Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1001
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: 200027
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
File 1 of 2
Found at i:10754 original size:12 final size:12
Alignment explanation
Indices: 10737--10767 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10727 CCTTCTCTTC
10737 AAAAAAAAAGGA
1 AAAAAAAAAGGA
10749 AAAAAAAAAGGA
1 AAAAAAAAAGGA
10761 AAAAAAA
1 AAAAAAA
10768 CAAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGGA
Found at i:11857 original size:59 final size:58
Alignment explanation
Indices: 11765--12328 Score: 651
Period size: 59 Copynumber: 9.8 Consensus size: 58
11755 CTTCTCCTTC
* * * *
11765 CACCTTTAGTCCTTAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGA-GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
11824 CACCTTCAGTCCTCAAAGAGCGGGATGCTTTTTCTTTTCAAAGCCAACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGA-GCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGG
* ** *
11884 CACCTTTCAGTCATCAAAGAGCAAGA-CAC----CTTTCAAAGCCCACACAAGTTGGTGG
1 CACC-TTCAGTCCTCAAAGAGCGGGAGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
11939 CATTTTCCTGTCCTCAAAGAGCAGGA-CAC----CTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGAGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
11994 CATTTTCCAGTCCTCAGAGAGCAGGA-CAC----CTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGAGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
12049 CACCTTCAGTCCTCAAAGAACGGGA-CATATTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGAGC--CTTTTCTTTTAAAGCCCACACAAGTTGGTGG
12108 CACCTTCAGTCCTCAAAGAGCGGGA-CACATTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGAGC-C-TTTTCTTTTAAAGCCCACACAAGTTGGTGG
12167 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGA-GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
12226 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTC-TTTAAAGCCTACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGA-GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
12284 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
1 CACCTTCAGTCCTCAAAGAGCGGGA-GCCTTTTCTTTTAAAGCCC
12329 CCTCAAAGAG
Statistics
Matches: 455, Mismatches: 37, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.04
55 122 0.27
56 4 0.01
58 56 0.12
59 212 0.47
60 23 0.05
61 19 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (58 bp):
CACCTTCAGTCCTCAAAGAGCGGGAGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:12340 original size:35 final size:35
Alignment explanation
Indices: 12294--12363 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
12284 CACCTTCAGT
12294 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
12329 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
12364 ACACAAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (35 bp):
CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCC
Found at i:12396 original size:94 final size:93
Alignment explanation
Indices: 12236--12422 Score: 347
Period size: 94 Copynumber: 2.0 Consensus size: 93
12226 CACCTTCAGT
* *
12236 CCTCAAAGAGCGGGATGCCTTTTCTTTAAAGCCTACACAAGTTGGTGGCACCTTCAGTCCTCAAA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
12301 GAGCGGGACGCCTTTTCTTTTAAAGCCC
66 GAGCGGGACGCCTTTTCTTTTAAAGCCC
12329 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
1 CCTCAAAGAGCGGGACGCCTTTTC-TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
12394 AGAGCGGGACGCCTTTTCTTTTAAAGCCC
65 AGAGCGGGACGCCTTTTCTTTTAAAGCCC
12423 ACACAAGTTG
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 23 0.25
94 68 0.75
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (93 bp):
CCTCAAAGAGCGGGACGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
GAGCGGGACGCCTTTTCTTTTAAAGCCC
Found at i:12421 original size:59 final size:59
Alignment explanation
Indices: 12329--12731 Score: 681
Period size: 59 Copynumber: 6.9 Consensus size: 59
12319 TTTAAAGCCC
12329 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
12388 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
12447 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
*
12506 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
12565 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
12624 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* *
12685 CCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCAC
1 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
12732 TTTTTACTCC
Statistics
Matches: 330, Mismatches: 12, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
55 23 0.07
59 257 0.78
60 27 0.08
61 23 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (59 bp):
CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:13488 original size:21 final size:21
Alignment explanation
Indices: 13462--13538 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
13452 AATTTATCCA
13462 AATGTATCGATACATCTGTAG
1 AATGTATCGATACATCTGTAG
* *
13483 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATCTGTAG
* *
13504 AATGTATCGATACATC-CTACA
1 AATGTATCGATACATCTGTA-G
13525 AATGTATCGATACA
1 AATGTATCGATACA
13539 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATCTGTAG
Found at i:13598 original size:19 final size:19
Alignment explanation
Indices: 13574--13641 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
13564 AATTCAACAA
13574 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
13593 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
13608 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
13625 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
13642 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:13613 original size:13 final size:13
Alignment explanation
Indices: 13595--13619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13585 ACATAAGTTT
13595 TGTATCGATACAA
1 TGTATCGATACAA
13608 TGTATCGATACA
1 TGTATCGATACA
13620 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13617 original size:32 final size:32
Alignment explanation
Indices: 13576--13638 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
13566 TTCAACAATT
*
13576 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
13608 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
13639 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:13705 original size:33 final size:33
Alignment explanation
Indices: 13663--13727 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
13653 TAAGGAAATG
***
13663 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATGGATCTGTGTATCGATACATTA
*
13696 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
13728 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTA
Found at i:16205 original size:28 final size:28
Alignment explanation
Indices: 16173--16242 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
16163 TCACAGTCGA
* * *
16173 GGATACTCCAACCTCGTTATTTCAT-CGG
1 GGATACTCCAACCCCGTTACTTC-TGAGG
16201 GGATACTCCAACCCCGTTACTTCTGAGG
1 GGATACTCCAACCCCGTTACTTCTGAGG
16229 GGATACTCCAACCC
1 GGATACTCCAACCC
16243 TAGGCTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCTGAGG
Found at i:20244 original size:6 final size:6
Alignment explanation
Indices: 20233--20270 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
20223 TTTTAAAAAT
*
20233 AATCAA AATCAA AATAAAA AATCAA AATCAA AATCAA A
1 AATCAA AATCAA AAT-CAA AATCAA AATCAA AATCAA A
20271 TAAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAA
Found at i:20257 original size:19 final size:20
Alignment explanation
Indices: 20228--20273 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
20218 AGGTCTTTTA
20228 AAAATAATCAAAATCAAAAT
1 AAAATAATCAAAATCAAAAT
20248 AAAA-AATCAAAATCAAAAT
1 AAAATAATCAAAATCAAAAT
*
20267 CAAATAA
1 AAAATAA
20274 AAAATCAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATAATCAAAATCAAAAT
Found at i:20277 original size:12 final size:12
Alignment explanation
Indices: 20237--20280 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
20227 AAAAATAATC
20237 AAAATCAAAATAA
1 AAAATC-AAATAA
*
20250 AAAATCAAA-ATC
1 AAAATCAAATA-A
20262 AAAATCAAATAA
1 AAAATCAAATAA
20274 AAAATCA
1 AAAATCA
20281 GACAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 19 0.70
13 7 0.26
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATCAAATAA
Found at i:20294 original size:24 final size:23
Alignment explanation
Indices: 20236--20297 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
20226 TAAAAATAAT
20236 CAAAATCAAAATAAAAAATCAAAA
1 CAAAATC-AAATAAAAAATCAAAA
*
20260 TCAAAATCAAATAAAAAATC-AGA
1 -CAAAATCAAATAAAAAATCAAAA
20283 CAAAAATGCAAATAA
1 C-AAAAT-CAAATAA
20298 GGCGTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 1 0.03
23 7 0.21
24 19 0.56
25 7 0.21
ACGTcount: A:0.69, C:0.13, G:0.03, T:0.15
Consensus pattern (23 bp):
CAAAATCAAATAAAAAATCAAAA
Found at i:20907 original size:19 final size:19
Alignment explanation
Indices: 20883--20955 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
20873 ACATTACGCT
20883 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGTTCA
20902 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGTTCA
* * *
20921 TTGTATCAATACATATACAA
1 TTGTATCGATACATGTTC-A
20941 TTGTATCGATACATG
1 TTGTATCGATACATG
20956 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 34 0.71
20 14 0.29
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACATGTTCA
Found at i:22583 original size:15 final size:15
Alignment explanation
Indices: 22563--22597 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22553 AACCATCAAA
22563 GATGATAAAGATAAT
1 GATGATAAAGATAAT
* *
22578 GATGATGATGATAAT
1 GATGATAAAGATAAT
22593 GATGA
1 GATGA
22598 ATTTGACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
GATGATAAAGATAAT
Found at i:27319 original size:13 final size:13
Alignment explanation
Indices: 27301--27357 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
27291 CATAAAGTGT
27301 TGTATCGATACAA
1 TGTATCGATACAA
27314 TGTATCGATACATAA
1 TGTATCGATAC--AA
27329 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
27346 TGTATCGATACA
1 TGTATCGATACA
27358 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27336 original size:32 final size:32
Alignment explanation
Indices: 27287--27378 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 32
27277 TCGATACAAG
27287 GATACATAAAGTGTTGTATCGATACAATGTATC
1 GATACAT-AAGTGTTGTATCGATACAATGTATC
27320 GATACATAAGTGTTGTATCGATACAATGTATC
1 GATACATAAGTGTTGTATCGATACAATGTATC
*
27352 GATACATAAGTTTTGTATCGATACAAT
1 GATACATAAGTGTTGTATCGATACAAT
27379 ATAAGCTACT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.88
33 7 0.12
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (32 bp):
GATACATAAGTGTTGTATCGATACAATGTATC
Found at i:27338 original size:19 final size:18
Alignment explanation
Indices: 27287--27376 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 18
27277 TCGATACAAG
27287 GATACATAAAGTGTTGTATC
1 GATACAT-AAGT-TTGTATC
27307 GATAC--AA---TGTATC
1 GATACATAAGTTTGTATC
27320 GATACATAAGTGTTGTATC
1 GATACATAAGT-TTGTATC
27339 GATAC--AA---TGTATC
1 GATACATAAGTTTGTATC
27352 GATACATAAGTTTTGTATC
1 GATACATAAG-TTTGTATC
27371 GATACA
1 GATACA
27377 ATATAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 25
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.38
15 4 0.07
17 4 0.07
19 23 0.40
20 5 0.09
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (18 bp):
GATACATAAGTTTGTATC
Found at i:32255 original size:53 final size:53
Alignment explanation
Indices: 32192--32303 Score: 163
Period size: 53 Copynumber: 2.1 Consensus size: 53
32182 AAAAGGGGGG
