Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009041.1 Hibiscus syriacus cultivar Beakdansim tig00112450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73810
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:2124 original size:13 final size:13
Alignment explanation
Indices: 2106--2130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2096 AATCAAAAAC
2106 ATCAAATTTAGAA
1 ATCAAATTTAGAA
2119 ATCAAATTTAGA
1 ATCAAATTTAGA
2131 TTTTTGATTT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:2567 original size:23 final size:22
Alignment explanation
Indices: 2539--2620 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
2529 GCATTGCCTT
2539 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
2561 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
2583 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
2606 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2621 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:4937 original size:20 final size:20
Alignment explanation
Indices: 4910--4978 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
4900 GTTGTGGTTA
4910 AAAT-AAAAAAATAAGAATT
1 AAATAAAAAAAATAAGAATT
* *
4929 AAATAAAAAAAAAAATAATT
1 AAATAAAAAAAATAAGAATT
* *
4949 AAATAAACAAATTAAAGAGATT
1 AAATAAAAAAAAT-AAGA-ATT
4971 AAGATAAA
1 AA-ATAAA
4979 GAGAAACTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.10
20 23 0.57
21 3 0.08
22 5 0.12
23 5 0.12
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.20
Consensus pattern (20 bp):
AAATAAAAAAAATAAGAATT
Found at i:5662 original size:63 final size:66
Alignment explanation
Indices: 5539--5727 Score: 199
Period size: 63 Copynumber: 2.8 Consensus size: 66
5529 TAAAACATCT
* ** *
5539 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTA-A-AAATAATATAATAT-
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAGAATA-AATATA
5600 T-C
64 TCC
5602 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAATATAAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAG----A-AT--AA
5667 ATATATCC
59 ATATATCC
* *
5675 TAAAACTTAATTAAAATACTAAAAGCCTATTTAAACTAAAATACAAAGATAAA
1 TAAATCCTAATTAAAATACTAAAA-CCTATTTAAACTAAAATACAAAGATAAA
5728 ATATAATGTT
Statistics
Matches: 107, Mismatches: 6, Indels: 15
0.84 0.05 0.12
Matches are distributed among these distances:
62 5 0.05
63 37 0.35
64 1 0.01
65 3 0.03
69 1 0.01
70 2 0.02
71 5 0.05
72 2 0.02
73 23 0.21
74 28 0.26
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (66 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGAATAAATATATC
C
Found at i:5687 original size:73 final size:76
Alignment explanation
Indices: 5609--5754 Score: 237
Period size: 74 Copynumber: 2.0 Consensus size: 76
5599 TTCTAAATCC
5609 TAATTAAAATACTAAAA-CCTATTTAAACTAAAATACAAAGATAAAGATA-AAT-ATAAAAATA-
1 TAATTAAAATACTAAAAGCCTATTTAAACTAAAATACAAAGATAAA-ATATAATGATAAAAATAT
5670 TATCCTAAAACT
65 TATCCTAAAACT
* *
5682 TAATTAAAATACTAAAAGCCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATT
1 TAATTAAAATACTAAAAGCCTATTTAAACTAAAATACAAAGATAAAATATAATGATAAAAATATT
5747 ATCCTAAA
66 ATCCTAAA
5755 TTTGAGTTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
73 20 0.30
74 31 0.46
75 7 0.10
76 9 0.13
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.29
Consensus pattern (76 bp):
TAATTAAAATACTAAAAGCCTATTTAAACTAAAATACAAAGATAAAATATAATGATAAAAATATT
ATCCTAAAACT
Found at i:13100 original size:21 final size:20
Alignment explanation
Indices: 13068--13115 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
13058 GTTATGGTTA
*
13068 AAATAAAAAAAATAAGAATT
1 AAATAAAAAAAAAAAGAATT
*
13088 AAATAAAAGAAAAAAATAATT
1 AAATAAAA-AAAAAAAGAATT
13109 AAATAAA
1 AAATAAA
13116 CAAATTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAATAAAAAAAAAAAGAATT
Found at i:13630 original size:21 final size:21
Alignment explanation
Indices: 13606--13664 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
13596 AGCCTTCAAA
13606 ATCTTAAAAAC-AAGTTAAAAC
1 ATCTTAAAAACTAA-TTAAAAC
**
13627 ATCTTAAATCCTAATTAAAAC
1 ATCTTAAAAACTAATTAAAAC
*
13648 A-CTT-AAAACTATTTAAA
1 ATCTTAAAAACTAATTAAA
13665 CTAAAATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 10 0.31
20 3 0.09
21 17 0.53
22 2 0.06
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (21 bp):
ATCTTAAAAACTAATTAAAAC
Found at i:18527 original size:19 final size:20
Alignment explanation
Indices: 18477--18527 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
18467 GAAACCCCTT
* *
18477 TGAAAATATATGATTTTTGA
1 TGAAAATACATGATTTTTAA
*
18497 TGAAAATGCATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
18516 TGAAGATACATG
1 TGAAAATACATG
