACA--T
* *
99467 GTGCATTCAGGCCGGACCTCATAATAAGAATCAGCAGGTTCTTTATTGAACCACAACACCATTAT
64 GTGCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATAGAACCACAACACCATTAT
99532 TGTTACACAC
129 TGTTACACAC
* * **
99542 ACATACATACATACATACACAA-TTAGAAACAAACCTTGATTTTATGTTTGATTTCAGGCACA-G
1 ACATACATACATACATACA-AATTTAGAAACAAACCCTGATCTTAAATTTGATTTCAGGCACATG
* * **
99605 TGCATTCAGGTCGGACCTCATAATAAGAATCAACAGGTTCTTTATAGAATCACGGCACCATTATT
65 TGCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATAGAACCACAACACCATTATT
*
99670 GTTACATAC
130 GTTACACAC
* * *
99679 ACATGCATGCATGCATACA
1 ACATACATACATACATACA
99698 TACATACATA
Statistics
Matches: 136, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
137 84 0.62
140 50 0.37
141 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (138 bp):
ACATACATACATACATACAAATTTAGAAACAAACCCTGATCTTAAATTTGATTTCAGGCACATGT
GCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATAGAACCACAACACCATTATTG
TTACACAC
Found at i:99716 original size:156 final size:158
Alignment explanation
Indices: 99542--99827 Score: 366
Period size: 159 Copynumber: 1.8 Consensus size: 158
99532 TGTTACACAC
* * ** *
99542 ACATACATACATACATACACAA-TTAGAAACAAACCTTGATTTTATGTTTGATTTC-AGGCACA-
1 ACATACATACATACATACA-AATTTAGAAACAAACCCTGATCTTAAATTTG-GTTCAAGGCACAT
* *
99604 GTGCATTCAGGTCGGACCTCATAATAAGAATCAACAGGTTCTTTA-TAGAATCACGGCACCATTA
64 GTGCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATTA-AATCACAGCACCATTA
99668 TTGTTACATACACATGCATGCATGCATACAT
128 TTGTTACATACACATGCATGCATGCATACAT
* *
99699 ACATACATA-ATATATACAAATTTGGAAACAAACCCTGATCTTAAATTTGGTTCAAGGCACATCT
1 ACATACATACATACATACAAATTTAGAAACAAACCCTGATCTTAAATTTGGTTCAAGGCACA--T
* * * * *
99763 GTGGATTCAGGCCGGACCTCATACTAGGAATCAGCAGGTTCTTTATTAAATCACAGCATCATTAT
64 GTGCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATTAAATCACAGCACCATTAT
99828 CAGGGATGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
155 5 0.05
156 38 0.35
157 9 0.08
159 55 0.50
160 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (158 bp):
ACATACATACATACATACAAATTTAGAAACAAACCCTGATCTTAAATTTGGTTCAAGGCACATGT
GCATTCAGGCCGGACCTCATAATAAGAATCAACAGGTTCTTTATTAAATCACAGCACCATTATTG
TTACATACACATGCATGCATGCATACAT
Found at i:101439 original size:64 final size:64
Alignment explanation
Indices: 101337--101463 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
101327 TTTCTATTAT
* * * * *
101337 TTTGGATACATGACTTACCACATCAATCATAAGTGTTAACTATTAGTCAAGTAATTGTTTTTAC
1 TTTGGATACATGACTCACCACATCAACCATAAGCGTTAACCATTAGTCAAGTAATCGTTTTTAC
101401 TTTGGATACATGACTCACCACATCAACCATAAGCGTTAACCATTAGTCAAGTAATCGTTTTTA
1 TTTGGATACATGACTCACCACATCAACCATAAGCGTTAACCATTAGTCAAGTAATCGTTTTTA
101464 TCTAGCCAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (64 bp):
TTTGGATACATGACTCACCACATCAACCATAAGCGTTAACCATTAGTCAAGTAATCGTTTTTAC
Found at i:104216 original size:97 final size:96
Alignment explanation
Indices: 104043--104343 Score: 350
Period size: 97 Copynumber: 3.0 Consensus size: 96
104033 CCGGTTTTGT
* * * *
104043 TCCACCATTCAACTGATCAAATTATCAGTTCTCGATTCAATCAGTCGGTTCAGTTCGAGTCTAAC
1 TCCACGATTCAACTGATCAAATTATCAGTTCCCGATTCAA-CAGTCGGTTCAGTTCGACTCGAAC
* *
104108 AACCATGCTGTCAAGAAAATAGAATATATTTC
65 AATCATGCTGTCAAGAAAACAGAATATATTTC
* * * *
104140 TCCGCGGTTCAACAGATCAAATTATCAGTTCCCGCTTCAACCAGTCGGTTCAGTTCGACTCGAAC
1 TCCACGATTCAACTGATCAAATTATCAGTTCCCGATTCAA-CAGTCGGTTCAGTTCGACTCGAAC
*
104205 AATCAAGCTGTCAAGAAAACAGAATATATTTCCGATATTAC
65 AATCATGCTGTCAAGAAAACAG-A-ATA--T---AT-TT-C
* * *
104246 TCCACGATTCAACTGATCAAATTATGAGTTGCCGATTCTAATAGTCGGTTCAGTTCGACTCGAAC
1 TCCACGATTCAACTGATCAAATTATCAGTTCCCGATTC-AACAGTCGGTTCAGTTCGACTCGAAC
* *
104311 AATCATGTTGTCAAGAAAACAGAATATGTTTC
65 AATCATGCTGTCAAGAAAACAGAATATATTTC
104343 T
1 T
104344 TCCTATAATG
Statistics
Matches: 172, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
97 77 0.45
98 3 0.02
99 4 0.02
101 1 0.01
102 1 0.01
104 5 0.03
105 3 0.02
106 76 0.44
107 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (96 bp):
TCCACGATTCAACTGATCAAATTATCAGTTCCCGATTCAACAGTCGGTTCAGTTCGACTCGAACA
ATCATGCTGTCAAGAAAACAGAATATATTTC
Found at i:104323 original size:106 final size:106
Alignment explanation
Indices: 104133--104342 Score: 305
Period size: 106 Copynumber: 2.0 Consensus size: 106
104123 AAAATAGAAT
* * * *
104133 ATATTTCTCCGCGGTTCAACAGATCAAATTATCAGTTCCCGCTTCAACCAGTCGGTTCAGTTCGA
1 ATATTACTCCACGATTCAACAGATCAAATTATCAGTTCCCGATTCAACCAGTCGGTTCAGTTCGA
104198 CTCGAACAATCAAGCTGTCAAGAAAACAGAATATATTTCCG
66 CTCGAACAATCAAGCTGTCAAGAAAACAGAATATATTTCCG
* * * *
104239 ATATTACTCCACGATTCAACTGATCAAATTATGAGTTGCCGATTCTAA-TAGTCGGTTCAGTTCG
1 ATATTACTCCACGATTCAACAGATCAAATTATCAGTTCCCGATTC-AACCAGTCGGTTCAGTTCG
* * *
104303 ACTCGAACAATCATGTTGTCAAGAAAACAGAATATGTTTC
65 ACTCGAACAATCAAGCTGTCAAGAAAACAGAATATATTTC
104343 TTCCTATAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 90 0.98
107 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (106 bp):
ATATTACTCCACGATTCAACAGATCAAATTATCAGTTCCCGATTCAACCAGTCGGTTCAGTTCGA
CTCGAACAATCAAGCTGTCAAGAAAACAGAATATATTTCCG
Found at i:104742 original size:30 final size:30
Alignment explanation
Indices: 104708--104787 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
104698 GCCCGACGGA
* * *
104708 TTCAAACATGTATATATGACGATATTATCC
1 TTCAAACATGTATATACGACAATAGTATCC
104738 TTCAAACATGTATATACGACAATAGTATCC
1 TTCAAACATGTATATACGACAATAGTATCC
104768 TTCAAACATGTATATA-GACA
1 TTCAAACATGTATATACGACA
104788 TGTCGGTCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 4 0.09
30 43 0.91
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (30 bp):
TTCAAACATGTATATACGACAATAGTATCC
Found at i:106971 original size:60 final size:60
Alignment explanation
Indices: 106878--107019 Score: 149
Period size: 60 Copynumber: 2.4 Consensus size: 60
106868 TCATATCTCC
* * * * * * * **
106878 AAATTATGATTCTCGTTTTAAATTAATCCTTAAAATTTTAAATATTTTAATTTTATTTCA
1 AAATTATGAATCTCATTCTAAACTAATCCTTAAAATTTTAAACATTTCAATTTCATCCCA
* * * *
106938 AAATTATGAATCTCATTCTAAACTAGTCTTTAAATTTTTAAACATTTCAATTTCATCCCT
1 AAATTATGAATCTCATTCTAAACTAATCCTTAAAATTTTAAACATTTCAATTTCATCCCA