* *
32192 GAAAATCTTGAAACCTTTTTTTT-AGGGAGCCTTTATTATTTTATCAAGGAGGA
1 GAAAATCTTG-AACCTTTTTTTTAAGAGAGCCTTTACTATTTTATCAAGGAGGA
** *
32245 GAAAATCTTGAATTTTTTTTTTAAGAGAGCCTTTACTATTTTATCAAGGGGGA
1 GAAAATCTTGAACCTTTTTTTTAAGAGAGCCTTTACTATTTTATCAAGGAGGA
32298 GAAAAT
1 GAAAAT
32304 ATTTTTAAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 10 0.19
53 43 0.81
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
GAAAATCTTGAACCTTTTTTTTAAGAGAGCCTTTACTATTTTATCAAGGAGGA
Found at i:32904 original size:19 final size:19
Alignment explanation
Indices: 32861--32931 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
32851 TATATCCAAA
* * *
32861 TGTATAGATACATTATGCTT
1 TGTATCGATACA-TATTCAT
32881 TGTATCGATACATATTCAT
1 TGTATCGATACATATTCAT
32900 TGTATCGATACATATTCAT
1 TGTATCGATACATATTCAT
* *
32919 TCTATTGATACAT
1 TGTATCGATACAT
32932 GAAACTAGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 35 0.76
20 11 0.24
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTCAT
Found at i:33000 original size:13 final size:13
Alignment explanation
Indices: 32982--33006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32972 AATAGCACAT
32982 TGTATCGATACAA
1 TGTATCGATACAA
32995 TGTATCGATACA
1 TGTATCGATACA
33007 TGAAGTAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33801 original size:92 final size:92
Alignment explanation
Indices: 33602--33810 Score: 210
Period size: 92 Copynumber: 2.3 Consensus size: 92
33592 CTTCATTCGT
* * * * * *
33602 CCACTAGATAGTATGGATGCATCACAAAGCTTGATTTCCTTGGGGTAGAGATATCTAGACCACAC
1 CCACTAGATAGTATTGATGCATCACAAAGCCTGATTTCCTTGAGGCAAAGATATCCAGACCACAC
* *
33667 ATTCCTAATCGTATCCTTTTTGTCTAA
66 ATTCCTAATCATATCCTTTTTGTCCAA
* * * *
33694 CCACTAAATGGTATTGATGCATCACAAAGCCTGA-TTCCTTTGAGGCAAAGATATCCCGACCACT
1 CCACTAGATAGTATTGATGCATCACAAAGCCTGATTTCC-TTGAGGCAAAGATATCCAGACCACA
* *
33758 CATTCCTATTCATA-CCATTTTCT-TCCAG
65 CATTCCTAATCATATCC-TTTT-TGTCCAA
* * *
33786 TCACTAGATAATATTGGTGCA-CACA
1 CCACTAGATAGTATTGATGCATCACA
33811 TGACTACAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
91 10 0.11
92 84 0.88
93 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (92 bp):
CCACTAGATAGTATTGATGCATCACAAAGCCTGATTTCCTTGAGGCAAAGATATCCAGACCACAC
ATTCCTAATCATATCCTTTTTGTCCAA
Found at i:37155 original size:28 final size:28
Alignment explanation
Indices: 37115--37563 Score: 421
Period size: 28 Copynumber: 15.7 Consensus size: 28
37105 CTAGAACATT
* *
37115 CATCTCTTCAAAGCCCACAGGTCAATGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
37143 CATCTCTTCAAAGCCCACAGGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* *
37171 CATC-CTTTCAAAGCCCA-GAGTTAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
*
37198 CATCTCTTCAAAACCCACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
37226 CATC-CTTTCAAAGCCCACAAGTCAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* *
37254 CATCTTTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
37282 CATC-CTTTCAAAGCCCACAAGCCAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
37310 CATC-CTTTCAAAGCCCACAAGTCAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* * *
37338 CACCCTTTTCAAAGCCCACAAGTCGGTGG
1 CA-TCTCTTCAAAGCCCACAAGTCAGTGG
* *
37367 CAACTCTTTTCAAAGTCCACACAAGTCGGTGG
1 C-A-TCTCTTCAAAG-CC-CACAAGTCAGTGG
* *
37399 CAACTCTTTTCAAAGCCCACACAAATCAGTGG
1 C-A-TCTCTTCAAAG-CC-CACAAGTCAGTGG
* * *
37431 CACCTTTTCAAAGGCCACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* *
37459 CA-CCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
*
37487 CATACCCTTTCAAAGCCCACAAGTC-GATGG
1 CAT-CTC-TTCAAAGCCCACAAGTCAG-TGG
* * *
37517 CA-CCCTTTCAGAGCCCATAAGTCAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* *
37545 CA-CCCTTTTAAAGCCCACA
1 CATCTC-TTCAAAGCCCACA
37564 CACTCTTTTC
Statistics
Matches: 371, Mismatches: 34, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
27 24 0.06
28 228 0.61
29 26 0.07
30 47 0.13
31 3 0.01
32 43 0.12
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGG
Found at i:37275 original size:56 final size:56
Alignment explanation
Indices: 37121--37563 Score: 523
Period size: 56 Copynumber: 7.7 Consensus size: 56
37111 CATTCATCTC
* * * *
37121 TTCAAAGCCCACAGGTCAATGGCATCTCTTCAAAGCCCACAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
37177 TTCAAAGCCCA-GAGTTAGTGGCATCTCTTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
37232 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
37288 TTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
37345 TTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* * * *
37407 TTCAAAGCCCACACAAATCAGTGGCACCTTTTCAAAGGCCACAAGTCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
37465 TTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACAAGTC-GATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CTTTTCAAAGCCCACAAGTCAG-TGGCATCCT
* * *
37523 TTCAGAGCCCATAAGTCAGTGGCACCCTTTT-AAAGCCCACA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACA
37564 CACTCTTTTC
Statistics
Matches: 335, Mismatches: 38, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
55 49 0.15
56 124 0.37
57 29 0.09
58 58 0.17
59 11 0.03
60 15 0.04
61 14 0.04
62 19 0.06
63 4 0.01
64 12 0.04
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:37313 original size:84 final size:84
Alignment explanation
Indices: 37121--37563 Score: 518
Period size: 84 Copynumber: 5.2 Consensus size: 84
37111 CATTCATCTC
* * *
37121 TTCAAAGCCCACAGGTCAATGGCAT-CTCTTCAAAGCCCACAGGTCAGTGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG
* *
37184 CCCA-GAGTTAGTGGCAT-CT
64 CCCACAAGTCAGTGGCATCCT
* *
37203 CTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
1 -TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
*
37268 CCACAAGTTAGTGGCATCCT
65 CCACAAGTCAGTGGCATCCT
*
37288 TTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGC
* *
37353 CCACAAGTCGGTGGCAACTCTT
65 CCACAAGTCAGTGGC-A-TCCT
* * *
37375 TTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAATCAGTGGCACCTTTTC
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAGTGGCACCTTTTC
* *
37440 AAAGGCCACAAGTCAGTGGCACCCT
60 AAAGCCCACAAGTCAGTGGCATCCT
* * *
37465 TTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACAAGTC-GATGGCACCCTTTCAGA
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACAAGTCAG-TGGCACCTTTTCAAA
* *
37529 GCCCATAAGTCAGTGGCACCCT
63 GCCCACAAGTCAGTGGCATCCT
*
37551 TTTAAAGCCCACA
1 TTCAAAGCCCACA
37564 CACTCTTTTC
Statistics
Matches: 315, Mismatches: 29, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
82 1 0.00
83 57 0.18
84 64 0.20
85 27 0.09
86 54 0.17
87 13 0.04
88 23 0.07
89 14 0.04
90 10 0.03
91 11 0.03
92 27 0.09
93 14 0.04
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCC
CACAAGTCAGTGGCATCCT
Found at i:38541 original size:29 final size:28
Alignment explanation
Indices: 38508--38601 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 28
38498 ATATTTTTCA
38508 ATGTATCGATACATTCTATCTTTTACAAG
1 ATGTATCGATACATTCTATCTTTTAC-AG
38537 ATGTATCGAT--A--C-AT-TTTT-CA-
1 ATGTATCGATACATTCTATCTTTTACAG
38557 ATGTATCGATACATTCTATCTTTTTAGCCAG
1 ATGTATCGATACATTCTATC-TTTTA--CAG
38588 ATGTATCGATACAT
1 ATGTATCGATACAT
38602 CTAGTTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
20 10 0.19
21 1 0.02
22 2 0.04
23 4 0.07
24 3 0.06
25 3 0.06
27 5 0.09
29 10 0.19
30 2 0.04
31 14 0.26
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (28 bp):
ATGTATCGATACATTCTATCTTTTACAG
Found at i:38543 original size:49 final size:51
Alignment explanation
Indices: 38477--38601 Score: 200
Period size: 49 Copynumber: 2.5 Consensus size: 51
38467 AAAAGTCACA
* * *
38477 TTTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACATTCTATC
1 TTTTTAGCAAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
38528 -TTTTA-CAAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
1 TTTTTAGCAAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
*
38577 TTTTTAGCCAGATGTATCGATACAT
1 TTTTTAGCAAGATGTATCGATACAT
38602 CTAGTTAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
49 42 0.61
50 10 0.14
51 17 0.25
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (51 bp):
TTTTTAGCAAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:38568 original size:20 final size:20
Alignment explanation
Indices: 38488--38571 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
38478 TTTTACCCAG
*
38488 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
38508 ATGTATCGATACATTCTATCTTTTACAA
1 ATGTATCGAT--A--C-AT-TTTT-C-A
38536 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
38557 ATGTATCGATACATT
1 ATGTATCGATACATT
38572 CTATCTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
20 25 0.46
21 1 0.02
22 2 0.04
23 4 0.07
24 2 0.04
25 3 0.06
26 4 0.07
27 2 0.04
28 1 0.02
29 10 0.19
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:39497 original size:20 final size:22
Alignment explanation
Indices: 39457--39497 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
39447 TAGCCTTTGA
*
39457 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
39479 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
39498 CTAGAATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:52541 original size:72 final size:72
Alignment explanation
Indices: 52424--52571 Score: 260
Period size: 72 Copynumber: 2.1 Consensus size: 72
52414 CTACTTAAGC
* *
52424 AAAAAATTCACAGAATGCAAGTCCAATTACCCTGCAGTCGAGAAGTTATGTTGTGTCTTGGCTTG
1 AAAAAATTCACAGAATGCAAGTACAATTACCCTGCAGTCGAGAAGTTATGTTGTGCCTTGGCTTG
52489 GACAGCT
66 GACAGCT
* *
52496 AAAAAATTCACGGAATGCAAGTACAATTACCCTGCAGTCGAGAAGTTATGTTGTGCCTTGGTTTG
1 AAAAAATTCACAGAATGCAAGTACAATTACCCTGCAGTCGAGAAGTTATGTTGTGCCTTGGCTTG
52561 GACAGCT
66 GACAGCT
52568 AAAA
1 AAAA
52572 GACTCAGGCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAAATTCACAGAATGCAAGTACAATTACCCTGCAGTCGAGAAGTTATGTTGTGCCTTGGCTTG
GACAGCT
Found at i:54664 original size:24 final size:24
Alignment explanation
Indices: 54615--54664 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
54605 AGGTGTCCTT
* * *
54615 AAAAAAAAGATAACAAAAAACGAA
1 AAAAAAAACACAACAAAAAACAAA
54639 AAAAAAAACACAAC--AAAACAAA
1 AAAAAAAACACAACAAAAAACAAA
54661 AAAA
1 AAAA
54665 TTTCAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.02
Consensus pattern (24 bp):
AAAAAAAACACAACAAAAAACAAA
Found at i:55704 original size:16 final size:15
Alignment explanation
Indices: 55683--55712 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
55673 ATAGCATTCC
55683 ACATCATACATTCATA
1 ACATCAT-CATTCATA
55699 ACATCATCATTCAT
1 ACATCATCATTCAT
55713 CATTTTTTTT
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:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
ACATCATCATTCATA
Found at i:55938 original size:28 final size:28
Alignment explanation
Indices: 55904--56193 Score: 167
Period size: 28 Copynumber: 10.4 Consensus size: 28
55894 CATTCATCTC
* *
55904 TTCAAAGCCCACAAGTTAATGGCATCCT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
* * *
55932 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
**
55960 TTCAAAGCCCACAAG-CAAGTGGCACTAT
1 TTCAAAGCCCACAAGTCAA-TGGCACCCT
** *
55988 TTTTAAGCCCACAAGTCGATGGCACCCT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
* *
56016 TCCAAAGCCTACAAG-CAAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAA-TGGCACCCT
** * * *** *
56044 TTTTATGTCCACAAGTTGGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
*
56071 TCCAAAGCCCACAAG-CAAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAA-TGGCACCCT
** * * * *
56099 TTTTAAGCTCACAAGTTAGTGTCACCCT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
* * * * *
56127 TCCAAAGCCGACAGGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
** * * **
56155 TTTTAAGCCTATAAGTCTGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAATGGCACCCT
56182 TTCCAAAGCCCA
1 TT-CAAAGCCCA
56194 TAGGTTAGTG
Statistics
Matches: 191, Mismatches: 63, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
27 25 0.13
28 163 0.85
29 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAATGGCACCCT
Found at i:55996 original size:56 final size:56
Alignment explanation
Indices: 55906--56231 Score: 300
Period size: 56 Copynumber: 5.8 Consensus size: 56
55896 TTCATCTCTT
* * ** * * *
55906 CAAAGCCCACAAGTTAA-TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAG-CAAGTGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTC
**
55962 CAAAGCCCACAAGCAAGTGGCACTATTTTTAAGCCCACAAGTC-GATGGCACCCTTC
1 CAAAGCCCACAAGCAAGTGGCACCCTTTTTAAGCCCACAAGTCAG-TGGCACCCTTC
* * * ** *
56018 CAAAGCCTACAAGCAAGTGGCACCCTTTTTATGTCCACAAGTTGGTGGCA-TCTTC
1 CAAAGCCCACAAGCAAGTGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTC
* * *
56073 CAAAGCCCACAAGCAAGTGGCACCCTTTTTAAGCTCACAAGTTAGTGTCACCCTTC
1 CAAAGCCCACAAGCAAGTGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTC
* * * * * * *
56129 CAAAGCCGACAGGTC-AGTGGCACCTTTTTTAAGCCTATAAGTCTGTGGCACCTTTC
1 CAAAGCCCACAAG-CAAGTGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTC
* * **
56185 CAAAGCCCATAGGTTAGTGGCACTCCTTTTTAAAGTCCACACAAGTC
1 CAAAGCCCACAAGCAAGTGGCAC-CCTTTTT-AAG-CC-CACAAGTC
56232 GGTGCAACCT
Statistics
Matches: 221, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
55 51 0.23
56 151 0.68
57 8 0.04
58 3 0.01
59 2 0.01
60 6 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (56 bp):
CAAAGCCCACAAGCAAGTGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTC
Found at i:56066 original size:84 final size:84
Alignment explanation
Indices: 55908--56225 Score: 207
Period size: 84 Copynumber: 3.8 Consensus size: 84
55898 CATCTCTTCA
* * * *
55908 AAGCCCACAAGTTAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACA
1 AAGCCCACAAGTCAATGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACA
55973 AGCAAGTGGCACTATTTTT
66 AGCAAGTGGCACTATTTTT
* * * * *
55992 AAGCCCACAAGTCGATGGCACCCTTCCAAAGCCTACAAG-CAAGTGGCACCCTTTT-TATGTCCA
1 AAGCCCACAAGTCAATGGCACCCTTCCAAAGCCCACAAGTC-AGTGGCA-CCTTTTCAAAGCCCA
*** * ***
56055 CAAGTTGGTGGCA-TCTTCCA
64 CAAGCAAGTGGCACTATTTTT
*** * * * * * *
56075 AAGCCCACAAG-CAAGTGGCACCCTTTTTAAGCTCACAAGTTAGTGTCACCCTTCCAAAGCCGAC
1 AAGCCCACAAGTCAA-TGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCAC
*
56139 AGGTC-AGTGGCACCT-TTTTT
65 AAG-CAAGTGGCA-CTATTTTT
* * ** * * * * * *
56159 AAGCCTATAAGTCTGTGGCACCTTTCCAAAGCCCATAGGTTAGTGGCACTCCTTTTTAAAGTCCA
1 AAGCCCACAAGTCAATGGCACCCTTCCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCA
56224 CA
64 CA
56226 CAAGTCGGTG
Statistics
Matches: 170, Mismatches: 53, Indels: 20
0.70 0.22 0.08
Matches are distributed among these distances:
82 6 0.04
83 53 0.31
84 92 0.54
85 7 0.04
86 12 0.07
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (84 bp):
AAGCCCACAAGTCAATGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACA
AGCAAGTGGCACTATTTTT
Found at i:56125 original size:111 final size:110
Alignment explanation
Indices: 55906--56217 Score: 315
Period size: 111 Copynumber: 2.8 Consensus size: 110
55896 TTCATCTCTT
* * * * ** * *
55906 CAAAGCCCACAAGTTAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCA
1 CAAAGCCGACAAGTCAGTGGCACCCTTTTTAAG-CCACAAGT-TGTGGCATCTTTCCAAAGCCCA
** *
55971 CAAGCAAGTGGCACTATTTTTAAGCCCACAAGTCGATGGCACCCTTC
64 CAAGCAAGTGGCACCCTTTTTAAGCCCACAAGTAGATGGCACCCTTC
* *
56018 CAAAGCCTACAAG-CAAGTGGCACCCTTTTTATGTCCACAAGTTGGTGGCATC-TTCCAAAGCCC
1 CAAAGCCGACAAGTC-AGTGGCACCCTTTTTAAG-CCACAAGTT-GTGGCATCTTTCCAAAGCCC
* *
56081 ACAAGCAAGTGGCACCCTTTTTAAGCTCACAAGTTAG-TGTCACCCTTC
63 ACAAGCAAGTGGCACCCTTTTTAAGCCCACAAG-TAGATGGCACCCTTC
* * * *
56129 CAAAGCCGACAGGTCAGTGGCACCTTTTTTAAGCCTATAAGTCTGTGGCACCTTTCCAAAGCCCA
1 CAAAGCCGACAAGTCAGTGGCACCCTTTTTAAGCC-ACAAGT-TGTGGCATCTTTCCAAAGCCCA
* * **
56194 TAGGTTAGTGGCACTCCTTTTTAA
64 CAAGCAAGTGGCAC-CCTTTTTAA
56218 AGTCCACACA
Statistics
Matches: 167, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
110 2 0.01
111 89 0.53
112 67 0.40
113 9 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (110 bp):
CAAAGCCGACAAGTCAGTGGCACCCTTTTTAAGCCACAAGTTGTGGCATCTTTCCAAAGCCCACA
AGCAAGTGGCACCCTTTTTAAGCCCACAAGTAGATGGCACCCTTC
Found at i:56204 original size:28 final size:28
Alignment explanation
Indices: 56113--56207 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
56103 AAGCTCACAA
* * * *
56113 GTTAGTGTCACCCTTCCAAAGCCGACAG
1 GTTAGTGGCACCTTTCCAAAGCCCATAG
* *** * *
56141 GTCAGTGGCACCTTTTTTAAGCCTATAA
1 GTTAGTGGCACCTTTCCAAAGCCCATAG
56169 GTCT-GTGGCACCTTTCCAAAGCCCATAG
1 GT-TAGTGGCACCTTTCCAAAGCCCATAG
56197 GTTAGTGGCAC
1 GTTAGTGGCAC
56208 TCCTTTTTAA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 1 0.02
28 49 0.98
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (28 bp):
GTTAGTGGCACCTTTCCAAAGCCCATAG
Found at i:56206 original size:167 final size:168
Alignment explanation
Indices: 55902--56225 Score: 372
Period size: 167 Copynumber: 1.9 Consensus size: 168
55892 AACATTCATC
* * * * *
55902 TCTTCAAAGCCCACAAGTTAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG
1 TCTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAG
*
55967 CCCACAAGCAAGTGGCACTATTTTTAAGCCCACAAGTCGATGGCACCCTTCCAAAGCCTACAAGC
66 CCCACAAGCAAGTGGCACTATTTTTAAGCCCACAAGTCGATGGCACCCTTCCAAAGCCCACAAGC
*
56032 AAGTGGCAC-CCTTTTT-ATGTCCACAAGTTGGTGGCA
131 AAGTGGCACTCCTTTTTAAAGTCCACAAGTTGGTGGCA
** * * *
56068 TCTTCCAAAGCCCACAAG-CAAGTGGCACCCTTTTTAAGCTCACAAGTTAGTGTCACCCTTCCAA
1 TCTT-CAAAGCCCACAAGTCAA-TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAA
* * * * *
56132 AGCCGACAGGTC-AGTGGCACCT-TTTTTAAGCCTATAAGTCTG-TGGCACCTTTCCAAAGCCCA
64 AGCCCACAAG-CAAGTGGCA-CTATTTTTAAGCCCACAAGTC-GATGGCACCCTTCCAAAGCCCA
* * **
56194 TAGGTTAGTGGCACTCCTTTTTAAAGTCCACA
126 CAAGCAAGTGGCACTCCTTTTTAAAGTCCACA
56226 CAAGTCGGTG
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
166 6 0.05
167 105 0.81
168 11 0.08
169 8 0.06
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (168 bp):
TCTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAG
CCCACAAGCAAGTGGCACTATTTTTAAGCCCACAAGTCGATGGCACCCTTCCAAAGCCCACAAGC
AAGTGGCACTCCTTTTTAAAGTCCACAAGTTGGTGGCA
Found at i:56245 original size:30 final size:32
Alignment explanation
Indices: 56202--56293 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 32
56192 CATAGGTTAG
* * *
56202 TGGCACTCCTTTTTAAAGTCCACACAAGTCGG
1 TGGCAATCCTTTTTAAAGCCCACACAAGTCGA
56234 T-GCAA-CCTTTTTCAAA-CCCACACAAGTCGA
1 TGGCAATCCTTTTT-AAAGCCCACACAAGTCGA
*
56264 TGGCAATACTTTTTAAAGGCCCACACAAGT
1 TGGCAATCCTTTTTAAA-GCCCACACAAGT
56294 AAGTGGCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
30 20 0.39
31 13 0.25
32 7 0.14
33 11 0.22
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (32 bp):
TGGCAATCCTTTTTAAAGCCCACACAAGTCGA
Found at i:56301 original size:33 final size:31
Alignment explanation
Indices: 56199--56302 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 31
56189 GCCCATAGGT
* *
56199 TAGTGGCACTCCTTTTTAAAGTCCACACAAG
1 TAGTGGCAATCCTTTTTAAAGCCCACACAAG
*
56230 TCG-GTGCAA-CCTTTTTCAAA-CCCACACAAG
1 TAGTG-GCAATCCTTTTT-AAAGCCCACACAAG
* *
56260 TCGATGGCAATACTTTTTAAAGGCCCACACAAG
1 TAG-TGGCAATCCTTTTTAAA-GCCCACACAAG
56293 TAAGTGGCAA
1 T-AGTGGCAA
56303 CTCTTTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
30 20 0.33
31 15 0.25
32 7 0.12
33 17 0.28
34 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (31 bp):
TAGTGGCAATCCTTTTTAAAGCCCACACAAG
Found at i:56309 original size:33 final size:32
Alignment explanation
Indices: 56199--56309 Score: 92
Period size: 33 Copynumber: 3.5 Consensus size: 32
56189 GCCCATAGGT
* *
56199 TAGTGGC-ACTCCTTTTTAAAGTCCACACAAG
1 TAGTGGCAACTACTTTTTAAAGCCCACACAAG
*
56230 TCG-GTGCAAC--CTTTTTCAAA-CCCACACAAG
1 TAGTG-GCAACTACTTTTT-AAAGCCCACACAAG
*
56260 TCGATGGCAA-TACTTTTTAAAGGCCCACACAAG
1 TAG-TGGCAACTACTTTTTAAA-GCCCACACAAG
56293 TAAGTGGCAACT-CTTTT
1 T-AGTGGCAACTACTTTT
56310 CAAAACACCA
Statistics
Matches: 66, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
30 19 0.29
31 14 0.21
32 9 0.14
33 22 0.33
34 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (32 bp):
TAGTGGCAACTACTTTTTAAAGCCCACACAAG
Found at i:57212 original size:20 final size:20
Alignment explanation
Indices: 57187--57257 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
57177 TTTTACCCAG
57187 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
57207 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
57227 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
57247 ATGTATCGATA
1 ATGTATCGATA
57258 TATTCTGTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:60700 original size:20 final size:22
Alignment explanation
Indices: 60672--60731 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
60662 CATATACACA
60672 TGCAGATGTATCGATACAA-AT-
1 TGCA-ATGTATCGATACAATATG
60693 TGCAATGTATCGATACAATATG
1 TGCAATGTATCGATACAATATG
*
60715 TG-AAAGTATCGATACAA
1 TGCAATGTATCGATACAA
60732 GTCATTGGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 14 0.39
21 20 0.56
22 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (22 bp):
TGCAATGTATCGATACAATATG
Found at i:60784 original size:22 final size:20
Alignment explanation
Indices: 60756--60832 Score: 84
Period size: 20 Copynumber: 3.7 Consensus size: 20
60746 CTACCCTTCA
60756 AATGTATCGATACATACGTAGG
1 AATGTATCGATACATAC-TA-G
* *
60778 AATGTATCGACACAATTCTAG
1 AATGTATCGATAC-ATACTAG
*
60799 AATGTATCGATACAT-CCAG
1 AATGTATCGATACATACTAG
60818 AATTGTATCGATACA
1 AA-TGTATCGATACA
60833 ATTAGCCCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.10
20 14 0.29
21 13 0.27
22 14 0.29
23 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATACTAG
Found at i:60803 original size:21 final size:21
Alignment explanation
Indices: 60777--60835 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
60767 ACATACGTAG
* *
60777 GAATGTATCGACACAATTCTA
1 GAATGTATCGATACAATTCCA
60798 GAATGTATCGATAC-A-TCCA
1 GAATGTATCGATACAATTCCA
60817 GAATTGTATCGATACAATT
1 GAA-TGTATCGATACAATT
60836 AGCCCAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 14 0.42
22 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (21 bp):
GAATGTATCGATACAATTCCA
Found at i:61309 original size:34 final size:34
Alignment explanation
Indices: 61263--61395 Score: 196
Period size: 34 Copynumber: 3.9 Consensus size: 34
61253 AAAATGATTG
*
61263 AGAGGTTATATCTTAGCCTTCGAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
* *
61297 AGAGGTTCTATCTTAGCCTTCTAAAAGATAAGGA
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
* *
61331 AGAGGTTCTATCTTAACCTTC-AAAGAGATAGGAA
1 AGAGGTTCTATCTTAGCCTTCGAAA-AGATAGGGA
*
61365 AAAGGTTCTATCTTAGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
61396 TGTTGTAAGA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 3 0.03
34 83 0.93
35 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:63889 original size:26 final size:26
Alignment explanation
Indices: 63860--63911 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
63850 GGTAAAAGTC
63860 ATTATTTACAAATCTCATGTTGTCTT
1 ATTATTTACAAATCTCATGTTGTCTT
63886 ATTATTTACAAATCTCATGTTGTCTT
1 ATTATTTACAAATCTCATGTTGTCTT
63912 TCGTTGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTATTTACAAATCTCATGTTGTCTT
Found at i:64897 original size:27 final size:25
Alignment explanation
Indices: 64842--64903 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