18528 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:23020 original size:17 final size:17
Alignment explanation
Indices: 22987--23021 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
22977 CGTTAGACAA
22987 CTATTTTTAGTGAAAAAC
1 CTATTTTTAGT-AAAAAC
23005 CTATTTTTAGCTAAAAA
1 CTATTTTTAG-TAAAAA
23022 TTATTTAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
CTATTTTTAGTAAAAAC
Found at i:25817 original size:324 final size:324
Alignment explanation
Indices: 25211--25792 Score: 807
Period size: 324 Copynumber: 1.8 Consensus size: 324
25201 ATTTGTAGGT
* * ** *
25211 TTTGAAATGAAGTTTATGATGTGATTTATATAGTTTGGAGTAAATTACAAAAAATAGAAATAATT
1 TTTGAAATGAAATTTATGATGTAATTTATATAGTTTAAAGTAAATTAAAAAAAATAGAAATAATT
**
25276 ATGGGCTAATTTAGGATAAAAATAAACTTTTAAGAACTAAATTGAACAAACATGAAATTGAAATT
66 ATGGGCTAATTTAGGATAAAAATAAACTTTTAAGAACTAAATTGAACAAACATGAAATTGAAAAC
* * * *
25341 TGAAACTGAAATAAATTAAACAATACACATGGATCAAATTGAAACAATTGCAAAATGCAAAACTG
131 TGAAACTGAAATAAATTAAACAACACACAAGGATCAAATTGAAACAATTGCAAAATACAAAACTA
* * ** *
25406 AAATTAATATCAAATTGGACTAAATTGCATTCATTTTAAAACTTGGTGAACGAAATTTTATAAGG
196 AAATTAATATCAAATTAGACTAAATTACATTCATTTTAAAACTTGGTGAACGAAAAATTATAACG
**
25471 ACTAAATTGCATTCATTTTAAAACTTGGTGAACTGAAATGAAGTTTATGATGTGATTTATATAG
261 ACTAAATAACATTCATTTTAAAACTTGGTGAACTGAAATGAAGTTTATGATGTGATTTATATAG
* *
25535 TTTGAAATGAAATTTATGATTTAATTTATAGT-GTTTAAAGTATATTAAAAAAAATAGAAATAAT
1 TTTGAAATGAAATTTATGATGTAATTTATA-TAGTTTAAAGTAAATTAAAAAAAATAGAAATAAT
* *
25599 TATGGG-TCAATTTCA-GATAAAAATAAACTTTTAAGGACTAAATTGAACAAATATGAAATT-AC
65 TATGGGCT-AATTT-AGGATAAAAATAAACTTTTAAGAACTAAATTGAACAAACATGAAATTGA-
* * * * *
25661 AAACTGAAATTTAAATAAATTAAACAACACATAAGGATCAAATTGAAACAATTGTAAAATATAAA
127 AAACTGAAACTGAAATAAATTAAACAACACACAAGGATCAAATTGAAACAATTGCAAAATACAAA
* * **
25726 GCTAAAATTAATATCAAATTAGACTAAATTACATTTATTTTAAAGGTTGGTGAAC-AAAAATT-T
192 ACTAAAATTAATATCAAATTAGACTAAATTACATTCATTTTAAAACTTGGTGAACGAAAAATTAT
25789 AACG
257 AACG
25793 TCTTAATCAA
Statistics
Matches: 225, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
322 4 0.02
323 7 0.03
324 212 0.94
325 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.33
Consensus pattern (324 bp):
TTTGAAATGAAATTTATGATGTAATTTATATAGTTTAAAGTAAATTAAAAAAAATAGAAATAATT
ATGGGCTAATTTAGGATAAAAATAAACTTTTAAGAACTAAATTGAACAAACATGAAATTGAAAAC
TGAAACTGAAATAAATTAAACAACACACAAGGATCAAATTGAAACAATTGCAAAATACAAAACTA
AAATTAATATCAAATTAGACTAAATTACATTCATTTTAAAACTTGGTGAACGAAAAATTATAACG
ACTAAATAACATTCATTTTAAAACTTGGTGAACTGAAATGAAGTTTATGATGTGATTTATATAG
Found at i:25991 original size:31 final size:31
Alignment explanation
Indices: 25898--25997 Score: 105
Period size: 31 Copynumber: 3.2 Consensus size: 31
25888 CATGTAGAAC
*
25898 ATGTATGTATGTATGTATAATATATGCATTGT
1 ATGTATGTATGTATGTATAATGTATGCA-TGT
* * * *
25930 ATATATG-ATGCATGTAGATTGTA-GAACATGT
1 ATGTATGTATGTATGTATAATGTATG--CATGT
*
25961 ATGTATGTGTGTATGTATAATGTATGCATGT
1 ATGTATGTATGTATGTATAATGTATGCATGT
25992 ATGTAT
1 ATGTAT
25998 ACAGATAGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
30 1 0.02
31 32 0.59
32 20 0.37
33 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.43
Consensus pattern (31 bp):
ATGTATGTATGTATGTATAATGTATGCATGT
Found at i:26355 original size:20 final size:20
Alignment explanation
Indices: 26261--26629 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
26251 GATTTTCCAT
* ** *
26261 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
26281 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
26301 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26321 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
26341 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
26361 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26381 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
26401 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26421 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
26441 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26461 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
26481 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26501 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
*
26521 AATCGCAACGCTTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26541 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
26561 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
26581 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
26601 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
26621 AATCACAAC
1 AATCGCAAC
26630 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:27349 original size:24 final size:24
Alignment explanation