* *
106998 AAATTATGAATATCATGCTAAA
1 AAATTATGAATCTCATTCTAAA
107020 TTGGTCCCAA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (60 bp):
AAATTATGAATCTCATTCTAAACTAATCCTTAAAATTTTAAACATTTCAATTTCATCCCA
Found at i:108005 original size:20 final size:20
Alignment explanation
Indices: 107969--108007 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
107959 AATTTAAGAG
*
107969 AAATTAATATATTTTTTTAT
1 AAATTAATATATATTTTTAT
107989 AAATATAATA-ATATTTTTA
1 AAAT-TAATATATATTTTTA
108008 ATTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTAATATATATTTTTAT
Found at i:108036 original size:26 final size:28
Alignment explanation
Indices: 107981--108033 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
107971 ATTAATATAT
*
107981 TTTTTTATAAATATAATAATATTTTTAA
1 TTTTTTATAAATATAATAATATTTTAAA
108009 TTTTTT-TAAATA-AATAA-ATTTTAAA
1 TTTTTTATAAATATAATAATATTTTAAA
108034 ATTACTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 6 0.25
28 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTTTATAAATATAATAATATTTTAAA
Found at i:112840 original size:20 final size:21
Alignment explanation
Indices: 112817--112863 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
112807 AAATTATTTT
112817 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* *
112837 AATA-AAAATACAATTAGAAC
1 AATATATAATACAATTAAAAC
112857 AATATAT
1 AATATAT
112864 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:114182 original size:3 final size:3
Alignment explanation
Indices: 114176--114292 Score: 173
Period size: 3 Copynumber: 38.7 Consensus size: 3
114166 ATTATTATTA
*
114176 AAT AAT AAT AAT AAT AAT -AT ATAT ATT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT
* *
114222 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
114270 AAT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
114293 AATGGATAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.02
3 95 0.92
4 6 0.06
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:114840 original size:113 final size:113
Alignment explanation
Indices: 114589--115153 Score: 932
Period size: 113 Copynumber: 5.0 Consensus size: 113
114579 GATATCAAAC
** *
114589 AAAGGTTGAACAAGCTCCTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * ***
114654 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGTA
* *
114703 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
114768 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGTA
114816 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
114881 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGTA
114929 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
114994 ATGAACCTTCTCTGGTAATGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGTA
115042 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
115107 ATGAACCTTCTCTGGTAATGATGATCCACCAAATGATGGATTCAGGT
66 ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGT
115154 CTTTGCTAAA
Statistics
Matches: 432, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 370 0.86
114 62 0.14
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAATGATGATCCACCAAATGATGGATTCAGGTA
Found at i:115837 original size:52 final size:52
Alignment explanation
Indices: 115772--116761 Score: 1794
Period size: 52 Copynumber: 19.1 Consensus size: 52
115762 TCTAAATTCA
115772 ATGCT-TGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
115824 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
115876 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
115927 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
115979 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116030 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
116082 ATGCTATGTTCTGTTCAACCAGATCAGATGACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116134 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116186 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116237 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116289 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116340 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116392 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116444 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116496 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116547 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116599 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116651 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116703 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116755 ATGCTAT
1 ATGCTAT
116762 TGAGCACATA
Statistics
Matches: 911, Mismatches: 21, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
51 246 0.27
52 663 0.73
53 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (52 bp):
ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:116198 original size:207 final size:207
Alignment explanation
Indices: 115772--116761 Score: 1814
Period size: 207 Copynumber: 4.8 Consensus size: 207
115762 TCTAAATTCA
*
115772 ATGCT-TGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
1 ATGCTATG-TTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
*
115836 GTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
65 GTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
*
115901 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGA
130 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGA
115966 ACACTTCCAGAAG
195 ACACTTCCAGAAG
115979 ATGCTATGTTC--TTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
1 ATGCTATGTTCTGTTC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
*
116042 GTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-TCAACCAGAT
65 GTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-TCT-AACCAGAT
* *
116106 CAGATGACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAA
128 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAA
116171 GAACACTTCCAGAAG
193 GAACACTTCCAGAAG
116186 ATGCTATGTTC--TTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
1 ATGCTATGTTCTGTTC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