64832 TTCATTACTC
* *
64842 ATTTATAATTTTTAAAAATATTTTT
1 ATTTATAATTTTTAAAAAAATTTTA
64867 ATTTATAATATTTTAAAAAAATTCTTA
1 ATTTATAAT-TTTTAAAAAAATT-TTA
*
64894 ATTTTTAATT
1 ATTTATAATT
64904 AAATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.28
26 13 0.41
27 10 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTATAATTTTTAAAAAAATTTTA
Found at i:66881 original size:18 final size:18
Alignment explanation
Indices: 66845--66879 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66835 TTAACTTAGG
*
66845 TAAATTCTATTAATGAAA
1 TAAATTCTATTAATAAAA
66863 TAAATT-TATTAATAAAA
1 TAAATTCTATTAATAAAA
66880 ATTTTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAATTCTATTAATAAAA
Found at i:69805 original size:16 final size:16
Alignment explanation
Indices: 69777--69823 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
69767 AATGAAAGTC
*
69777 AAAAAATCAAAAAATGGA
1 AAAAAAT-AAAAAA-AGA
69795 AAAAAATAAAAAAAGA
1 AAAAAATAAAAAAAGA
*
69811 TAAAAATAAAAAA
1 AAAAAATAAAAAA
69824 CAAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.52
17 6 0.22
18 7 0.26
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAAGA
Found at i:75615 original size:13 final size:13
Alignment explanation
Indices: 75597--75621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75587 CATATTACTT
75597 TGTATCGATACAA
1 TGTATCGATACAA
75610 TGTATCGATACA
1 TGTATCGATACA
75622 TGAAGGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75653 original size:20 final size:20
Alignment explanation
Indices: 75608--75662 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
75598 GTATCGATAC
*
75608 AATGTATCGATACATGAAGG
1 AATGTATCGATACATGAAGA
* **
75628 ATTGTATCGATACATGGTGA
1 AATGTATCGATACATGAAGA
*
75648 AATGTATCAATACAT
1 AATGTATCGATACAT
75663 TGAGCCCAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATGAAGA
Found at i:77234 original size:3 final size:3
Alignment explanation
Indices: 77226--77255 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
77216 AGATGATCAA
77226 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
77256 AAAGTTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:83770 original size:21 final size:21
Alignment explanation
Indices: 83744--83785 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
83734 AAGAGAGCAT
*
83744 AAAAATTTTATTAAGGGGGAG
1 AAAAATTTTATTAAGGAGGAG
83765 AAAAATTTTATTAAGGAGGAG
1 AAAAATTTTATTAAGGAGGAG
83786 TTATATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (21 bp):
AAAAATTTTATTAAGGAGGAG
Found at i:83834 original size:101 final size:101
Alignment explanation
Indices: 83712--83911 Score: 366
Period size: 101 Copynumber: 2.0 Consensus size: 101
83702 GAATGAGAAG
*
83712 TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAA-ATTTTATTAAGGGGGAGAAAAATTTTAT
1 TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAATATTTTATTAAGAGGGAG-AAAATTTTAT
83776 TAAGGAGGAGTTATATATTGAAAATTTGCCTTAAAAA
65 TAAGGAGGAGTTATATATTGAAAATTTGCCTTAAAAA
83813 TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAATATTTTATTAAGAGGGAGAAAATTTTATT
1 TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAATATTTTATTAAGAGGGAGAAAATTTTATT
*
83878 AAGGGGGAGTTATATATTGAAAATTTGCCTTAAA
66 AAGGAGGAGTTATATATTGAAAATTTGCCTTAAA
83912 CCTCTTCATA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
101 80 0.83
102 16 0.17
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.36
Consensus pattern (101 bp):
TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAATATTTTATTAAGAGGGAGAAAATTTTATT
AAGGAGGAGTTATATATTGAAAATTTGCCTTAAAAA
Found at i:88838 original size:20 final size:20
Alignment explanation
Indices: 88813--88868 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
88803 CATGCTTACA
*
88813 ATTGTATTGATACATTTCTC
1 ATTGTATCGATACATTTCTC
88833 ATTGTATCGATACATTTCTC
1 ATTGTATCGATACATTTCTC
*
88853 ATTGTGTCGATACATT
1 ATTGTATCGATACATT
88869 CTGAGTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (20 bp):
ATTGTATCGATACATTTCTC
Found at i:91714 original size:63 final size:62
Alignment explanation
Indices: 91596--91954 Score: 429
Period size: 62 Copynumber: 5.8 Consensus size: 62
91586 ATTGCGAGAT
* * ** *
91596 AAAGCCCACACGAGTTGGTGGCACTCTTTTGTCTTCGTAGAGTAGG-TCGGCTTTTTCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCTTCAAAGAGTAGGAT-GCCTTTTTCTTTTC
* *
91658 AAAGCCCACACAAGCTGGTGGCACCCCTTTAGTCTTCAAAGAGTAGGATGCCTTTTTCTTTTC
1 AAAGCCCACACGAGTTGGTGGCA-CCCTTTAGTCTTCAAAGAGTAGGATGCCTTTTTCTTTTC
* ** *
91721 AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCTTCAAAGACCAGGATGCCTTTTTATCTTTTT
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCTTCAAAGAGTAGGATGCC-TTTT-TCTTTTC
* * * * **
91785 GAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGACGTTTTTTTCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGT-CTTCAAAGAGTAGGATGCCTTTTTCTTTTC
*
91847 AAAGCCCACACGAGTTGGTGGCACCCTTTAGT-TCTCAAAGAGCAGGATGCCTTTTTCTTTT-
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCT-TCAAAGAGTAGGATGCCTTTTTCTTTTC
** * * *
91908 AAAGCATACATGAGTTGGTGGCACCTTTTAGTCTTCAAGGAGTAGGA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCTTCAAAGAGTAGGA
91955 CACTTTCCTC
Statistics
Matches: 253, Mismatches: 36, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
60 1 0.00
61 40 0.16
62 103 0.41
63 61 0.24
64 45 0.18
65 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (62 bp):
AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCTTCAAAGAGTAGGATGCCTTTTTCTTTTC
Found at i:91868 original size:126 final size:124
Alignment explanation
Indices: 91596--91955 Score: 467
Period size: 126 Copynumber: 2.9 Consensus size: 124
91586 ATTGCGAGAT
* ** * * *
91596 AAAGCCCACACGAGTTGGTGGCACTCTTTTGTCTTCGTAGAGTAGG-TCGGCTTTTTCTTTTCAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCTTCAAAGAGCAGGAT-GCCTTTTTCTTTTTAA
** * * *
91660 AGCCCACACAAGCTGGTGGCACCCCTTTAGTCTTCAAAGAGTAGGATGCCTTTTTCTTTTC
65 AGCCCACATGAGTTGGTGGCA-CCTTTTAGTCTTCAAAGAGTAGGACGCCTTTTTCTTTTC
* *
91721 AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCTTCAAAGACCAGGATGCCTTTTTATCTTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCTTCAAAGAGCAGGATGCC-TTTT-TCTTTTTA
**
91786 AAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGACGTTTTTTTCTTTTC
64 AAGCCCACATGAGTTGGTGGCACCTTTTAGT-CTTCAAAGAGTAGGACGCCTTTTTCTTTTC
*
91847 AAAGCCCACACGAGTTGGTGGCACCCTTTAGT-TCTCAAAGAGCAGGATGCCTTTTTC-TTTTAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCT-TCAAAGAGCAGGATGCCTTTTTCTTTTTAA
** *
91910 AGCATACATGAGTTGGTGGCACCTTTTAGTCTTCAAGGAGTAGGAC
65 AGCCCACATGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGTAGGAC
91956 ACTTTCCTCA
Statistics
Matches: 208, Mismatches: 21, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
122 3 0.01
123 44 0.21
124 2 0.01
125 48 0.23
126 83 0.40
127 28 0.13
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (124 bp):
AAAGCCCACACGAGTTGGTGGCACCCTTTTGTCTTCAAAGAGCAGGATGCCTTTTTCTTTTTAAA
GCCCACATGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGTAGGACGCCTTTTTCTTTTC
Found at i:92143 original size:45 final size:45
Alignment explanation
Indices: 92094--92458 Score: 192
Period size: 45 Copynumber: 8.4 Consensus size: 45
92084 CGCATTTTCC
*
92094 TTTTCTCTTTTGTCCTCAAAGAGCAAGACACGCTTCATTTCCTTT
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
* * ** **
92139 TTTTC-CATTTTCTCCTCAAAGAGCATGATGCACTTGTTTTCC---
1 TTTTCTC-TTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
* * **** * *
92181 TTTT-TCTTTTGTTCTCAAAGAGCAGGGTGTACCTCATTTCCTTA
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
* * * **
92225 TTTTC-CCTTTGTCCTCAAAGA-CTAGGACATACTTCATTTCCTCC
1 TTTTCTCTTTTGTCCTCAAAGAGC-AAGACACACTTCATTTCCTTT
* * *
92269 TTTTCTCTTTTGTCCTCAAAGAGCAAGACGCATTTTATTTCC--T
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
* * *** * *
92312 TTTTC-C-TTTGTCCTCAACA-AGTAGGGTGCACCTCATTTCCTTA
1 TTTTCTCTTTTGTCCTCAA-AGAGCAAGACACACTTCATTTCCTTT
* * * * *
92355 TTTTC-CCTTTCTCCTTC-AAGACCAAGACGCACTTTATTT-C--T
1 TTTTCTCTTTTGTCC-TCAAAGAGCAAGACACACTTCATTTCCTTT
* * * * * *
92396 TTTTCTCCTTTGTCCTTAAAGAGCAGGACTCACTTAATTTCCTTC
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
92441 TTTTC-C-TTTGTCCTCAAA
1 TTTTCTCTTTTGTCCTCAAA
92459 AAGTAGGATG
Statistics
Matches: 245, Mismatches: 55, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
41 58 0.24
42 33 0.13
43 26 0.11
44 59 0.24
45 68 0.28
46 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.42
Consensus pattern (45 bp):
TTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTTT
Found at i:92236 original size:44 final size:44
Alignment explanation
Indices: 91961--92458 Score: 265
Period size: 41 Copynumber: 11.7 Consensus size: 44
91951 AGGACACTTT
* * *
91961 CCTCATTTCCTT-TTTT-CGTTTGTCCTTAAAGAGCATGACGC-
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCA
* * * *
92002 CCTTTATTTTCTT-TTTT--CTTTGTCCTCAAAGAGTAAGG-CACA
1 CC-TCATTTCCTTATTTTCCCTTTGTCCTCAAAGAG-CAGGACGCA
* * **
92044 CCTCATTTCCTTTTTTTCCCTTAGTCCTCAAAGAGCTTGACGCA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCA
* * * * *
92088 --T--TTTCCTT-TTCT-CTTTTGTCCTCAAAGAGCAAGACACG
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCA
* * * * * *
92126 CTTCATTTCCTTTTTTTCCATTTTCTCCTCAAAGAGCATGATGCA
1 CCTCATTTCCTTATTTTCC-CTTTGTCCTCAAAGAGCAGGACGCA
* ** * * ** *
92171 CTTGTTTTCC-T-TTTT-CTTTTGTTCTCAAAGAGCAGGGTGTA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCA
**
92212 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGA-CTAGGACATA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGC-AGGACGCA
* ** * *
92256 CTTCATTTCCTCCTTTTCTCTTTTGTCCTCAAAGAGCAAGACGCA
1 CCTCATTTCCTTATTTTC-CCTTTGTCCTCAAAGAGCAGGACGCA
** * * **
92301 TTTTATTTCC-T-TTTT-CCTTTGTCCTCAACA-AGTAGGGTGCA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAA-AGAGCAGGACGCA
* * *
92342 CCTCATTTCCTTATTTTCCCTTTCTCCTTC-AAGACCAAGACGCA
1 CCTCATTTCCTTATTTTCCCTTTGTCC-TCAAAGAGCAGGACGCA
* * * *
92386 CTTTATTT-C-T-TTTTCTCCTTTGTCCTTAAAGAGCAGGACTCA
1 CCTCATTTCCTTATTTTC-CCTTTGTCCTCAAAGAGCAGGACGCA
* * *
92428 CTTAATTTCCTTCTTTT-CCTTTGTCCTCAAA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAA
92459 AAGTAGGATG
Statistics
Matches: 351, Mismatches: 75, Indels: 60
0.72 0.15 0.12
Matches are distributed among these distances:
38 20 0.06
39 3 0.01
40 8 0.02
41 85 0.24
42 59 0.17
43 37 0.11
44 76 0.22
45 62 0.18
46 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (44 bp):
CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAGGACGCA
Found at i:92263 original size:130 final size:130
Alignment explanation
Indices: 92102--92457 Score: 370
Period size: 130 Copynumber: 2.7 Consensus size: 130
92092 CCTTTTCTCT
* ** *
92102 TTTGTCCTCAAAGAGCAAGACACGCTTCATTTCCTTTTTTTC-CATTTTCTCCTCAAAGAGCATG
1 TTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTCCTTTTCTC-TTTTCTCCTCAAAGAGCAAG
* * * *
92166 ATGCACTTGT-TTTCCTTTTTCTTTTGTTCTCAA-AGAGCAGGGTGTACCTCATTTCCTTATTTT
65 ACGCA-TTGTATTTCCTTTTTCCTTTGTCCTCAACA-AGCAGGGTGCACCTCATTTCCTTATTTT
92229 CCC
128 CCC
* * *
92232 TTTGTCCTCAAAGA-CTAGGACATACTTCATTTCCTCCTTTTCTCTTTTGTCCTCAAAGAGCAAG
1 TTTGTCCTCAAAGAGC-AAGACACACTTCATTTCCTCCTTTTCTCTTTTCTCCTCAAAGAGCAAG
* *
92296 ACGCATTTTATTTCCTTTTTCCTTTGTCCTCAACAAGTAGGGTGCACCTCATTTCCTTATTTTCC
65 ACGCATTGTATTTCCTTTTTCCTTTGTCCTCAACAAGCAGGGTGCACCTCATTTCCTTATTTTCC
92361 C
130 C
* * * * * * * *
92362 TTTCTCCTTC-AAGACCAAGACGCACTTTATTT-CT--TTTTCTCCTTTGTCCTTAAAGAGCAGG
1 TTTGTCC-TCAAAGAGCAAGACACACTTCATTTCCTCCTTTTCTCTTTTCTCCTCAAAGAGCAAG
* *
92423 ACTCACTT-AATTTCCTTCTTTTCCTTTGTCCTCAA
65 ACGCA-TTGTATTTCC-T-TTTTCCTTTGTCCTCAA