Indices: 27310--27356 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27300 AAATTTGGTC
27310 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
27334 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
27357 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:27548 original size:12 final size:12
Alignment explanation
Indices: 27531--27555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27521 ATATAATCCT
27531 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27543 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27555 G
1 G
27556 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:29852 original size:19 final size:19
Alignment explanation
Indices: 29830--30084 Score: 316
Period size: 19 Copynumber: 14.4 Consensus size: 19
29820 CGGAAAATAC
*
29830 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
29849 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
29863 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
29883 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
29897 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
29916 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
29930 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
29949 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
29968 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
29987 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
30006 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
30025 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
30039 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
30058 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
30077 AATCGCAA
1 AATCGCAA
30085 CGAGATAATC
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
14 38 0.18
15 1 0.00
16 14 0.07
17 12 0.06
18 2 0.01
19 127 0.61
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:29917 original size:33 final size:34
Alignment explanation
Indices: 29830--30084 Score: 295
Period size: 33 Copynumber: 7.2 Consensus size: 34
29820 CGGAAAATAC
* *
29830 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
29863 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
* *
29897 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
29930 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
29968 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
30006 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
30038 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
30077 AATCGCAA
1 AATCGCAA
30085 CGAGATAATC
Statistics
Matches: 200, Mismatches: 8, Indels: 23
0.87 0.03 0.10
Matches are distributed among these distances:
32 2 0.01
33 84 0.42
34 30 0.15
35 5 0.03
36 2 0.01
37 2 0.01
38 73 0.37
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:29961 original size:52 final size:52
Alignment explanation
Indices: 29897--30106 Score: 339
Period size: 52 Copynumber: 3.9 Consensus size: 52
29887 GCAACGAGAG
* *
29897 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
29949 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
30006 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
* *
30058 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
30107 TATAAACGCA
Statistics
Matches: 149, Mismatches: 4, Indels: 10
0.91 0.02 0.06
Matches are distributed among these distances:
52 93 0.62
54 5 0.03
55 6 0.04
57 45 0.30
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:30010 original size:90 final size:88
Alignment explanation
Indices: 29830--30084 Score: 303
Period size: 90 Copynumber: 2.9 Consensus size: 88
29820 CGGAAAATAC
* *
29830 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAA-GCGAAATG-AAATCGCAACGA-AAAAATCGCAATGC-GAAATGAAAATCGCAATGC
*
29892 G--A-GAGAATCGCAATGCGAAATGAA
62 GAAATGAAAATCGCAATGCGAAATGAA
*
29916 AATCGCAA-CGACA-G-AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATG
1 AATCGCAAGCGAAATGAAATCGCAA--CG-AA--AAAATCGCAATGCGAAATGAAAATCGCAATG
29978 CGAAATGAAAATCGCAATGCGAAATGAA
61 CGAAATGAAAATCGCAATGCGAAATGAA
*
30006 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAA-GCGAAATG-AAATCGCAACGAAAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
30071 AATGAAAATCGCAA
64 AATGAAAATCGCAA
30085 CGAGATAATC
Statistics
Matches: 147, Mismatches: 6, Indels: 28
0.81 0.03 0.15
Matches are distributed among these distances:
81 7 0.05
83 2 0.01
84 4 0.03
85 17 0.12
86 21 0.14
87 2 0.01
89 1 0.01
90 76 0.52
92 6 0.04
93 3 0.02
95 8 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (88 bp):
AATCGCAAGCGAAATGAAATCGCAACGAAAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
TGAAAATCGCAATGCGAAATGAA
Found at i:30221 original size:19 final size:19