116249 GTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
65 GTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
116314 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGA
130 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGA
116379 ACACTTCCAGAAG
195 ACACTTCCAGAAG
116392 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
1 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
116457 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
66 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
116522 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAA
131 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAA
116587 CACTTCCAGAAG
196 CACTTCCAGAAG
116599 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
1 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
116664 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGT-TCAACCAGATC
66 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-TCT-AACCAGATC
116728 AGATAACTCAAAGAACACTTCCAGAAGATGCTAT
129 AGATAACTCAAAGAACACTTCCAGAAGATGCTAT
116762 TGAGCACATA
Statistics
Matches: 769, Mismatches: 5, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
205 2 0.00
206 199 0.26
207 519 0.67
208 49 0.06
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (207 bp):
ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAG
Found at i:116349 original size:310 final size:310
Alignment explanation
Indices: 115772--116761 Score: 1894
Period size: 310 Copynumber: 3.2 Consensus size: 310
115762 TCTAAATTCA
*
115772 ATGCT-TGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
1 ATGCTATG-TTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT
*
115836 GTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
65 GTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCA
115901 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGA
130 GATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGA
115966 ACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
195 ACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
116031 TGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
260 TGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116082 ATGCTATGTTCTGTTCAACCAGATCAGATGACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
1 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
116147 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
66 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
116212 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAA
131 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAA
116277 CACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
196 CACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
116342 GCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
261 GCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116392 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
1 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
116457 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
66 TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
*
116522 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAA
131 ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAA
116587 CACTTCCAGAAGATGCTATGTTCTGT-TCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
196 CACTTCCAGAAGATGCTATGTTCT-TCT-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
116651 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
259 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
116703 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
116762 TGAGCACATA
Statistics
Matches: 671, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
310 522 0.78
311 149 0.22
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (310 bp):
ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG
TTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
GCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:117340 original size:19 final size:20
Alignment explanation
Indices: 117318--117359 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
117308 AATAGAAAAG
*
117318 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
117337 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
117357 AAT
1 AAT
117360 TGAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:117706 original size:6 final size:6
Alignment explanation
Indices: 117690--117741 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
117680 TGACCCTCCT
*
117690 TTTTTC TTTTTTC TTTTTC TATATTTA TTTTT- TTTTT- TTTTTC TTTTTC
1 TTTTTC -TTTTTC TTTTTC T-T-TTTC TTTTTC TTTTTC TTTTTC TTTTTC
117739 TTT
1 TTT
117742 CTTTTCTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
5 10 0.24
6 19 0.46
7 8 0.20
8 4 0.10
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:129061 original size:15 final size:16
Alignment explanation
Indices: 129041--129074 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
129031 CTTCGATATA
129041 TAAAAAATA-ATTTAT
1 TAAAAAATATATTTAT
129056 TAAAAAATATTATTTAT
1 TAAAAAATA-TATTTAT
129073 TA
1 TA
129075 TTCATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAAATATATTTAT
Found at i:129143 original size:19 final size:20
Alignment explanation
Indices: 129121--129165 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
129111 AAATTATTTT
129121 AATATATA-ACAATTAAAAC
1 AATATATATACAATTAAAAC
* *
129140 AATA-AAATACAATTAGAAC
1 AATATATATACAATTAAAAC
129159 AATATAT
1 AATATAT
129166 TTAAAAGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.10
19 18 0.86
20 1 0.05
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (20 bp):
AATATATATACAATTAAAAC
Found at i:130487 original size:3 final size:3
Alignment explanation
Indices: 130479--130591 Score: 163
Period size: 3 Copynumber: 36.7 Consensus size: 3
130469 TTATTTATTA
* *
130479 AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT ACT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
130526 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
130572 ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
130592 AATGGATAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