92458 AAAGTAGGAT
Statistics
Matches: 194, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
127 34 0.18
128 3 0.02
129 23 0.12
130 129 0.66
131 5 0.03
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.42
Consensus pattern (130 bp):
TTTGTCCTCAAAGAGCAAGACACACTTCATTTCCTCCTTTTCTCTTTTCTCCTCAAAGAGCAAGA
CGCATTGTATTTCCTTTTTCCTTTGTCCTCAACAAGCAGGGTGCACCTCATTTCCTTATTTTCCC
Found at i:92436 original size:86 final size:87
Alignment explanation
Indices: 92225--92458 Score: 245
Period size: 86 Copynumber: 2.7 Consensus size: 87
92215 CATTTCCTTA
* *
92225 TTTTC-CCTTTGTCCTCAAAGA-CTAGGACAT-ACTTCATTTCCTCCTTTTCTCTTTTGTCC-TC
1 TTTTCTCCTTTGTCCTCAAAGAGC-AGGAC-TCACTTCATTTCCTTCTTTTC-CCTTTGTCCTTC
* *
92286 AAAGAGCAAGACGCATTTTATTTCC
63 AAAGACCAAGACGCACTTTATTTCC
* * * * *
92311 TTTT-TCCTTTGTCCTCAACA-AGTAGG-GTGCACCTCATTTCCTTATTTTCCCTTTCTCCTTC-
1 TTTTCTCCTTTGTCCTCAA-AGAGCAGGACT-CACTTCATTTCCTTCTTTTCCCTTTGTCCTTCA
*
92372 AAGACCAAGACGCACTTTATTTCT
64 AAGACCAAGACGCACTTTATTTCC
* *
92396 TTTTCTCCTTTGTCCTTAAAGAGCAGGACTCACTTAATTTCCTTCTTTT-CCTTTGTCC-TCAAA
1 TTTTCTCCTTTGTCCTCAAAGAGCAGGACTCACTTCATTTCCTTCTTTTCCCTTTGTCCTTCAAA
92459 AAGTAGGATG
Statistics
Matches: 121, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
84 3 0.02
85 43 0.36
86 73 0.60
87 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.42
Consensus pattern (87 bp):
TTTTCTCCTTTGTCCTCAAAGAGCAGGACTCACTTCATTTCCTTCTTTTCCCTTTGTCCTTCAAA
GACCAAGACGCACTTTATTTCC
Found at i:93120 original size:30 final size:30
Alignment explanation
Indices: 93084--93207 Score: 88
Period size: 30 Copynumber: 4.5 Consensus size: 30
93074 CATTCTTCAT
93084 TGTATCGATACATTCTAGGTTTTACCCAAA
1 TGTATCGATACATTCTAGGTTTTACCCAAA
*
93114 TGTATCGATACA-T-TA---TTT-----AT
1 TGTATCGATACATTCTAGGTTTTACCCAAA
* *
93134 TGTATCGATACATTCTAGGGTTTACCCAGA
1 TGTATCGATACATTCTAGGTTTTACCCAAA
* * * * ** *
93164 TGTATTGATACATTTTGGGTTGTATACAGA
1 TGTATCGATACATTCTAGGTTTTACCCAAA
93194 TGTATCGATACATT
1 TGTATCGATACATT
93208 TCTCAATGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
20 13 0.18
21 1 0.01
22 2 0.03
25 6 0.08
28 2 0.03
29 1 0.01
30 48 0.66
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (30 bp):
TGTATCGATACATTCTAGGTTTTACCCAAA
Found at i:93139 original size:50 final size:50
Alignment explanation
Indices: 93064--93177 Score: 183
Period size: 50 Copynumber: 2.3 Consensus size: 50
93054 TTCTACAATT
* *
93064 TGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTTACCCAAA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTAGGGTTTACCCAAA
* *
93114 TGTATCGATACATTATTTATTGTATCGATACATTCTAGGGTTTACCCAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTAGGGTTTACCCAAA
*
93164 TGTATTGATACATT
1 TGTATCGATACATT
93178 TTGGGTTGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTGTATCGATACATTCTAGGGTTTACCCAAA
Found at i:93208 original size:30 final size:29
Alignment explanation
Indices: 93134--93208 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
93124 CATTATTTAT
*
93134 TGTATCGATACATTCTAGGGTTTACCCAGA
1 TGTATCGATACATT-TAGGGTTTACACAGA
* * *
93164 TGTATTGATACATTTTGGGTTGTATACAGA
1 TGTATCGATACATTTAGGGTT-TACACAGA
93194 TGTATCGATACATTT
1 TGTATCGATACATTT
93209 CTCAATGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 6 0.15
30 33 0.85
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (29 bp):
TGTATCGATACATTTAGGGTTTACACAGA
Found at i:95684 original size:79 final size:79
Alignment explanation
Indices: 95514--95726 Score: 193
Period size: 79 Copynumber: 2.7 Consensus size: 79
95504 CATCGATGTT
* * * * * *
95514 TTTATTTTCC-AAATATA-ATTTTCCACCATC-GAGGACATTCTAACCCTGTTATCTTCAAGGGG
1 TTTA-TTTCCAAAACATAGATTTTCCACAATCAG-GGATACTCTAACCCCGTTATTTTCAAGGGG
* **
95576 ATACTCCAACCCCGGC
64 ATACTCCAACCACAAC
* * * * *
95592 TTTATTTCTAAAACATCA-ATTTTTCATAATCAGGGATACTCTAACCCCATTATTTTCATGGGGA
1 TTTATTTCCAAAACAT-AGATTTTCCACAATCAGGGATACTCTAACCCCGTTATTTTCAAGGGGA
*
95656 TACTCCAACCACAAT
65 TACTCCAACCACAAC
* * *
95671 TTTCA-TTCCAAAACATAGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTT
1 TTT-ATTTCCAAAACATAGATTTTCCACAATCAGGGATACTCTAACCCCGTTATTTT
95727 TGAGTGGTTA
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
77 4 0.04
78 10 0.09
79 92 0.85
80 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (79 bp):
TTTATTTCCAAAACATAGATTTTCCACAATCAGGGATACTCTAACCCCGTTATTTTCAAGGGGAT
ACTCCAACCACAAC
Found at i:103713 original size:15 final size:15
Alignment explanation
Indices: 103693--103744 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
103683 TAACATGAAT
103693 AATAAAAAATAATTA
1 AATAAAAAATAATTA
*
103708 AATAAAAAAATAA-AA
1 AAT-AAAAAATAATTA
103723 AATAAAAAATAATTA
1 AATAAAAAATAATTA
*
103738 ATTAAAA
1 AATAAAA
103745 GAAAAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.28
15 14 0.44
16 9 0.28
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAAATAATTA
Found at i:103751 original size:7 final size:7
Alignment explanation
Indices: 103693--103734 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
103683 TAACATGAAT
103693 AATAAAA
1 AATAAAA
*
103700 AATAATTA
1 AATAA-AA
103708 AATAAAAA
1 AAT-AAAA
103716 AATAAAA
1 AATAAAA
103723 AATAAAA
1 AATAAAA
103730 AATAA
1 AATAA
103735 TTAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 21 0.68
8 8 0.26
9 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:103861 original size:17 final size:17
Alignment explanation
Indices: 103839--103898 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
103829 TTAGGTGGCG
103839 TTTCATGCATACTTTCA
1 TTTCATGCATACTTTCA
* *
103856 TTTCATGCATGCTTTTA
1 TTTCATGCATACTTTCA
* *
103873 CTTCATACATACTTTCA
1 TTTCATGCATACTTTCA
103890 TTTCATGCA
1 TTTCATGCA
103899 AATGAAACGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (17 bp):
TTTCATGCATACTTTCA
Found at i:106500 original size:10 final size:10
Alignment explanation
Indices: 106481--106521 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
106471 ATCTCATTTT
106481 TCACTGTTCA
1 TCACTGTTCA
*
106491 TCACTCTTCA
1 TCACTGTTCA
106501 TCACTGTTCA
1 TCACTGTTCA
106511 TCACTGTTCA
1 TCACTGTTCA
106521 T
1 T
106522 GTATTGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:111407 original size:50 final size:50
Alignment explanation
Indices: 111336--111452 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 50
111326 TATATTCTTT
*
111336 ATTGCATCGATACATTCTGGGTTTTACCCAGATGCATCGATACATTAT-TC
1 ATTGTATCGATACATTCTGGGTTTTACCCAGATGCATCGATACATT-TCTC
* *
111386 ATTGTATCGATACATTTTGGGTTTTACCCAGATGTATCGATACATTTCTC
1 ATTGTATCGATACATTCTGGGTTTTACCCAGATGCATCGATACATTTCTC
* *
111436 AATGTATTGATACATTC
1 ATTGTATCGATACATTC
111453 AGGCATTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (50 bp):
ATTGTATCGATACATTCTGGGTTTTACCCAGATGCATCGATACATTTCTC
Found at i:115820 original size:13 final size:13
Alignment explanation
Indices: 115802--115827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115792 CAATTTTTTG
115802 TGTATCGATACAT
1 TGTATCGATACAT
115815 TGTATCGATACAT
1 TGTATCGATACAT
115828 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116567 original size:21 final size:21
Alignment explanation
Indices: 116526--116569 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
116516 CTCTCCTTTA
* *
116526 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
116547 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
116568 TC
1 TC
116570 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:118357 original size:13 final size:13
Alignment explanation
Indices: 118339--118364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118329 ATAATCACCC
118339 TGTATCGATACAA
1 TGTATCGATACAA
118352 TGTATCGATACAA
1 TGTATCGATACAA
118365 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:120454 original size:15 final size:15
Alignment explanation
Indices: 120434--120464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
120424 ATTTCGTTTG
*
120434 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
120449 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
120464 G
1 G
120465 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:122297 original size:21 final size:21
Alignment explanation
Indices: 122268--122312 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
122258 AAGTTTTCAT
*
122268 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
122288 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
122310 TTT
1 TTT
122313 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:124557 original size:13 final size:13
Alignment explanation
Indices: 124539--124564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124529 CAATTTTTTG
124539 TGTATCGATACAT
1 TGTATCGATACAT
124552 TGTATCGATACAT
1 TGTATCGATACAT
124565 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:124648 original size:20 final size:21
Alignment explanation
Indices: 124603--124655 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
124593 CTGCCAAGAA
* **
124603 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
124624 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
124644 ATGTATCGATAC
1 ATGTATCGATAC
124656 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:129990 original size:52 final size:52
Alignment explanation
Indices: 129842--129970 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
129832 CAAAATATGA
* *
129842 AAATTTCCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
129894 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
129946 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
129971 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:130070 original size:19 final size:19
Alignment explanation
Indices: 130042--130130 Score: 93
Period size: 19 Copynumber: 5.0 Consensus size: 19
130032 GCAGTAGCTT
130042 ACTT-TGTATCGATACAAA
1 ACTTATGTATCGATACAAA
**
130060 ACTTATGTATCGATACAGC
1 ACTTATGTATCGATACAAA
130079 ACTTATGTATCGATAC---
1 ACTTATGTATCGATACAAA
*
130095 A-TTAT-T-TCGATACAAT
1 ACTTATGTATCGATACAAA
130111 ACTTTATGTATCGATACAAA
1 AC-TTATGTATCGATACAAA
130131 TCTTTGAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
13 7 0.12
14 1 0.02
15 4 0.07
16 2 0.03
18 8 0.13
19 29 0.48
20 9 0.15
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
ACTTATGTATCGATACAAA
Found at i:130117 original size:18 final size:20
Alignment explanation
Indices: 130091--130129 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
130081 TTATGTATCG
130091 ATACATTAT-T-TCGATACA
1 ATACATTATGTATCGATACA
*
130109 ATACTTTATGTATCGATACA
1 ATACATTATGTATCGATACA
130129 A
1 A
130130 ATCTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATACATTATGTATCGATACA
Found at i:130849 original size:55 final size:52
Alignment explanation
Indices: 130788--130929 Score: 140
Period size: 52 Copynumber: 2.7 Consensus size: 52
130778 ACCAATATGT
* * **
130788 TGATTCACGACCAACGATATTGGGTTTAAAGATGAGAAAAAAGATGTTAATGTAC
1 TGATTCACGGCCAACGACATTGGGTTTAAAGATGAG--AAAA-ATGCCAATGTAC
* * * ** * *
130843 TGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGC
1 TGATTCACGGCCAACGACATTGGGTTTAAAGATGAGAAAAATGCCAATGTAC
* *
130895 TGATTCAAGGCCAACAACATTGGGTTTAAAGATGA
1 TGATTCACGGCCAACGACATTGGGTTTAAAGATGA
130930 AGATGCCAAT
Statistics
Matches: 68, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
52 36 0.53
53 4 0.06
55 28 0.41
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (52 bp):
TGATTCACGGCCAACGACATTGGGTTTAAAGATGAGAAAAATGCCAATGTAC
Found at i:130915 original size:52 final size:49
Alignment explanation
Indices: 130836--131234 Score: 222
Period size: 49 Copynumber: 8.4 Consensus size: 49
130826 AAAAGATGTT
* * * * * *