Alignment explanation
Indices: 30113--30213 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
30103 AAATTATAAA
30113 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
30132 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
30152 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
30168 CG--TTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
30184 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
30203 CGCATTGCGAT
1 CGCATTGCGAT
30214 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.39
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:30339 original size:14 final size:14
Alignment explanation
Indices: 30320--30356 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30310 CATCAATTAC
30320 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
30334 ACAAATCATCTTTT
1 ACAAATCAACTTTT
30348 ACAAATCAA
1 ACAAATCAA
30357 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:32334 original size:14 final size:14
Alignment explanation
Indices: 32315--32371 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
32305 GCGAAATGAA
*
32315 AATCGCAACGACAG
1 AATCGCAACGAAAG
32329 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
32346 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
32362 AATCGCAACG
1 AATCGCAACG
32372 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:32342 original size:33 final size:33
Alignment explanation
Indices: 32296--32388 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
32286 GCGAAACCAA
*
32296 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
32329 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
32362 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
32389 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:32353 original size:19 final size:19
Alignment explanation
Indices: 32259--32393 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
32249 TAGTTTACTT
* *
32259 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
32279 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
32298 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
32317 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
32331 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
32350 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
32364 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
32383 TCGCAATGCGA
1 TCGCAACGCGA
32394 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:32411 original size:19 final size:18
Alignment explanation
Indices: 32389--32517 Score: 112
Period size: 19 Copynumber: 7.3 Consensus size: 18
32379 AAAATCGCAA
32389 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
32408 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
32422 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
32441 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
32455 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
32474 TGCGATTTTTGTTTCGCGT
1 TGCGA-TTTTGTTTCGCGT
*
32493 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
32513 TGCGA
1 TGCGA
32518 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 6 0.07
19 40 0.44
20 17 0.19
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:32431 original size:33 final size:33
Alignment explanation
Indices: 32389--32480 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
32379 AAAATCGCAA
32389 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
32422 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
32455 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
32481 TTTGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:32751 original size:92 final size:93
Alignment explanation
Indices: 32649--33019 Score: 703
Period size: 92 Copynumber: 4.0 Consensus size: 93
32639 TGGCAGCAAC
32649 CTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
32713 CAGAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
32741 CTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
32805 CAGAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
*
32833 CTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
32897 CAGAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
32925 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
*
32990 CAGAATTGGCAGCAACCGAATAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
33018 CT
1 CT
33020 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
91 4 0.01
92 205 0.75
93 64 0.23
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
CAGAATTGGCAGCAACCGAACAAATTTA
Found at i:34745 original size:14 final size:14
Alignment explanation
Indices: 34726--34815 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