3 90 0.91
4 9 0.09
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:144012 original size:14 final size:15
Alignment explanation
Indices: 143983--144015 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
143973 CCATTTTTAC
*
143983 TATTTACTTTATTTT
1 TATTTACTTCATTTT
143998 TATTTA-TTCATTTT
1 TATTTACTTCATTTT
144012 TATT
1 TATT
144016 GTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTACTTCATTTT
Found at i:144675 original size:18 final size:18
Alignment explanation
Indices: 144652--144691 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
144642 TGAGCCTTTG
144652 CCATTTTCTTTGTTTTTA
1 CCATTTTCTTTGTTTTTA
144670 CCATTTTCTTTGTTTTTA
1 CCATTTTCTTTGTTTTTA
144688 CCAT
1 CCAT
144692 ATTATAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.05, T:0.62
Consensus pattern (18 bp):
CCATTTTCTTTGTTTTTA
Found at i:147746 original size:17 final size:17
Alignment explanation
Indices: 147724--147757 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
147714 GGATATATGA
147724 AGATGGTACACCATCTT
1 AGATGGTACACCATCTT
**
147741 AGATGGTGTACCATCTT
1 AGATGGTACACCATCTT
147758 CATATATCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (17 bp):
AGATGGTACACCATCTT
Found at i:157579 original size:29 final size:31
Alignment explanation
Indices: 157538--157605 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
157528 GATAAAACAT
157538 TTTA-TATTATATTAAA-ATTATT-TAATAA
1 TTTATTATTATATTAAATATTATTATAATAA
* * *
157566 TTTATTATTTTATTAAATTTTATTATACTAA
1 TTTATTATTATATTAAATATTATTATAATAA
157597 TTT-TTATTA
1 TTTATTATTA
157606 CTTTTTACGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 11 0.33
30 10 0.30
31 8 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTATTATTATATTAAATATTATTATAATAA
Found at i:159704 original size:24 final size:23
Alignment explanation
Indices: 159646--159705 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
159636 CAAATGACTG
* *
159646 AAAACGTATCAT--AAATATATA
1 AAAACATATCATAAAAATATAAA
159667 AAAACATA-CGATAAAAATATTAAA
1 AAAACATATC-ATAAAAATA-TAAA
159691 AAAACATATCATAAA
1 AAAACATATCATAAA
159706 GACAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 9 0.28
23 5 0.16
24 16 0.50
25 1 0.03
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.23
Consensus pattern (23 bp):
AAAACATATCATAAAAATATAAA
Found at i:159772 original size:24 final size:23
Alignment explanation
Indices: 159718--159772 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
159708 CAAAATTATT
* *
159718 AAAAACTAAAAAACTAAATAAGA
1 AAAAAATAAAAAACTAAAGAAGA
* * *
159741 ATATAATATAAAAATTAAAGAAGA
1 AAAAAATA-AAAAACTAAAGAAGA
159765 AAAAAATA
1 AAAAAATA
159773 CTTACTGTGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAAATAAAAAACTAAAGAAGA
Found at i:161005 original size:31 final size:31
Alignment explanation
Indices: 160934--161008 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
160924 AACGATCGGG
*
160934 GACCATATTACAAACATACTAAATGTTAGGA
1 GACCATATTGCAAACATACTAAATGTTAGGA
*
160965 GACCATATTGCAAACA-ACATAAATGTTTGGA
1 GACCATATTGCAAACATAC-TAAATGTTAGGA
**
160996 GACTGTATTGCAA
1 GACCATATTGCAA
161009 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (31 bp):
GACCATATTGCAAACATACTAAATGTTAGGA
Found at i:170548 original size:22 final size:22
Alignment explanation
Indices: 170520--170577 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
170510 GGGTTTTAAT
*
170520 CTAAAATGTTATACTGGCTATA
1 CTAAAATGTTACACTGGCTATA
170542 CTAAAATGTTACACTGGCTATA
1 CTAAAATGTTACACTGGCTATA
170564 CTAAAATGTTACAC
1 CTAAAATGTTACAC
170578 AATTGTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (22 bp):
CTAAAATGTTACACTGGCTATA
Found at i:174230 original size:11 final size:11
Alignment explanation
Indices: 174214--174238 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
174204 ATTACCCATA
174214 TATATATATAT
1 TATATATATAT
174225 TATATATATAT
1 TATATATATAT
174236 TAT
1 TAT
174239 GTATTTGTAG
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATAT
Found at i:178448 original size:180 final size:181
Alignment explanation
Indices: 178145--178506 Score: 717
Period size: 180 Copynumber: 2.0 Consensus size: 181
178135 TGGTTCTTTA
178145 AGTTGCAGCAGGTTGGAATTAGGATGAATGCAGTATTGGTGGCAATGATATATAACAAGGGATTA
1 AGTTGCAGCAGGTTGGAATTAGGATGAATGCAGTATTGGTGGCAATGATATATAACAAGGGATTA
178210 ACGCTTTCGTGCCAGTCGAAGCAGAGCCACACGAGCGGGGAGATTATCAATTTCATGACTGTTGA
66 ACGCTTTCGTGCCAGTCGAAGCAGAGCCACACGAGCGGGGAGATTATCAATTTCATGACTGTTGA
178275 TGCCGAAAGGGTGGGTGACTTTAGTTGGTACATGCATGATCCATGGATGGT
131 TGCCGAAAGGGTGGGTGACTTTAGTTGGTACATGCATGATCCATGGATGGT
178326 AGTTGCAGCAGGTTGGAATTAGGATGAATGCAGTA-TGGTGGCAATGATATATAACAAGGGATTA
1 AGTTGCAGCAGGTTGGAATTAGGATGAATGCAGTATTGGTGGCAATGATATATAACAAGGGATTA
178390 ACGCTTTCGTGCCAGTCGAAGCAGAGCCACACGAGCGGGGAGATTATCAATTTCATGACTGTTGA
66 ACGCTTTCGTGCCAGTCGAAGCAGAGCCACACGAGCGGGGAGATTATCAATTTCATGACTGTTGA
178455 TGCCGAAAGGGTGGGTGACTTTAGTTGGTACATGCATGATCCATGGATGGT
131 TGCCGAAAGGGTGGGTGACTTTAGTTGGTACATGCATGATCCATGGATGGT
178506 A
1 A
178507 ACTTTGCAAG
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
180 146 0.81
181 35 0.19
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (181 bp):
AGTTGCAGCAGGTTGGAATTAGGATGAATGCAGTATTGGTGGCAATGATATATAACAAGGGATTA
ACGCTTTCGTGCCAGTCGAAGCAGAGCCACACGAGCGGGGAGATTATCAATTTCATGACTGTTGA
TGCCGAAAGGGTGGGTGACTTTAGTTGGTACATGCATGATCCATGGATGGT
Found at i:183064 original size:32 final size:32
Alignment explanation
Indices: 183028--183090 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
183018 CATATGAAGT
* *
183028 GATAAAATATTATATGTCACGTCATTTAAAAC
1 GATAAAATATTATATATCACATCATTTAAAAC
* * *
183060 GATAATATATTATGTATCATATCATTTAAAA
1 GATAAAATATTATATATCACATCATTTAAAA
183091 TGATGATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (32 bp):
GATAAAATATTATATATCACATCATTTAAAAC
Found at i:195295 original size:61 final size:61
Alignment explanation
Indices: 195145--195297 Score: 159
Period size: 61 Copynumber: 2.5 Consensus size: 61
195135 TATCCTCACC
* * * * * * * * **
195145 TTCATTTTAAATT-GATCCCTAAA-TTTTTAAATATTTTAATTTCATCTCTAAACTATTATT