130836 AATGTACTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGAT--G-AAAATGCC
* ** *
130888 AATGTGCTGATTCAAGGCCAACAACATTGGGTTTAAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
* * * * * * *
130937 AATATGCTGATTCAAGGCCAGCTATATTGGTCTTAGAAG--G---GTGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTA-AAGATGAAAATGCC
* * * **
130982 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
** * * * *
131031 AATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G----TGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
* * * * **
131074 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
* * * * *
131123 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G----TGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
* * * * **
131166 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAATATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
131215 AA-GATGCTGATTCAAGGCCA
1 AATG-TGCTGATTCAAGGCCA
131235 GCTATATTGG
Statistics
Matches: 291, Mismatches: 37, Indels: 41
0.79 0.10 0.11
Matches are distributed among these distances:
43 75 0.26
44 3 0.01
45 38 0.13
46 1 0.00
47 2 0.01
48 2 0.01
49 135 0.46
50 4 0.01
52 31 0.11
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAAAATGCC
Found at i:130952 original size:49 final size:48
Alignment explanation
Indices: 130884--131249 Score: 409
Period size: 49 Copynumber: 7.8 Consensus size: 48
130874 ATGAGAAAAA
* * * **
130884 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
130932 ATGCCAATATGCTGATTCAAGGCCAGCTATATTGGTCTTAGAAG--G--G
1 -TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGATGAAG
*
130978 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-G
* * *
131027 TGCCAATACGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
131070 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-G
* *
131119 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
131162 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAATATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-G
* * *
131211 TGCCAAGATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
131250 GAAGGGTTGC
Statistics
Matches: 270, Mismatches: 29, Indels: 36
0.81 0.09 0.11
Matches are distributed among these distances:
43 71 0.26
44 6 0.02
45 38 0.14
46 6 0.02
47 2 0.01
48 4 0.01
49 140 0.52
50 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:131115 original size:92 final size:93
Alignment explanation
Indices: 130884--131254 Score: 602
Period size: 92 Copynumber: 4.0 Consensus size: 93
130874 ATGAGAAAAA
* * ** *
130884 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
130949 CAAGGCCAGCTATATTGGTCTTAGAAGGG
66 CAAGGCCAGCGATATTGGACTTAGAA-GG
*
130978 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATACGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
131043 CAAGGCCAGCGATATTGGACTTA-AAGG
66 CAAGGCCAGCGATATTGGACTTAGAAGG
*
131070 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
131135 CAAGGCCAGCGATATTGGACTTA-AAGG
66 CAAGGCCAGCGATATTGGACTTAGAAGG
* *
131162 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAATATGAAGGTGCCAAGATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
131227 CAAGGCCAGCTATATTGGGCTTAGAAGG
66 CAAGGCCAGCGATATTGGACTTAGAAGG
131255 GTTGCCACCG
Statistics
Matches: 261, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 175 0.67
93 6 0.02
94 80 0.31
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (93 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAGAAGG
Found at i:131293 original size:33 final size:33
Alignment explanation
Indices: 131249--131517 Score: 400
Period size: 33 Copynumber: 8.2 Consensus size: 33
131239 TATTGGGCTT
*
131249 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
131282 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
131315 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
131347 AG--GGGATTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
* *
131379 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
131412 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* **
131445 AGAAGGTTTGCCATTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
131478 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
131511 AAAAGGG
1 AGAAGGG
131518 GCAAGATGCC
Statistics
Matches: 213, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
31 3 0.01
32 55 0.26
33 153 0.72
34 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:131580 original size:34 final size:34
Alignment explanation
Indices: 131524--131847 Score: 419
Period size: 34 Copynumber: 9.6 Consensus size: 34
131514 AGGGGCAAGA
* *
131524 TGCCACGAAGTTGTGGAC-TTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
*
131557 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-G
*
131593 TGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
* *
131625 TGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
* * *
131659 TGCCACAGAGTTGTGGGC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
* *
131692 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-G
* *
131728 TGCCACGGAGTTGTGGGCTTT-GAAAG--GAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
* *
131759 TGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
131793 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
*
131827 TGCCATGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT
131848 GAAGAAAAAA
Statistics
Matches: 254, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.08
32 24 0.09
33 56 0.22
34 92 0.36
35 22 0.09
36 39 0.15
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
Found at i:131671 original size:135 final size:133
Alignment explanation
Indices: 131524--131847 Score: 486
Period size: 135 Copynumber: 2.4 Consensus size: 133
131514 AGGGGCAAGA
*
131524 TGCCACGAAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACG-AGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
* *
131589 AGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
65 AGAGTGCCACGGAGTTGTGGACTTAAAAAG-AAAGGTGCCACAGAGTGGTGGGCTTTAAAAAGAA
131654 AAAGG
129 AAAGG
* * *
131659 TGCCACAGAGTTGTGGGCTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
1 TGCCAC-GAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
* ** * * *
131724 AGAGTGCCACGGAGTTGTGGGCTTTGAAAGGAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA
65 AGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAGGTGCCACAGAGTGGTGGGCTTTAAAAAGAAA
131789 AAGG
130 AAGG
*
131793 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGGCTTT
1 TGCCAC-GAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
131848 GAAGAAAAAA
Statistics
Matches: 170, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
134 51 0.30
135 118 0.69
136 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (133 bp):
TGCCACGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
GAGTGCCACGGAGTTGTGGACTTAAAAAGAAAGGTGCCACAGAGTGGTGGGCTTTAAAAAGAAAA
AGG
Found at i:131706 original size:168 final size:168
Alignment explanation
Indices: 131519--131846 Score: 486
Period size: 168 Copynumber: 2.0 Consensus size: 168
131509 AGAAAAGGGG
131519 CAAGATGCCACGAAGTTGTGGAC-TTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 CAAGATGCCACGAAGTTGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
*
131581 AGGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAA-GAAAAGGTGCCACGGAGTGGTGGGCT
66 A-GG---AAG-GTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAGGTGCCACGGAGTGGTGGGCT
*
131644 TTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGAA
126 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGAA
* * * *
131687 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 CAAGATGCCACGAAGTTGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* *
131752 AGGAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
66 AGGAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAGGTGCCACGGAGTGGTGGGCTTTAAA
**
131817 AAGAAAAAGGTGCCATGGAGTTGTGGGCTT
131 AAGAAAAAGGTGCCACAGAGTTGTGGGCTT
131847 TGAAGAAAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
166 17 0.12
167 10 0.07
168 78 0.54
169 6 0.04
170 9 0.06
171 25 0.17
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (168 bp):
CAAGATGCCACGAAGTTGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AGGAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAGGTGCCACGGAGTGGTGGGCTTTAAA
AAGAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGAA
Found at i:131759 original size:67 final size:67
Alignment explanation
Indices: 131524--131847 Score: 424
Period size: 67 Copynumber: 4.8 Consensus size: 67
131514 AGGGGCAAGA
* * *
131524 TGCCACGAAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
131589 AGAG
65 AG-G
* * *
131593 TGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA--GAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAA
131656 AGG
65 AGG
* *
131659 TGCCACAGAGTTGTGGGC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
1 TGCCACGGAGTTGTGGGCTTTAAAA-GAA-AAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
131723 AAGAG
64 AAG-G
* * * *
131728 TGCCACGGAGTTGTGGGCTTTGAAAG-GAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGG-AAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
131791 GG
66 GG
*
131793 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTT
131848 GAAGAAAAAA
Statistics
Matches: 228, Mismatches: 17, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
65 27 0.12
66 33 0.14
67 59 0.26
68 56 0.25
69 48 0.21
70 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (67 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
GG
Found at i:131930 original size:62 final size:63
Alignment explanation
Indices: 131834--132221 Score: 565
Period size: 62 Copynumber: 6.2 Consensus size: 63
131824 AGGTGCCATG
* * *
131834 GAGTTGTGGGCTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGACA-AAATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGAAATGCCACT
* * *
131895 GAGTCATGGACTTTAAAGAAAATGATGCCACTGAGTCGTGGACTTTGAGACA-AAATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGAAATGCCACT
* * * *
131957 GAGTCATGGACTTTGAAGAAAAGGATGCTACTGAGTCATGGACTTTGAG-CAGAGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGA-AATGCCACT
* *
132020 AAGTCGTGGACTTTGAAGAAAAGGATGCCATTGAGTCGTGGACTTTGAGACA-AAATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGAAATGCCACT
*
132082 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG-CAGAGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGA-AATGCCACT
* *
132145 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGTGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAG-AAATGCCACT
132208 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
132222 AAAAAGGTAT
Statistics
Matches: 299, Mismatches: 20, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
61 22 0.07
62 140 0.47
63 135 0.45
64 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAGAAATGCCACT
Found at i:132039 original size:125 final size:125
Alignment explanation
Indices: 131834--132221 Score: 595
Period size: 125 Copynumber: 3.1 Consensus size: 125
131824 AGGTGCCATG
* * * *
131834 GAGTTGTGGGCTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTG
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG-CAGAGATTGCCACTG
* * *
131896 AGTCATGGACTTTAAAGAAAATGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
65 AGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
* * * *
131957 GAGTCATGGACTTTGAAGAAAAGGATGCTACTGAGTCATGGACTTTGAGCAGAGATTGCCACTAA
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGA
*
132022 GTCGTGGACTTTGAAGAAAAGGATGCCATTGAGTCGTGGACTTTGAGACAAAATGCCACT