34716 TTGAAATGAA
34726 AATCGCAACGAGAG
1 AATCGCAACGAGAG
34740 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
34757 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
34773 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
34792 AATCGCAACGAGAG
1 AATCGCAACGAGAG
34806 AATCGCAACG
1 AATCGCAACG
34816 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:34763 original size:33 final size:33
Alignment explanation
Indices: 34718--34832 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
34708 TCTTTTGGTT
34718 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
34751 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
34784 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
34817 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
34833 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:34764 original size:19 final size:18
Alignment explanation
Indices: 34725--34837 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
34715 GTTGAAATGA
34725 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
34740 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
34757 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
34773 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
34790 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
34806 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
34823 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
34838 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:34868 original size:14 final size:14
Alignment explanation
Indices: 34849--34903 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
34839 TTTGGTTTCG
34849 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
34863 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
34882 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
34896 CGTTGCGA
1 CGTTGCGA
34904 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:34881 original size:33 final size:33
Alignment explanation
Indices: 34833--34903 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
34823 AAAATCGCAA
**
34833 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
34866 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
34899 TGCGA
1 TGCGA
34904 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:34911 original size:33 final size:33
Alignment explanation
Indices: 34844--34925 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
34834 GCGATTTTGG
***
34844 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
34877 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
34910 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
34926 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:34930 original size:20 final size:20
Alignment explanation
Indices: 34856--34944 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
34846 TCGCGTTGCG
34856 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
34876 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
34889 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
34909 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
34929 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
34945 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:35066 original size:33 final size:33
Alignment explanation
Indices: 35024--35094 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
35014 AATACTAACT
*
35024 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
35057 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
35090 TGAAA
1 TGAAA
35095 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:35328 original size:22 final size:22
Alignment explanation
Indices: 35276--35330 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
35266 TGGTTGTGAG
**
35276 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
35298 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
35320 GGATTTCTTCG
1 GGATTTCTTCG
35331 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:35501 original size:20 final size:20
Alignment explanation
Indices: 35476--35668 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
35466 CTTTAAATAT
35476 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
35496 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
35518 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
35537 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
35557 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
35577 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
35597 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
35617 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
35637 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