1 TTCATTCTAAATTAG-TCCCCAAACTTTTTGAACATTTCAATTTCATCCCCAAACTATGACA
* *
195205 TATCATTCTGAATTAGTCCTCAAAC-TTTTGAACATTTCAATTTCATCCCCAAACTATGACA
1 T-TCATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTTCATCCCCAAACTATGACA
195266 TTCATTCTAAATTAGTCCCCAAACTTTTTGAA
1 TTCATTCTAAATTAGTCCCCAAACTTTTTGAA
195298 AATTCTGGTT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
60 22 0.29
61 52 0.69
62 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (61 bp):
TTCATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTTCATCCCCAAACTATGACA
Found at i:195547 original size:29 final size:29
Alignment explanation
Indices: 195500--195594 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
195490 AGAGTGTCAT
* *
195500 AGTTTAGGGATAAAATTAGAATATTCAAA
1 AGTTTAAGGATGAAATTAGAATATTCAAA
** * *
195529 AGTTTAAGGACT-AGTTTAGAATGAGTC-AT
1 AGTTTAAGGA-TGAAATTAGAAT-ATTCAAA
* *
195558 AGTTTGAGGATGAAATTGGAATATTCAAA
1 AGTTTAAGGATGAAATTAGAATATTCAAA
195587 AGTTTAAG
1 AGTTTAAG
195595 TATTAATTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
28 4 0.08
29 42 0.84
30 4 0.08
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (29 bp):
AGTTTAAGGATGAAATTAGAATATTCAAA
Found at i:195547 original size:60 final size:58
Alignment explanation
Indices: 195449--195627 Score: 193
Period size: 60 Copynumber: 3.0 Consensus size: 58
195439 GAATTTGGGA
** *
195449 ATAAAATTGAAATATTCAAAAGTTTGGGGACCAATTTAGAAAGAGTGTCATAGTTTAGGG
1 ATAAAATTG-AATATTCAAAAGTTTAAGGACTAATTTAGAAAGAG-GTCATAGTTTAGGG
* *
195509 ATAAAATTAGAATATTCAAAAGTTTAAGGACTAGTTTAGAATGA-GTCATAGTTT-GAGG
1 ATAAAATT-GAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAGGTCATAGTTTAG-GG
* * * *
195567 ATGAAATTGGAATATTCAAAAGTTTAAGTATTAATTTA-AAATGAGAATCATAGTTTAGGG
1 ATAAAATT-GAATATTCAAAAGTTTAAGGACTAATTTAGAAA-GAG-GTCATAGTTTAGGG
195627 A
1 A
195628 CGAATGATGC
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
57 3 0.03
58 47 0.47
60 49 0.49
61 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (58 bp):
ATAAAATTGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAGGTCATAGTTTAGGG
Found at i:195582 original size:58 final size:58
Alignment explanation
Indices: 195449--195627 Score: 207
Period size: 58 Copynumber: 3.0 Consensus size: 58
195439 GAATTTGGGA
* ** * *
195449 ATAAAATTGAAATATTCAAAAGTTTGGGGACCAATTTAGAAAGAGTGTCATAGTTTAGGG
1 ATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGA--GTCATAGTTTAGGG
* *
195509 ATAAAATTAGAATATTCAAAAGTTTAAGGACTAGTTTAGAATGAGTCATAGTTT-GAGG
1 ATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTCATAGTTTAG-GG
* * * *
195567 ATGAAATTGGAATATTCAAAAGTTTAAGTATTAATTTAAAATGAGAATCATAGTTTAGGG
1 ATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAG--TCATAGTTTAGGG
195627 A
1 A
195628 CGAATGATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
57 1 0.01
58 51 0.50
60 49 0.48
61 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (58 bp):
ATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTCATAGTTTAGGG
Found at i:204174 original size:3 final size:3
Alignment explanation
Indices: 204168--204203 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
204158 TATCAAACAA
204168 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
204204 ATAAAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:204192 original size:19 final size:19
Alignment explanation
Indices: 204168--204207 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
204158 TATCAAACAA
204168 AATAATAATAATAATAAAT
1 AATAATAATAATAATAAAT
204187 AATAATAATAATAATAAAT
1 AATAATAATAATAATAAAT
204206 AA
1 AA
204208 AAAAAGACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAATAATAATAATAAAT
Found at i:204207 original size:16 final size:16
Alignment explanation
Indices: 204167--204200 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
204157 ATATCAAACA
204167 AAATAATAATAATAAT
1 AAATAATAATAATAAT
204183 AAATAATAATAATAAT
1 AAATAATAATAATAAT
204199 AA
1 AA
204201 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:204508 original size:40 final size:40
Alignment explanation
Indices: 204361--204514 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
204351 TGTTGGGGAC
* * ***
204361 GACACTGCTCATACTTGATGAAGAGTTCTGGTCGTCTACAGGT
1 GACACGGCTCATACATGATGAAGAGTTCTGGTCGGGGA-A--T
* * * * ** *
204404 GACAAGGTTCCTACATGATGAGGAAATCTGGTCAAGGG-AT
1 GACACGGCTCATACATGATGAAGAGTTCTGGTC-GGGGAAT
**
204444 GACATTGCTCATACATGATGAAGAGTTCTGGTCGGGGAAT
1 GACACGGCTCATACATGATGAAGAGTTCTGGTCGGGGAAT
*
204484 GACACGGCTCATACGTGATGAAGAGTTCTGG
1 GACACGGCTCATACATGATGAAGAGTTCTGG
204515 CCATCTAAAG
Statistics
Matches: 86, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
39 3 0.03
40 57 0.66
42 1 0.01
43 25 0.29
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (40 bp):
GACACGGCTCATACATGATGAAGAGTTCTGGTCGGGGAAT
Found at i:204643 original size:40 final size:40
Alignment explanation
Indices: 204430--204643 Score: 139
Period size: 40 Copynumber: 5.1 Consensus size: 40
204420 GATGAGGAAA
* * *
204430 TCTGGTCAAGGGATGACATTGCTCATACATGATGAAGAGT
1 TCTGGTCAGGGGATGACACTGCTCATACGTGATGAAGAGT
*
204470 TCTGGTC-GGGGAATGACACGGCTCATACGTGATGAAGAGT
1 TCTGGTCAGGGG-ATGACACTGCTCATACGTGATGAAGAGT
* * * * * *
204510 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACG-
1 TCTGG---TC---AGGGGATGACACTGCTCATACGTGATGAAGA-GT
* * * * *
204556 GCTGGTTATCTA-TGGTTGACA-TGGCTCATACGTGATGAGGAGG
1 TCTGG---TC-AGGGGATGACACT-GCTCATACGTGATGAAGAGT
*
204599 TCTGGTCAGGGGATGGCACTGCTCATACGTGATGAAGAGT
1 TCTGGTCAGGGGATGACACTGCTCATACGTGATGAAGAGT
204639 TCTGG
1 TCTGG
204644 CCATCTTTAG
Statistics
Matches: 135, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
39 4 0.03
40 68 0.50
41 1 0.01
42 1 0.01
43 27 0.20
44 1 0.01
46 29 0.21
47 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (40 bp):
TCTGGTCAGGGGATGACACTGCTCATACGTGATGAAGAGT
Found at i:204713 original size:134 final size:132
Alignment explanation
Indices: 204443--204788 Score: 475
Period size: 134 Copynumber: 2.6 Consensus size: 132
204433 GGTCAAGGGA
* * *
204443 TGACATTGCTCATACATGATGAAGAGTTCTGGTC-GGGGAATGACACGGCTCATACGTGATGAAG