66 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
132082 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGA
1 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGA
* *
132147 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGTGATTGCCACT
66 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA--AAATGCCACT
132208 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
132222 AAAAAGGTAT
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
123 21 0.09
124 25 0.10
125 173 0.72
126 22 0.09
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (125 bp):
GAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGA
GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
Found at i:133199 original size:17 final size:15
Alignment explanation
Indices: 133173--133229 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 15
133163 GTTTTTCCCA
133173 TCTTTTTTTTTTGTT
1 TCTTTTTTTTTTGTT
133188 TCTTCTTCTTTTTT-TT
1 TCTT-TT-TTTTTTGTT
133204 TCCTTTTTTGTTTTGTT
1 T-CTTTTTT-TTTTGTT
133221 TCTTTTTTT
1 TCTTTTTTT
133230 GGAAAAGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.19
16 18 0.49
17 12 0.32
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (15 bp):
TCTTTTTTTTTTGTT
Found at i:133502 original size:8 final size:8
Alignment explanation
Indices: 133491--133530 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
133481 TTTTTTAATT
133491 TTTTTTTG
1 TTTTTTTG
133499 TTTTTTT-
1 TTTTTTTG
133506 TGTTTTTTG
1 T-TTTTTTG
133515 TTTTTTTG
1 TTTTTTTG
133523 TATTTTTT
1 T-TTTTTT
133531 TTTCATCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.03
8 21 0.72
9 7 0.24
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:133502 original size:9 final size:9
Alignment explanation
Indices: 133490--133531 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
133480 TTTTTTTAAT
133490 TTTTTTTTG
1 TTTTTTTTG
133499 TTTTTTTTG
1 TTTTTTTTG
133508 --TTTTTTG
1 TTTTTTTTG
133515 -TTTTTTTG
1 TTTTTTTTG
133523 TATTTTTTT
1 T-TTTTTTT
133532 TTCATCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 9 0.30
10 7 0.23
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:133511 original size:16 final size:16
Alignment explanation
Indices: 133492--133533 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
133482 TTTTTAATTT
133492 TTTTTTGTTTTTTTTG
1 TTTTTTGTTTTTTTTG
133508 TTTTTTG-TTTTTTTG
1 TTTTTTGTTTTTTTTG
133523 TATTTTT-TTTT
1 T-TTTTTGTTTT
133534 CATCACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (16 bp):
TTTTTTGTTTTTTTTG
Found at i:140516 original size:52 final size:52
Alignment explanation
Indices: 140438--140566 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
140428 CGAAATATGA
140438 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
140490 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
140542 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
140567 AAGATCAATG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:140579 original size:52 final size:51
Alignment explanation
Indices: 140438--140586 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 51
140428 CGAAATATGA
*
140438 AAATTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCA-A-TGTATCGATACATCTGGGC
* * *
140490 AAATTTGCTTGCATGTATCGATACATTTTAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ATATCAATGTATCGATACATCTGGGC
* *
140542 AAATTTGCCTACATGTATCGATACAAAGATCAATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AATATCAATGTATCGATACA
140587 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
51 2 0.02
52 77 0.93
53 1 0.01
54 1 0.01
55 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCAATGTATCGATACATCTGGGC
Found at i:140590 original size:13 final size:13
Alignment explanation
Indices: 140572--140599 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
140562 ATACAAAGAT
140572 CAATGTATCGATA
1 CAATGTATCGATA
140585 CAATGTATCGATA
1 CAATGTATCGATA
140598 CA
1 CA
140600 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:140666 original size:19 final size:18
Alignment explanation
Indices: 140638--140759 Score: 95
Period size: 19 Copynumber: 7.1 Consensus size: 18
140628 GCAGTAGCTT
140638 ACTT-TGTATCGATACAAA
1 ACTTATGTATCGATAC-AA
*
140656 ACTTATGTATCGATACAGC
1 ACTTATGTATCGATACA-A
140675 ACTTATGTATCGATAC--
1 ACTTATGTATCGATACAA
140691 A--T-TGTATCGATACAA
1 ACTTATGTATCGATACAA
140706 TACTTTATGTATCGATAC--
1 -AC-TTATGTATCGATACAA
*
140724 A--T-TGTATTGATACAA
1 ACTTATGTATCGATACAA
140739 TACTTTATGTATCGATACAA
1 -AC-TTATGTATCGATACAA
140759 A
1 A
140760 TCGTTGAAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 31
0.71 0.03 0.26
Matches are distributed among these distances:
13 21 0.25
14 2 0.02
16 3 0.04
17 1 0.01
18 5 0.06
19 30 0.35
20 23 0.27
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
ACTTATGTATCGATACAA
Found at i:140698 original size:13 final size:13
Alignment explanation
Indices: 140680--140704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140670 ACAGCACTTA
140680 TGTATCGATACAT
1 TGTATCGATACAT
140693 TGTATCGATACA
1 TGTATCGATACA
140705 ATACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:140719 original size:33 final size:33
Alignment explanation
Indices: 140661--140757 Score: 160
Period size: 33 Copynumber: 3.0 Consensus size: 33
140651 ACAAAACTTA
**
140661 TGTATCGATACAGCAC-TTATGTATCGATACAT
1 TGTATCGATACAATACTTTATGTATCGATACAT
140693 TGTATCGATACAATACTTTATGTATCGATACAT
1 TGTATCGATACAATACTTTATGTATCGATACAT
*
140726 TGTATTGATACAATACTTTATGTATCGATACA
1 TGTATCGATACAATACTTTATGTATCGATACA
140758 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 14 0.23
33 47 0.77
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATACTTTATGTATCGATACAT
Found at i:144439 original size:595 final size:594
Alignment explanation
Indices: 143285--144481 Score: 1980
Period size: 595 Copynumber: 2.0 Consensus size: 594
143275 AAGCCTTGGA
143285 GCATGGAACAAAAAGTGTAGGAAGCTTTCGATAAGGTTAAGCATTACTTTCAAGTCCTCTAGGGC
1 GCATGGAACAAAAAGTGTAGGAAGCTTTCGATAAGGTTAAGCATTACTTTCAAGTCCTCTAGGGC
* * *
143350 TTGTGCCACTAGTGCCTGGGAGACTATTGATTTTATACCTTTCGGTTTTTGACAATTCTGTGGGC
66 TTGTGCCACTAATGCCTGGGAGACTATTGATTTTAAACCTTTCGGTTTTTGACAATTCTATGGGC
* * *
143415 TATGTCCTAGGACAACATCATGAGTTAGGAAGAAAAGAACAAGGCATCTATTATCTGAGCAAGAA
131 TATGCCCTAGGACAACATCATGAGTTAGGAAGAAAAGAACAAGGCATCTATTATCTAAGCAAAAA
* * * ** *
143480 GTTCACAGATTACAAAAATAACTATTTCGCGATAGAAAAGTTATGTTGTGTTCTAGGTTGGACGA
196 GTTCACAGAGTACAAAAATAACTATTTCACGATAGAAAAGTTATGTTGTGTTCTAGCTCCGACAA
143545 CCCGGAGGTTAAGGCAATACATGTTGTACCATACTACTTGGTTGATCGCCAAACTTAATCCCATC
261 CCCGGAGGTTAAGGCAATACATGTTGTACCATACTACTTGGTTGATCGCCAAACTTAATCCCATC
*
143610 AAATACTTATGCGAAGCCCCTGCTTTGTCAGGAAGATTAGCCAGGTGGCAAGTTTTACTCTCAAA
326 AAATACTTATGCAAAGCCCCTGCTTTGTCAGGAAGATTAGCCAGGTGGCAAGTTTTACTCTCAAA
* ** *
143675 ATACGACATTATGTACATGAGTCAAAAGGCTATAAAAGGTAGCGTGATAGCAGACTTTTTAACAA
391 ATACGACATTATGTACATAAGTCAAAAGGCTATAAAAGGTAGCACGATAGCAAACTTTTTAACAA
* *
143740 GCCGCGCGATGGAAGACTATCAGCCCTTAAACTTTGACTTCCCTGATGAGGATCTGATGTCCATA
456 GCCACGCGATGGAAGACTATCAGCCCTTAAACTTTGACTTCCCTGATGAGGATATGATGTCCATA
*
143805 TCTAAGGAAGAAGACACTATTGAATGTGGCTCCTTATAGAAAATGTACTTTGATGGAGCTTCAAA
521 TCTAAGGAAGAAGACACTATTGAATATGGCTCCTTATAGAAAATGTACTTTGATGGAGCTTCAAA
143870 TGCATTCGG
586 TGCATTCGG
* *
143879 GCATGGAACAAAGAGTGTCAGGAAGCTTTCGATAAGGTTAAGCATTACTTTCAAGTCCTCTAGTG
1 GCATGGAACAAAAAGTGT-AGGAAGCTTTCGATAAGGTTAAGCATTACTTTCAAGTCCTCTAGGG
* * *
143944 CTTGTGCCACTAATGCCTGGGAGACTGTTGATTTTAAACTTTTTGGTTTTTGACAATTCTATGGG
65 CTTGTGCCACTAATGCCTGGGAGACTATTGATTTTAAACCTTTCGGTTTTTGACAATTCTATGGG
*
144009 CTGTGCCCTAGGACAACATCATGAGTTAGGAAGAAAAGAACAAGGCATCTATTATCTAAGCAAAA
130 CTATGCCCTAGGACAACATCATGAGTTAGGAAGAAAAGAACAAGGCATCTATTATCTAAGCAAAA
** * *
144074 AGTTCGTAGAGTATAAAAATAACTATTTCACGATAGAAATGTTATGTTGTGTTCTAGCTCCGACA
195 AGTTCACAGAGTACAAAAATAACTATTTCACGATAGAAAAGTTATGTTGTGTTCTAGCTCCGACA
** * *
144139 ACCTTGAGGTTAAGGCAATACATGTTGTACCATACTAGTTGGTTGATCGCCAAACTTAATCCTAT
260 ACCCGGAGGTTAAGGCAATACATGTTGTACCATACTACTTGGTTGATCGCCAAACTTAATCCCAT
* *
144204 CAAATACTTATGCAAAGCCCCTGCTTTGTCAGGAAGATTAGCCAGGTGGCAAGTTTTGCTCTCAG
325 CAAATACTTATGCAAAGCCCCTGCTTTGTCAGGAAGATTAGCCAGGTGGCAAGTTTTACTCTCAA
* * * *
144269 AATGCGACATTATGTACGTAAGTCAGAAGGCTATAAAAGGTAGCACGATAGCAAACTTTTTAGCA
390 AATACGACATTATGTACATAAGTCAAAAGGCTATAAAAGGTAGCACGATAGCAAACTTTTTAACA
* * *
144334 AGCTACGCGATGGAAGACTATTAGCCCTTAAACTTTGACTTCCCTGATGAGGATATGATGTGCAT
455 AGCCACGCGATGGAAGACTATCAGCCCTTAAACTTTGACTTCCCTGATGAGGATATGATGTCCAT
* *
144399 ATCTAAGGAAGAAGACACTGTTGAATATGGCTCTTTATAGAAAATGTACTTTGATGGAGCTTCAA
520 ATCTAAGGAAGAAGACACTATTGAATATGGCTCCTTATAGAAAATGTACTTTGATGGAGCTTCAA
144464 ATGCATTCGG
585 ATGCATTCGG
144474 GCATGGAA
1 GCATGGAA
144482 TTGGAGCAGT
Statistics
Matches: 557, Mismatches: 45, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
594 17 0.03
595 540 0.97
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (594 bp):
GCATGGAACAAAAAGTGTAGGAAGCTTTCGATAAGGTTAAGCATTACTTTCAAGTCCTCTAGGGC
TTGTGCCACTAATGCCTGGGAGACTATTGATTTTAAACCTTTCGGTTTTTGACAATTCTATGGGC
TATGCCCTAGGACAACATCATGAGTTAGGAAGAAAAGAACAAGGCATCTATTATCTAAGCAAAAA
GTTCACAGAGTACAAAAATAACTATTTCACGATAGAAAAGTTATGTTGTGTTCTAGCTCCGACAA
CCCGGAGGTTAAGGCAATACATGTTGTACCATACTACTTGGTTGATCGCCAAACTTAATCCCATC
AAATACTTATGCAAAGCCCCTGCTTTGTCAGGAAGATTAGCCAGGTGGCAAGTTTTACTCTCAAA
ATACGACATTATGTACATAAGTCAAAAGGCTATAAAAGGTAGCACGATAGCAAACTTTTTAACAA
GCCACGCGATGGAAGACTATCAGCCCTTAAACTTTGACTTCCCTGATGAGGATATGATGTCCATA
TCTAAGGAAGAAGACACTATTGAATATGGCTCCTTATAGAAAATGTACTTTGATGGAGCTTCAAA
TGCATTCGG
Found at i:146239 original size:14 final size:13
Alignment explanation
Indices: 146213--146256 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
146203 TCTTTTTTCT
146213 AAAAAACAAAAAA
1 AAAAAACAAAAAA
146226 AAAACAACACAAAAA
1 AAAA-AACA-AAAAA
*
146241 AAAGAAAGAAAAAA
1 AAA-AAACAAAAAA
146255 AA
1 AA
146257 GAAAGGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 11 0.41
16 1 0.04
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:146252 original size:13 final size:13
Alignment explanation
Indices: 146222--146266 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
146212 TAAAAAACAA
* *
146222 AAAAAAAACAACAC
1 AAAAAAAAGAA-AG
146236 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
146249 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
146262 GAAAA
1 AAAAA
146267 GAACATGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:146265 original size:14 final size:13
Alignment explanation
Indices: 146222--146266 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
146212 TAAAAAACAA
* *
146222 AAAAAAAACAACAC
1 AAAAAAAAGAA-AG
146236 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
146249 AAAAAAAAGAAAGG
1 AAAAAAAAGAAA-G
146263 AAAA
1 AAAA
146267 GAACATGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 13 0.46
14 15 0.54
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:147324 original size:61 final size:61
Alignment explanation
Indices: 147245--147695 Score: 572
Period size: 61 Copynumber: 7.4 Consensus size: 61
147235 TTATCCTTTC
* * * * * * *
147245 AGTCCTCAAAGAGCAGGACGTCATCTCCTTTCAAAGCCTACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
147306 AGTCTTCAAAGAGCAGGACACCTTTTTCTTTTAAAACCCACACAAGTTGGTGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
147367 AGTCCTCAAAGAGCAGGAC-CCATTTTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
147428 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
147488 CAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACATTCT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