35657 CGCGTTGCGATT
1 CGCGTTGCGATT
35669 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:35663 original size:60 final size:60
Alignment explanation
Indices: 35476--35668 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
35466 CTTTAAATAT
**
35476 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
35537 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
35597 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
35657 CGCGTTGCGATT
1 CGCGTTGCGATT
35669 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:35749 original size:20 final size:20
Alignment explanation
Indices: 35724--35775 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
35714 AAGAATCGCG
*
35724 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
35744 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
35764 TTGCGATTCTGG
1 TTGCGATTCTGG
35776 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:36904 original size:42 final size:41
Alignment explanation
Indices: 36829--36925 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 41
36819 AGTTGGATAT
*
36829 ATATATATATTAAAAATTTAAATTAAATTATT-AATCATTTA
1 ATATATATAATAAAAATTTAAATT-AATTATTAAATCATTTA
* *
36870 ATATATCATAATAATAATTTAAACTT-ATTGATTAAAATCATTTT
1 ATATAT-ATAATAAAAATTTAAA-TTAATT-ATT-AAATCATTTA
36914 ATATAATATAAT
1 ATAT-ATATAAT
36926 TTCTAATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
41 9 0.19
42 17 0.36
43 2 0.04
44 17 0.36
45 2 0.04
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (41 bp):
ATATATATAATAAAAATTTAAATTAATTATTAAATCATTTA
Found at i:37078 original size:39 final size:39
Alignment explanation
Indices: 37002--37099 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
36992 TTAAAATTTT
* * *
37002 AATCTAATGATCACAATTTATATACAAAACAATTTTATC
1 AATCTAATGATCATAATTAATATACAAAACAACTTTATC
* * ** *
37041 AATCTAATGATCATAATTAATGTAGAAAGTAACTTTATT
1 AATCTAATGATCATAATTAATATACAAAACAACTTTATC
* *
37080 AATCTAATAATTATAATTAA
1 AATCTAATGATCATAATTAA
37100 ATTTATTACC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (39 bp):
AATCTAATGATCATAATTAATATACAAAACAACTTTATC
Found at i:37112 original size:26 final size:29
Alignment explanation
Indices: 37074--37134 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 29
37064 AGAAAGTAAC
* *
37074 TTTATTAATCTAATAATTATAATT-A-AA
1 TTTATTAACCTAAGAATTATAATTAATAA
*
37101 TTTATT-ACCTAAGGATTATAATTAATAA
1 TTTATTAACCTAAGAATTATAATTAATAA
37129 TTTATT
1 TTTATT
37135 TTAAATTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 14 0.48
27 7 0.24
28 8 0.28
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTATTAACCTAAGAATTATAATTAATAA
Found at i:38431 original size:139 final size:138
Alignment explanation
Indices: 38160--39036 Score: 1022
Period size: 139 Copynumber: 6.3 Consensus size: 138
38150 TAAATCGAAA
** * * * *
38160 ATTAAAATGGAACCTCTAGCATAAAGGCGAGGACCAAATTAAAGATTCACCT-AATTTAAGGACT
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
* * * ** * *
38224 AAAGTGAAATGAATCTAAAAT-AGAGTTTCTAATTATTAATCCTAACCAATTTTAACAAACTATT
66 AAGGTGAAATTAAACTAAAATGA-AGGCTCTAA-TATTAATCCTAACCAATTTTAACAAATTATC
38288 GGATCAAATG
129 GGATCAAATG
* * * *
38298 ATTCAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTTTGCTAAATTAAAGGAAT
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
* * * * * *
38363 AAGGTGAAATCAAACTTGAAATGGAGGCTCTGATATTAATCATAACCAATTTTAGCAAATTATCG
66 AAGGTGAAATTAAAC-TAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATCG
*
38428 GATCAAATA
130 GATCAAATG
*** * * *
38437 ATTAAAATGGAACCTCATACATAAAAGCGAGGACCAAATTAAAAATTCACCTAATTTAAA-GACT
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
* * *
38501 AAAGTGAAATTAAACCTAAAATGAAGTCTCTAATATTAATCCTAACCAATTTTAACAAATTATCA
66 AAGGTGAAATTAAA-CTAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATCG
38566 GATCAAATG
130 GATCAAATG
* * * *
38575 ATTAAAATGGAACCTCGAGCATAAATGTGAGGACAAAATTAAAAATTCTTTCTAAATTAAAGGAC
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTC-TCCTAAATTAAAGGAC
* * * * * * *
38640 TAAGTTGCAATTAAAACTAAAATGAATGTTCTAATATTAATCTTAAACAATTTTAACAAATTATT
65 TAAGGTGAAATT-AAACTAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATC
* *
38705 GAATCGAATG
129 GGATCAAATG
* * *
38715 ATTAAAAAGGAACCTCGGGCATAAATGTGAGGATCAAATTAAAAATTCTCCTAAATTAAAGGACT
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
* * * *
38780 AAGGTGAAATTAAATCTAAAATGAACGCTCTAATATTAATCTTAACGAATTTTAACAAATTATCA
66 AAGGTGAAATTAAA-CTAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATCG
* *
38845 TATCGAATG
130 GATCAAATG
* ** * * * **
38854 ATTGAAATAAAAACTCGGGCATAAATGCAAGGACCAAATTAAAAATTCTCCTAAATTATAGGGTT