1 TGACATGGCTCATACATGATGAGGAGATCTGGTCAGGGG-ATGACACGGCTCATACGTGATGAAG
*
204507 AGTTCTGGCCATC-TA--AAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAT
65 AGTTCTGGCCATCTTAGGAAGGCGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAT
204569 GGT
130 GGT
* * * *
204572 TGACATGGCTCATACGTGATGAGGAGGTCTGGTCAGGGGATGGCACTGCTCATACGTGATGAAGA
1 TGACATGGCTCATACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGA
* *
204637 GTTCTGGCCATCTTTAGGTAGGGCGATAACACGGTTCCTACGTGATGAGGACGGTTGGTTATCTA
66 GTTCTGGCCATC-TTAGG-AAGGCGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTA
204702 TGGT
129 TGGT
* * * * *
204706 TGACATGGCTCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGGTTCCTATGTGATGAGGA
1 TGACATGGCTCATACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGA
* *
204771 CTACTGGCCATCTCTAGG
66 GTTCTGGCCATCT-TAGG
204789 GATAATGGTT
Statistics
Matches: 190, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
129 66 0.35
130 4 0.02
131 2 0.01
133 1 0.01
134 117 0.62
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (132 bp):
TGACATGGCTCATACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTTAGGAAGGCGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATG
GT
Found at i:205142 original size:66 final size:63
Alignment explanation
Indices: 204968--205143 Score: 176
Period size: 66 Copynumber: 2.7 Consensus size: 63
204958 CAAAAGCAAC
* *
204968 TGTCTCGAAAGAGACAAAATTCGTTTCAAA-GGAAAC-AACCCAAAGATGGCATTTAAAGGGAAT
1 TGTCTC-AAAGAGACAAAATTCGTTT-AAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
* * * * ** * *
205031 TGTCTCAAGCGAGACAAAATTTGTCTTTAAGGGAAACGTTCTCAAAGATCGGTGTTTCATGGGAA
1 TGTCTCAA-AGAGACAAAATTCGT-TTAAAGGGAAACGATCTCAAAGAT-GGCATTTAAAGGG-A
205096 AT
62 AT
*
205098 TGTCTCAAATGAGACAAAATTCATTTAAAGGGAAACGATCTCAAAG
1 TGTCTCAAA-GAGACAAAATTCGTTTAAAGGGAAACGATCTCAAAG
205144 GTGTTTGTTT
Statistics
Matches: 91, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 2 0.02
63 21 0.23
64 8 0.09
65 8 0.09
66 29 0.32
67 23 0.25
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (63 bp):
TGTCTCAAAGAGACAAAATTCGTTTAAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
Found at i:205298 original size:13 final size:12
Alignment explanation
Indices: 205277--205311 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
205267 AGAGATTCAA
205277 TGATTTTTTTTT
1 TGATTTTTTTTT
205289 TGATTTTTTTTT
1 TGATTTTTTTTT
205301 TGATTTTTTTT
1 TGATTTTTTTT
205312 AAACATTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (12 bp):
TGATTTTTTTTT
Found at i:205673 original size:65 final size:66
Alignment explanation
Indices: 205599--205721 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 66
205589 AAGGTGGGTA
* * * * *
205599 TTTTCAAAAGAAGTTGTC-TCGAGGGACAAAATTTTGTTTCAAAGGAAACCA-ACTCAATGATTT
1 TTTTCAAAAGAAATTGCCTTCAAGAGACAAAATTTTGTTTCAAAAGAAA-CAGACTCAATGATTT
205662 TT
65 TT
* *
205664 TTTTCAAAAGAAATTGCCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAA
1 TTTTCAAAAGAAATTGCCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAGACTCAA
205722 AGATGGATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 18 0.37
66 31 0.63
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (66 bp):
TTTTCAAAAGAAATTGCCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAGACTCAATGATTTT
T
Found at i:205993 original size:66 final size:66
Alignment explanation
Indices: 205905--206057 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 66
205895 AAAGATTTAC
* * * * *
205905 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTCAAAGATTTT
1 TTCAAAAGAAACTATCTCAAGAGAGACAAAATT-ATGTTTCAA-AGAAACAAACTCAAAGATTTT
205968 TGT
64 TGT
* * *
205971 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAAGAAACAAACTCAAAGATTTTT
206036 GT
65 GT
*
206038 TTCAAAAGAAACAATCTCAA
1 TTCAAAAGAAACTATCTCAA
206058 AGATTTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
65 1 0.01
66 31 0.42
67 39 0.53
68 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTTCAAAGAAACAAACTCAAAGATTTTTG
T
Found at i:206036 original size:30 final size:30
Alignment explanation
Indices: 206002--206073 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
205992 AGAGACAAAA
*
206002 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
206032 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
206062 TTTT-TTGCAAAA
1 TTTTGTTTCAAAA
206074 TTGTCTCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:206116 original size:52 final size:51
Alignment explanation
Indices: 206053--206151 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
206043 AAGAAACAAT
**
206053 CTCAAAGATTTTTTTGCAAAATTGTCTCAAGAGAGACAAAACTTTGTTCAGA
1 CTCAAAGA-TTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTCAGA
* *
206105 CTCAAATATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTT
1 CTCAAAGATTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTT
206152 TCAAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 36 0.84
52 7 0.16
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (51 bp):
CTCAAAGATTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTCAGA
Found at i:206199 original size:29 final size:29
Alignment explanation
Indices: 206165--206266 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
206155 AAATAAATAG
*
206165 ACTCAAAGATTTTTTTATCAAAAGAAAC-A
1 ACTCAAAGATTTTTTT-TCAAAAGGAACAA
*
206194 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
* *
206223 ACTCCAAGATTTTTGTTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
206252 ACTCAAAGATTTTTT
1 ACTCAAAGATTTTTT
206267 CAAGAGAAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 10 0.15
29 56 0.85
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
ACTCAAAGATTTTTTTTCAAAAGGAACAA
Found at i:206215 original size:28 final size:29
Alignment explanation
Indices: 206151--206265 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
206141 AAAACTTTGT
* * * *
206151 TTCAAAATAAATAGACTCAAAGATTTTTT
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
206180 TATCAAAAGAAAC-AACTCAAAGATTTTTA
1 T-TCAAAAGAAACAAACTCAAAGATTTTTA
* * *
206209 TTCAAAAGGAACAAACTCCAAGATTTTTG