147550 AGTCCTCAAAGAGCAGG--GCAC-TTTCCTTTTAAAGCCCACCCAAGTTAGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * ** *
147609 AGTCCTCAAAGAGCAGGACACTTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
147670 AGTCC-CTAAAGAGCAGGACGCACTTT
1 AGTCCTC-AAAGAGCAGGACGC-CTTT
147696 ATTTCCTTTT
Statistics
Matches: 342, Mismatches: 38, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
59 53 0.15
60 5 0.01
61 278 0.81
62 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:147777 original size:42 final size:42
Alignment explanation
Indices: 147677--147904 Score: 176
Period size: 42 Copynumber: 5.7 Consensus size: 42
147667 TCTAGTCCCT
* * *
147677 AAAGAGCAGGACGCACTTTATTTCCTTTTC-CCTTTGTCCTT
1 AAAGAGCAGGACGCATTTTATTTCTTTTTCTCCTTTGTCCTC
* * *
147718 AAAGAGCATGATGCATTTTATTTCTTTTTCTCCCTTGTCCTC
1 AAAGAGCAGGACGCATTTTATTTCTTTTTCTCCTTTGTCCTC
* * * **
147760 AAAGAGTAGGACACATTTAATTTCCTCAATT-TCCTTTGTCCTC
1 AAAGAGCAGGACGCATTTTATTT-CT-TTTTCTCCTTTGTCCTC
*
147803 AAAGAGCAGGACGCATTTTA--T-TTTTT-TCGTTTGTCCTC
1 AAAGAGCAGGACGCATTTTATTTCTTTTTCTCCTTTGTCCTC
* * * *
147841 GAAGAGCA-G--G-A-TGTA-CTCCTTTT-TCCTTTGTCCTC
1 AAAGAGCAGGACGCATTTTATTTCTTTTTCTCCTTTGTCCTC
* *
147876 AAGGAGCAGGACCCATTTTATTCTCTTTT
1 AAAGAGCAGGACGCATTTTATT-TCTTTT
147905 ACTTTATCCT
Statistics
Matches: 145, Mismatches: 30, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
33 3 0.02
34 2 0.01
35 22 0.15
36 1 0.01
37 1 0.01
38 20 0.14
39 2 0.01
40 3 0.02
41 27 0.19
42 32 0.22
43 30 0.21
44 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (42 bp):
AAAGAGCAGGACGCATTTTATTTCTTTTTCTCCTTTGTCCTC
Found at i:147871 original size:35 final size:35
Alignment explanation
Indices: 147825--147949 Score: 103
Period size: 35 Copynumber: 3.5 Consensus size: 35
147815 GCATTTTATT
*
147825 TTTTTCGTTTGTCCTCGAAGAGCAGGATGTACTCC
1 TTTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCC
* *
147860 TTTTTCCTTTGTCCTC-AAGGAGCAGGACCCATTTTA-TTC
1 TTTTTCCTTTGTCCTCGAA-GAGCAGG----A-TGTACTCC
* * * *
147899 TCTTTTACTTTATCCTCGATGAGCAGGATGTGCTCC
1 T-TTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCC
147935 -TTTTCCTTTGTCCTC
1 TTTTTCCTTTGTCCTC
147950 AAATAGCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
34 15 0.21
35 24 0.34
36 3 0.04
39 4 0.06
40 23 0.33
41 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (35 bp):
TTTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCC
Found at i:147978 original size:75 final size:75
Alignment explanation
Indices: 147789--147957 Score: 229
Period size: 73 Copynumber: 2.3 Consensus size: 75
147779 ATTTCCTCAA
* * *
147789 TTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTATT-T-TTTT-CGTTTGTCCTCGAAGAGCAGG
1 TTTCCTTTGTCCTCAAAGAGCAGGACCCATTCTATTCTCTTTTAC-TTTATCCTCGAAGAGCAGG
147851 ATGTACTCCTT
65 ATGTACTCCTT
* * *
147862 TTTCCTTTGTCCTCAAGGAGCAGGACCCATTTTATTCTCTTTTACTTTATCCTCGATGAGCAGGA
1 TTTCCTTTGTCCTCAAAGAGCAGGACCCATTCTATTCTCTTTTACTTTATCCTCGAAGAGCAGGA
*
147927 TGTGCTCC-T
66 TGTACTCCTT
*
147936 TTTCCTTTGTCCTCAAATAGCA
1 TTTCCTTTGTCCTCAAAGAGCA
147958 TGATGCCCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
73 34 0.40
74 22 0.26
75 29 0.34
76 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (75 bp):
TTTCCTTTGTCCTCAAAGAGCAGGACCCATTCTATTCTCTTTTACTTTATCCTCGAAGAGCAGGA
TGTACTCCTT
Found at i:148604 original size:30 final size:29
Alignment explanation
Indices: 148568--148662 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 29
148558 TATTCTTCAT
148568 TGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATT-TGGGTTTTACCTAGA
* * *
148598 TGTATCGATGCA--T---TATT--C-A-T
1 TGTATCGATACATTTGGGTTTTACCTAGA
148618 TGTATCGATACATTTTGGGTTTTACCTAGA
1 TGTATCGATACA-TTTGGGTTTTACCTAGA
148648 TGTATCGATACATTT
1 TGTATCGATACATTT
148663 CTCAATGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 21
0.64 0.08 0.28
Matches are distributed among these distances:
20 11 0.22
21 1 0.02
22 1 0.02
23 1 0.02
24 3 0.06
26 3 0.06
27 1 0.02
28 1 0.02
29 4 0.08
30 23 0.47
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (29 bp):
TGTATCGATACATTTGGGTTTTACCTAGA
Found at i:148617 original size:50 final size:49
Alignment explanation
Indices: 148548--148683 Score: 209
Period size: 50 Copynumber: 2.7 Consensus size: 49
148538 TTTCACAATT
*
148548 TGTATCGATATATTCTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTGGGTTTTACCTAGA
* *
148598 TGTATCGATGCATTATTCATTGTATCGATACATTTTGGGTTTTACCTAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTGGGTTTTACCTAGA
*
148648 TGTATCGATACATTTCTCAATGTATCGATACATTCT
1 TGTATCGATACATTT-TCATTGTATCGATACATTCT
148684 AGCATTTTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (49 bp):
TGTATCGATACATTTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
Found at i:151144 original size:79 final size:79
Alignment explanation
Indices: 151038--151300 Score: 323
Period size: 79 Copynumber: 3.3 Consensus size: 79
151028 ATTTTCCACC
*
151038 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAAC
151103 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * * * * * *
151117 ATTGGGGATACTCCAACCTCGTGATTTTTGAGGGGATACTCTAAGCCTGGCTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAAC
* * *
151182 AACGATTTTCCATA
66 ATCAATTTTTCATA
* * * * * *
151196 ATCGGGAACACTCCAACCCCGTTA-TTTC-AAGGGGATACTCCAACCTTAGTTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAACCCTGGCTTTATTTCTAAAA
**
151259 CATCAATTTTTCACC
65 CATCAATTTTTCATA
*
151274 ATCGGAGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
151301 CTAAGGAGGT
Statistics
Matches: 150, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
77 1 0.01
78 60 0.40
79 89 0.59
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAAC
ATCAATTTTTCATA
Found at i:151314 original size:157 final size:158
Alignment explanation
Indices: 151028--151315 Score: 384
Period size: 157 Copynumber: 1.8 Consensus size: 158
151018 CAAAACACTA
* * * *
151028 ATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTA
1 ATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGCTTTA
* * * * * * *
151093 TTTCTAAAACATCAATTTTTCATAATTGGGGATACTCCAACCTCGTGATTTTTGAGGGGATACTC
66 TTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCCGTGATTTCTAAGGGGATACTC
151158 TAAGCCTGGCTTTATTTCTAAAACAACG
131 TAAGCCTGGCTTTATTTCTAAAACAACG
* ** *
151186 ATTTTCCATAATCGGGAACACTCCAACCCCGTTA-TTTC-AAGGGGATACTCCAACCTTAGTTTT
1 ATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAACCCCAGCTTT
* *
151249 ATTTCCAAAACATCAATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTCTAAGGAGG-TAC
65 ATTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCCGTGATTTCTAAGG-GGATAC
151313 TCT
129 TCT
151316 GACCCCGTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
156 2 0.02
157 77 0.69
158 32 0.29
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (158 bp):
ATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGCTTTA
TTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCCGTGATTTCTAAGGGGATACTC
TAAGCCTGGCTTTATTTCTAAAACAACG
Found at i:151326 original size:78 final size:78
Alignment explanation
Indices: 151009--151351 Score: 298
Period size: 79 Copynumber: 4.3 Consensus size: 78
150999 TCATTGATGT
* * * *
151009 TTTTATTTTCAAAACA-CTAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAA-GG
1 TTTTATTTCCAAAACATC-AATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGG
151072 GATACTCCAACCCCGG
64 GATACTCCAACCCC-G
* * * * * * * *
151088 CTTTATTTCTAAAACATCAATTTTTCATAATTGGGGATACTCCAACCTCGTGATTTTTGAGGGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGA
* **
151153 TACTCTAAGCCTGG
66 TACTCCAA-CCCCG
* * * * * * * *
151167 CTTTATTTCTAAAACAACGATTTTCCATAATCGGGAACACTCCAACCCCGTTATTTC-AAGGGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGA
**
151231 TACTCCAACCTTAG
66 TACTCCAACC-CCG
* *
151245 TTTTATTTCCAAAACATCAATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTCTAAGGAGG
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGG-GG
**
151310 -TACTCTGACCCCG
65 ATACTCCAACCCCG
* * *
151323 TTTTTATCTCCAAAATATTAAATTTTTCA
1 -TTTTATTTCCAAAACA-TCAATTTTTCA
151352 TCGAGAGAGG
Statistics
Matches: 212, Mismatches: 44, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
77 2 0.01
78 67 0.32
79 128 0.60
80 15 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGA
TACTCCAACCCCG
Found at i:151329 original size:157 final size:158
Alignment explanation
Indices: 151007--151329 Score: 368
Period size: 157 Copynumber: 2.1 Consensus size: 158
150997 TTTCATTGAT
* * *
151007 GTTTTTATTTTCAAAACACTAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGG
1 GTTTTTATTTTCAAAACACTAATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAAGG
* * * * * *
151072 GATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATTGGGGATACTCCAACCTC
66 GATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCC
* * * *
151137 GTGATTTTTGAGGGGATACTCTAAGCCT
131 GTGATTTCTAAGGGGATACTCTAACCCC
** * *
151165 GGCTTTA-TTTCTAAAACAAC-GATTTTCCATAATCGGGAACACTCCAACCCCGTTA-TTTC-AA
1 GTTTTTATTTTC-AAAAC-ACTAATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAA
** * *
151226 GGGGATACTCCAACCTTAGTTTTATTTCCAAAACATCAATTTTTCACCATCGGAGATACTCCAAC
64 -GGGATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAAC
* *
151291 CCCGTTATTTCTAAGGAGG-TACTCTGACCCC
128 CCCGTGATTTCTAAGG-GGATACTCTAACCCC
151322 GTTTTTAT
1 GTTTTTAT
151330 CTCCAAAATA
Statistics
Matches: 135, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
156 2 0.01
157 89 0.66
158 42 0.31
159 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (158 bp):
GTTTTTATTTTCAAAACACTAATTTTCCACAATCGGGAACACTCCAACCCCGTTATTTTCGAAGG
GATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCC
GTGATTTCTAAGGGGATACTCTAACCCC
Found at i:153673 original size:82 final size:84
Alignment explanation
Indices: 153545--153725 Score: 249
Period size: 82 Copynumber: 2.2 Consensus size: 84
153535 TGGCATTTCT
* * *
153545 TTTCAAAGTCCACAACTCCGTGACATCTTTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGT
1 TTTCAAAGTCCACAACTCCATGACATCTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGT
*
153610 CTATAACTCCGTGGCATCC
66 CCATAACTCCGTGGCATCC
* * *
153629 TTTC-AAGTTCACAACTCCATGTCATC-CTTTTAAGGTCCACAACTCCGTGGCATCCTTTTAAGT
1 TTTCAAAGTCCACAACTCCATGACATCTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGT
* *
153692 CCATAACTCCGTGGAACCC
66 CCATAACTCCGTGGCATCC
* *
153711 TTGCAAAGCCCACAA
1 TTTCAAAGTCCACAA
153726 GTCAGTGGCA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
82 53 0.63
83 27 0.32
84 4 0.05
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (84 bp):
TTTCAAAGTCCACAACTCCATGACATCTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGT
CCATAACTCCGTGGCATCC
Found at i:153686 original size:55 final size:54
Alignment explanation
Indices: 153519--153701 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 54
153509 ACACCTCTTC
* * * *
153519 AAAGTCCATGA-TCCAGTGGCATTTCTTTTCAAAGTCCACAACTCCGTGACATCTTTTTT
1 AAAGTCCATAACTCCA-TGGCA-TCCTTTT--AAGTCCACAACTCCGTGGCATC--CTTT
* * *
153578 AAAGTCCATAACTCCGTGGCATCCTTTTAAGTCTATAACTCCGTGGCATCCTTT
1 AAAGTCCATAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
* * * *
153632 CAAGTTCACAACTCCATGTCATCCTTTTAAGGTCCACAACTCCGTGGCATCCTTT
1 AAAGTCCATAACTCCATGGCATCCTTTTAA-GTCCACAACTCCGTGGCATCCTTT
*
153687 TAAGTCCATAACTCC
1 AAAGTCCATAACTCC
153702 GTGGAACCCT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
54 28 0.27
55 34 0.32
56 19 0.18
58 6 0.06
59 15 0.14
60 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (54 bp):
AAAGTCCATAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
Done.