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
* * * *
38919 AAGGTGAAATTAAACCTGAAATGTAGGCTCTAATATTAATCCTAACAAATTTCAACAAATTATCG
66 AAGGTGAAATTAAA-CTAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATCG
*
38984 AATCAAATG
130 GATCAAATG
* * *
38993 ATTAAAATGAAACCTCGGGAATAAATGTGAGGACCAAATTAAAA
1 ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAA
39037 TTTCACTAAT
Statistics
Matches: 626, Mismatches: 105, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
138 154 0.25
139 352 0.56
140 117 0.19
141 3 0.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (138 bp):
ATTAAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACT
AAGGTGAAATTAAACTAAAATGAAGGCTCTAATATTAATCCTAACCAATTTTAACAAATTATCGG
ATCAAATG
Found at i:38889 original size:417 final size:416
Alignment explanation
Indices: 38160--39058 Score: 1128
Period size: 417 Copynumber: 2.2 Consensus size: 416
38150 TAAATCGAAA
* * * * *
38160 ATTAAAATGGAACCTCTAGCATAAAGGCGAGGACCAAATTAAAGATTCACCTAATTTAAGGACTA
1 ATTAAAATGGAACCTCGAGCATAAATGTGAGGACCAAATTAAAAATTCACCTAATTAAAGGACTA
* * * * *
38225 AAGTGAAATGAATCTAAAATAGAGTTTCTAATTATTAATCCTAACCAATTTTAACAAACTATTGG
66 AAGTGAAATAAAACTAAAATAGAATTTCTAATTATTAATCCTAAACAATTTTAACAAACTATTGA
* * * *
38290 ATCAAATGATTCAAATGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTTTGCTAAATT
131 ATCAAATGATTAAAAAGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATT
* * * * *
38355 AAAGGAATAAGGTGAAATCAAACTTGAAATGGAGGCTCTGATATTAATCATAACCAATTTTAGCA
196 AAAGGAATAAGGTGAAATCAAACTTAAAATGAACGCTCTAATATTAATCATAACCAATTTTAACA
* ** * * *
38420 AATTATCGGATCAAATAATTAAAATGGAACCTCATACATAAAAGCGAGGACCAAATTAAAAATTC
261 AATTATCAGATCAAATAATTAAAATAAAAACTCAGACATAAAAGCAAGGACCAAATTAAAAATTC
* * *
38485 ACCTAATTTA-AAGACTAAAGTGAAATTAAACCTAAAATGAAGTCTCTAATATTAATCCTAACCA
326 ACCTAAATTATAAGACTAAAGTGAAATTAAACCTAAAATGAAGGCTCTAATATTAATCCTAACAA
*
38549 ATTTTAACAAATTATC-AGATCAAATG
391 ATTTCAACAAATTATCGA-ATCAAATG
* **
38575 ATTAAAATGGAACCTCGAGCATAAATGTGAGGACAAAATTAAAAATTCTTTCTAAATTAAAGGAC
1 ATTAAAATGGAACCTCGAGCATAAATGTGAGGACCAAATTAAAAATTC-ACCT-AATTAAAGGAC
* * *
38640 T-AAGTTGCAATTAAAACTAAAAT-GAATGTTCTAA-TATTAATCTTAAACAATTTTAACAAATT
64 TAAAG-TG-AAATAAAACTAAAATAGAAT-TTCTAATTATTAATCCTAAACAATTTTAACAAACT
* * *
38702 ATTGAATCGAATGATTAAAAAGGAACCTCGGGCATAAATGTGAGGATCAAATTAAAAATTCTCCT
126 ATTGAATCAAATGATTAAAAAGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCT
* * * *
38767 AAATTAAAGGACTAAGGTGAAATTAAA-TCTAAAATGAACGCTCTAATATTAATCTTAACGAATT
191 AAATTAAAGGAATAAGGTGAAATCAAACT-TAAAATGAACGCTCTAATATTAATCATAACCAATT
* * * * * * *
38831 TTAACAAATTATCATATCGAATGATTGAAATAAAAACTCGGGCATAAATGCAAGGACCAAATTAA
255 TTAACAAATTATCAGATCAAATAATTAAAATAAAAACTCAGACATAAAAGCAAGGACCAAATTAA
* * ** * * *
38896 AAATTCTCCTAAATTATAGGGTTAAGGTGAAATTAAACCTGAAATGTAGGCTCTAATATTAATCC
320 AAATTCACCTAAATTATAAGACTAAAGTGAAATTAAACCTAAAATGAAGGCTCTAATATTAATCC
38961 TAACAAATTTCAACAAATTATCGAATCAAATG
385 TAACAAATTTCAACAAATTATCGAATCAAATG
* * * * * *
38993 ATTAAAATGAAACCTCGGGAATAAATGTGAGGACCAAATTAAAATTTCA-CTAATTTAAGTACTA
1 ATTAAAATGGAACCTCGAGCATAAATGTGAGGACCAAATTAAAAATTCACCTAATTAAAGGACTA
39057 AA
66 AA
39059 TATAAAATTC
Statistics
Matches: 411, Mismatches: 64, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
415 53 0.13
416 10 0.02
417 217 0.53
418 130 0.32
419 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (416 bp):
ATTAAAATGGAACCTCGAGCATAAATGTGAGGACCAAATTAAAAATTCACCTAATTAAAGGACTA
AAGTGAAATAAAACTAAAATAGAATTTCTAATTATTAATCCTAAACAATTTTAACAAACTATTGA
ATCAAATGATTAAAAAGGAACCTCGGGCATAAATGCGAGGACCAAATTAAAAATTCTCCTAAATT
AAAGGAATAAGGTGAAATCAAACTTAAAATGAACGCTCTAATATTAATCATAACCAATTTTAACA
AATTATCAGATCAAATAATTAAAATAAAAACTCAGACATAAAAGCAAGGACCAAATTAAAAATTC
ACCTAAATTATAAGACTAAAGTGAAATTAAACCTAAAATGAAGGCTCTAATATTAATCCTAACAA
ATTTCAACAAATTATCGAATCAAATG
Found at i:41511 original size:117 final size:114
Alignment explanation
Indices: 41243--41527 Score: 292
Period size: 117 Copynumber: 2.5 Consensus size: 114
41233 CTGTGTGCTC
* * *
41243 CAAGTTCTTCTCATTATGAACTT-TTCACCCCTTTGGAC-TAATTCTTCTCATTATGAACTCTCC
1 CAAGTTTTTCTCATTATGAACTTCTTCTCCTCTTTGGACGTAATTCTTCTCATTATGAACTCTCC
* * * *
41306 ATTGAAAATATTGTTATACCTATTGTGATGGATTTGAACCAAGGTTGAA
66 ATTGAAAATACTGATATACCTATTATGATGGATTTGAACAAAGGTTGAA
* * * * * *
41355 CAAGTTTTCCTTATTATGAACTTCGTTTTCCTCTCTGGACGT-ATTGTTGTCATTATGAACTCTC
1 CAAGTTTTTCTCATTATGAACTTC-TTCTCCTCTTTGGACGTAATTCTTCTCATTATGAACTCTC
* * * *
41419 CATTGAAAATGCTGATCTACTTTATTCTATGATGG-TTTTAAGCAAAGGTTGAA
65 CATTGAAAATACTGATATAC-CTA-T-TATGATGGATTTGAA-CAAAGGTTGAA
* * * *
41472 CAAGTTTTTCTCATCATGAACTTCTTCTCTTTCTTTGGACG-AGTTATTCTCATTAT
1 CAAGTTTTTCTCATTATGAACTTCTTCTC-CTCTTTGGACGTAATTCTTCTCATTAT