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
206238 TTCAAAAGGAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACAAACTCAAAGATTTTT
206266 TCAAGAGAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 10 0.13
29 57 0.75
30 9 0.12
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (29 bp):
TTCAAAAGAAACAAACTCAAAGATTTTTA
Found at i:206599 original size:36 final size:35
Alignment explanation
Indices: 206515--206612 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
206505 GAGAAAATGA
* *
206515 TGTCTCAAGCGAGACGAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGATAT
* **
206549 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGCA-AT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AG-ATAT
*
206585 TGTCTCAAGCGAGACAAAGTTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT
206613 GAGAAAACGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 19 0.37
35 4 0.08
36 28 0.54
37 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGATAT
Found at i:206627 original size:36 final size:36
Alignment explanation
Indices: 206516--206634 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
206506 AGAAAATGAT
* * *
206516 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** * **
206550 GTCTCAAATGAGACAAAATTTGTTTTTAGAGCAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
206586 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
206621 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
206635 TCAACTTTGT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 37 0.55
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:206765 original size:105 final size:100
Alignment explanation
Indices: 206586--206818 Score: 265
Period size: 105 Copynumber: 2.2 Consensus size: 100
206576 TAGAGCAATT
*
206586 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
**
206651 TGAAACAAATTTGAAATTTGGATCTCAAAGTG-AAAAG
64 TGAAACAAATTCAAAATTTGGATCTCAAAG-GAAAAAG
* *
206688 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGAC-AAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTGTTT
* * * *
206752 -TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 AAT-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
206793 GTCTCAAGCGAGACACAATTTGTTTT
1 GTCTCAAGCGAGACA-AATTTGTTTT
206819 AAAATTCTCA
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 7 0.06
105 78 0.69
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (100 bp):
GTCTCAAGCGAGACAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGTG
AAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:207299 original size:14 final size:14
Alignment explanation
Indices: 207280--207309 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
207270 TTTATGTATC
207280 ATGTATGTATGTGT
1 ATGTATGTATGTGT
207294 ATGTATGTATGTGT
1 ATGTATGTATGTGT
207308 AT
1 AT
207310 ACTTTTCTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
ATGTATGTATGTGT
Found at i:216076 original size:27 final size:27
Alignment explanation
Indices: 216046--216099 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
216036 ACCGAATTTT
*
216046 TTTTTCTTTAATG-ATTAACCGAACCGA
1 TTTTT-TTTAAAGTATTAACCGAACCGA
216073 TTTTTTTTAAAGTATTAACCGAACCGA
1 TTTTTTTTAAAGTATTAACCGAACCGA
216100 ATAAATTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (27 bp):
TTTTTTTTAAAGTATTAACCGAACCGA
Found at i:217220 original size:12 final size:12
Alignment explanation
Indices: 217197--217227 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
217187 GAACTAATTC
217197 AATTCGGTCGGTT
1 AATTC-GTCGGTT
217210 AATTCGTCGGTT
1 AATTCGTCGGTT
217222 AATTCG
1 AATTCG
217228 GTTAAAACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (12 bp):
AATTCGTCGGTT
Found at i:218034 original size:16 final size:16
Alignment explanation
Indices: 218013--218043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
218003 GATTCGTGCA
218013 ACTCATTTTTCTAAAG
1 ACTCATTTTTCTAAAG
*
218029 ACTCATTTTTTTAAA
1 ACTCATTTTTCTAAA
218044 TGATCTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.48
Consensus pattern (16 bp):
ACTCATTTTTCTAAAG
Found at i:222911 original size:87 final size:84
Alignment explanation
Indices: 222768--222940 Score: 247
Period size: 87 Copynumber: 2.0 Consensus size: 84
222758 TGGTGAAGAC
* * * *
222768 GAAAGTTCCTCGCTGTGTGCTGAAATCCCAAGCTTCAACATCGAAAGTCCCTTGCCGTGTGATGA
1 GAAAGTTCCTCGCCGGGTGCTGAAATCCCAAGCTTAAACATCGAAAATCCCTTGCCGTGTGATGA
222833 AATCCCAAGCTTAAACATT
66 AATCCCAAGCTTAAACATT
* * *
222852 GAAAGTTCCTCGCCGGGTGCTGATGAAGTCCCAAGCTTAAACATTGAAAATTCCTTGCCGTGTGC
1 GAAAGTTCCTCGCCGGGTGCTGA--AA-TCCCAAGCTTAAACATCGAAAATCCCTTGCCGTGTGA
*
222917 TGAAATCCCAAGCTTAATCATT
63 TGAAATCCCAAGCTTAAACATT
222939 GA
1 GA
222941 TGATGCCGCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 21 0.27
86 2 0.03
87 55 0.71
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (84 bp):
GAAAGTTCCTCGCCGGGTGCTGAAATCCCAAGCTTAAACATCGAAAATCCCTTGCCGTGTGATGA
AATCCCAAGCTTAAACATT
Found at i:222939 original size:42 final size:42
Alignment explanation
Indices: 222768--222940 Score: 229
Period size: 42 Copynumber: 4.0 Consensus size: 42
222758 TGGTGAAGAC
* * *
222768 GAAAGTTCCTCGCTGTGTGCTGAAATCCCAAGCTTCAACATC
1 GAAAGTTCCTCGCCGTGTGCTGAAATCCCAAGCTTAAACATT
* * *
222810 GAAAGTCCCTTGCCGTGTGATGAAATCCCAAGCTTAAACATT
1 GAAAGTTCCTCGCCGTGTGCTGAAATCCCAAGCTTAAACATT
*
222852 GAAAGTTCCTCGCCGGGTGCTGATGAAGTCCCAAGCTTAAACATT
1 GAAAGTTCCTCGCCGTGTGCTGA--AA-TCCCAAGCTTAAACATT
* * *
222897 GAAAATTCCTTGCCGTGTGCTGAAATCCCAAGCTTAATCATT
1 GAAAGTTCCTCGCCGTGTGCTGAAATCCCAAGCTTAAACATT
222939 GA
1 GA
222941 TGATGCCGCC
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
42 73 0.64
43 2 0.02
44 2 0.02
45 37 0.32
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
GAAAGTTCCTCGCCGTGTGCTGAAATCCCAAGCTTAAACATT
Found at i:227932 original size:29 final size:28
Alignment explanation
Indices: 227894--227974 Score: 110
Period size: 27 Copynumber: 2.9 Consensus size: 28
227884 TTTGAACATA
*
227894 GTACTGAAATGAAACAAAAACTAACAGGG
1 GTACTAAAATGAAACAAAAACTAA-AGGG
* * *
227923 GTACTCAAATGAAACAAATACT-AATGG
1 GTACTAAAATGAAACAAAAACTAAAGGG
227950 GTACTAAAATGAAACAAAAACTAAA
1 GTACTAAAATGAAACAAAAACTAAA
227975 TTTTTTAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.50
28 3 0.07
29 20 0.43
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (28 bp):
GTACTAAAATGAAACAAAAACTAAAGGG
Found at i:241243 original size:20 final size:20
Alignment explanation
Indices: 241212--241286 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
241202 TTGCAGCCTT
* *
241212 GATGCATGGATGCATCGCAG
1 GATGCATCGATGCATAGCAG
* *
241232 GATGTATCGATGCATGGCAAG
1 GATGCATCGATGCATAGC-AG
*
241253 GATGCATCGATGCATAGCAA
1 GATGCATCGATGCATAGCAG
241273 GATGCATCGATGCA
1 GATGCATCGATGCA
241287 CTAATTGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 30 0.62
21 18 0.38
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCATAGCAG
Found at i:241376 original size:21 final size:21
Alignment explanation
Indices: 241307--241404 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
241297 TCGATGTTTA
*
241307 GATGCATGGATGCATTGCA-T
1 GATGCATGGATGCATTGCAGG
241327 GATGCATGGATGCATT--AGTG
1 GATGCATGGATGCATTGCAG-G
* *
241347 CAAATGCATGGATGGATTGCAGG
1 --GATGCATGGATGCATTGCAGG
* *
241370 GATGCATGGATGCACTGCAGA
1 GATGCATGGATGCATTGCAGG
241391 GATGCATGGATGCA
1 GATGCATGGATGCA
241405 CTTTGACACC
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
18 1 0.02
20 16 0.25
21 31 0.48
22 14 0.22
23 1 0.02
24 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (21 bp):
GATGCATGGATGCATTGCAGG
Found at i:241396 original size:42 final size:41
Alignment explanation
Indices: 241306--241404 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
241296 TTCGATGTTT
* *
241306 AGATGCATGGATGCATTGCATGATGCATGGATGCATTAGTGCA
1 AGATGCATGGATGCATTGCAGGATGCATGGATGC--TACTGCA
*
241349 A-ATGCATGGATGGATTGCAGGGATGCATGGATGC-ACTGCA
1 AGATGCATGGATGCATTGCA-GGATGCATGGATGCTACTGCA
241389 GAGATGCATGGATGCA
1 -AGATGCATGGATGCA
241405 CTTTGACACC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
40 5 0.10
41 1 0.02
42 29 0.59
43 14 0.29
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.24
Consensus pattern (41 bp):
AGATGCATGGATGCATTGCAGGATGCATGGATGCTACTGCA
Found at i:243055 original size:183 final size:183
Alignment explanation
Indices: 242670--243054 Score: 587
Period size: 183 Copynumber: 2.1 Consensus size: 183
242660 AATTTTAAAT
*
242670 ATTAAATATATTATATATAACATATGAACTCAGCCCAAACCATTTAAAACTCAATTAATAATTTA
1 ATTAAATATATTATATATAACATATGAACTAAGCCCAAACCATTTAAAACTCAATTAATAATTTA
* *
242735 AGATATAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTATT
66 AGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTAAT
* *
242800 TTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAAAAAT
131 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAAC
**
242853 ATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACTCAATTAATAATTTA
1 ATTAAATATATTATATATAACATATGAACTAAGCCCAAACCATTTAAAACTCAATTAATAATTTA
* * * *
242918 AGATCCAATAA-TTTTAAAACTTAAATCAATATTAATTAATTAAAAAAATTTATCTGAAATTTTT
66 AGATACAATAACTTTT-AAACCTAAATCAATATTAATTAATTAAAAAAA-TTATAT-AAAATTTT
242982 AATTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAAAAAAC
128 AATTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATT-AAAAAAC
* *
243039 ATTTAAT-TTTTATATA
1 ATTAAATATATTATATA
243055 AATTAGAAAA
Statistics
Matches: 184, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
182 4 0.02
183 102 0.55
184 11 0.06
185 55 0.30
186 12 0.07
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (183 bp):
ATTAAATATATTATATATAACATATGAACTAAGCCCAAACCATTTAAAACTCAATTAATAATTTA
AGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTAAT
TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAAC
Found at i:249471 original size:6 final size:6
Alignment explanation
Indices: 249446--249490 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
249436 GCATGGATGC
* * * *
249446 ATGTGC ATGTGC ATGTGA ATGAGA ATGTGA AAGTGA ATGTGA ATG
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATG
249491 ATATATATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.29
Consensus pattern (6 bp):
ATGTGA
Found at i:250264 original size:2 final size:2
Alignment explanation
Indices: 250257--250295 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
250247 GACTACCAAA
250257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
250296 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:254294 original size:89 final size:89
Alignment explanation
Indices: 254138--254314 Score: 250
Period size: 89 Copynumber: 2.0 Consensus size: 89
254128 ATTATAAATA
*
254138 TGTTACATAATTTTAGATGATATTTGATTTACTAAAAATAATATAAATTACACTTACGCACATAA
1 TGTTACATAATTTTAGAGGATATTTGATTTACTAAAAATAATATAAATTACACTTAC-CACATAA
*
254203 AAAAATGAA-ATATATATATATATC
65 AAAAATGAAGAAATATATATATATC
* ** * *
254227 TGTTACATAATTTTAGAGGATATTTGATTTACTAAATAATAGTATAAATTTTATTTA-CATATAA
1 TGTTACATAATTTTAGAGGATATTTGATTTACTAAA-AATAATATAAATTACACTTACCACATAA
*
254291 AAAAATGAAGAAATATATGTATAT
65 AAAAATGAAGAAATATATATATAT
254315 GAACGGTCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 15 0.19
89 47 0.60
90 16 0.21
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (89 bp):
TGTTACATAATTTTAGAGGATATTTGATTTACTAAAAATAATATAAATTACACTTACCACATAAA
AAAATGAAGAAATATATATATATC
Found at i:260643 original size:22 final size:21
Alignment explanation
Indices: 260618--260670 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
260608 ATTTTCAATA
260618 ATTATAAAATGATAATTAAAC
1 ATTATAAAATGATAATTAAAC
* *
260639 TATTATAAAATGATCATTATAC
1 -ATTATAAAATGATAATTAAAC
260661 ATTATAAAAT
1 ATTATAAAAT
260671 AGTGATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (21 bp):
ATTATAAAATGATAATTAAAC
Found at i:264191 original size:24 final size:24
Alignment explanation
Indices: 264140--264192 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
264130 TGTAATTTTA
*
264140 AAAAATTTATTTAAAAATAAAAAT
1 AAAAATTTATTTAAAAATAAAAAC
* *
264164 AAAAATTATATTTTAAAA-AAACAC
1 AAAAATT-TATTTAAAAATAAAAAC
264188 AAAAA
1 AAAAA
264193 ATTTGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAAATTTATTTAAAAATAAAAAC
Done.