41528 AAACGGTCAC
Statistics
Matches: 138, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
112 20 0.14
114 47 0.34
115 3 0.02
116 10 0.07
117 58 0.42
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (114 bp):
CAAGTTTTTCTCATTATGAACTTCTTCTCCTCTTTGGACGTAATTCTTCTCATTATGAACTCTCC
ATTGAAAATACTGATATACCTATTATGATGGATTTGAACAAAGGTTGAA
Found at i:42238 original size:23 final size:23
Alignment explanation
Indices: 42211--42259 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
42201 GTTCTTGGTT
42211 TAGTGTTGGTTGATTTAGGTGAG
1 TAGTGTTGGTTGATTTAGGTGAG
42234 TAGTGTTGGTTGATTTAGGTGAG
1 TAGTGTTGGTTGATTTAGGTGAG
42257 TAG
1 TAG
42260 ATAAACCGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (23 bp):
TAGTGTTGGTTGATTTAGGTGAG
Found at i:47092 original size:16 final size:16
Alignment explanation
Indices: 47071--47106 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47061 ACTAGAATTT
47071 TGGAGACTAATGAATA
1 TGGAGACTAATGAATA
47087 TGGAGACTAATGAATA
1 TGGAGACTAATGAATA
47103 TGGA
1 TGGA
47107 CCCAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (16 bp):
TGGAGACTAATGAATA
Found at i:50372 original size:44 final size:43
Alignment explanation
Indices: 50285--50377 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 43
50275 TTGTGCAACA
* * * * *
50285 TGCATCGATACACTAGAGGGTGTACCGATGCATCCCTTGAATG
1 TGCATCAATACACCAGAAGGTGCACCGATGCATCCCTTAAATG
*
50328 TGCATCAATACACCATGAAGGTGCACCGATGCATTCCTTAAATG
1 TGCATCAATACACCA-GAAGGTGCACCGATGCATCCCTTAAATG
50372 TGCATC
1 TGCATC
50378 GATGCAATCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 13 0.30
44 30 0.70
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (43 bp):
TGCATCAATACACCAGAAGGTGCACCGATGCATCCCTTAAATG
Found at i:55460 original size:13 final size:14
Alignment explanation
Indices: 55442--55470 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55432 CATATGTAAC
55442 TTAAGTA-ATTTAA
1 TTAAGTACATTTAA
55455 TTAAGTACATTTAA
1 TTAAGTACATTTAA
55469 TT
1 TT
55471 TAAGGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (14 bp):
TTAAGTACATTTAA
Found at i:56663 original size:29 final size:29
Alignment explanation
Indices: 56603--56665 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
56593 TAATTACTCT
*
56603 AATTAAAGAATTAAACTAACTAAATATAA
1 AATTAAAGAATTAAACTAACTAAAGATAA
* * * * *
56632 AATTAAAGGATTAATCTAATTCAAGATTA
1 AATTAAAGAATTAAACTAACTAAAGATAA
56661 AATTA
1 AATTA
56666 TTTATTAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (29 bp):
AATTAAAGAATTAAACTAACTAAAGATAA
Found at i:57244 original size:19 final size:19
Alignment explanation
Indices: 57220--57259 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57210 GATCAGAATT
57220 AAGAAAATCAAA-TTAAAAA
1 AAGAAAAT-AAAGTTAAAAA
57239 AAGAAAATAAAGTTTAAAAA
1 AAGAAAATAAAG-TTAAAAA
57259 A
1 A
57260 CATGAGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 8 0.42
20 8 0.42
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (19 bp):
AAGAAAATAAAGTTAAAAA
Found at i:57365 original size:2 final size:2
Alignment explanation
Indices: 57353--57392 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
57343 GAATTTAACA
*
57353 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57393 TAAGTTTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58786 original size:84 final size:82
Alignment explanation
Indices: 58608--58792 Score: 201
Period size: 84 Copynumber: 2.2 Consensus size: 82
58598 GGATTGATCA
** * * *
58608 TTGATATGCTCCTTTCTTTGAAGGACGTCAAATCGTGGAATGATCTTACTCCTTTCTCTAAAGAA
1 TTGATATGCTCCTTTCTTCAAAAGACGTCAAATCGAGGAATGATCTTACTCATTTCTCTAAAGAA
* *
58673 CACTATGTCATAATTGG
66 CAATATGTAATAATTGG
* * *
58690 TGGTGATATGCTCATTTCTTCAAAAGACGTCAAATTGAGGAATGATCTTGCTCATTTCTCTAAAG
1 T--TGATATGCTCCTTTCTTCAAAAGACGTCAAATCGAGGAATGATCTTACTCATTTCTCTAAA-
* *
58755 GATGCAATTTGTAATCAA-TGG
63 GA-ACAATATGTAAT-AATTGG
*
58776 TTGATGTGCTCCTTTCT
1 TTGATATGCTCCTTTCT
58793 CTGAAGGATG
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
82 1 0.01
84 67 0.80
85 2 0.02
86 12 0.14
87 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (82 bp):
TTGATATGCTCCTTTCTTCAAAAGACGTCAAATCGAGGAATGATCTTACTCATTTCTCTAAAGAA
CAATATGTAATAATTGG
Found at i:58889 original size:85 final size:85
Alignment explanation
Indices: 58766--58960 Score: 246
Period size: 85 Copynumber: 2.3 Consensus size: 85
58756 ATGCAATTTG
* * * ** * * *
58766 TAATCAATGGTTGATGTGCTCCTTTCTCTGAAGGATGCCAAATCGACGAACGCTCTTGATTCTTT
1 TAATCAATGGTTGATATGCTCCTTTATCTAAAACATGCCAAATCGAAGAACGATCTTGATCCTTT
* *
58831 CTCTAAAAGACACCAAGTTA
66 CTCTAAAAGACACAAAGTCA
* *
58851 TAATCAGTGGTTGATCTGCTCCTTTATCTAAAACATGCCAAATCGAAGAACGATCTTGATCCTTT
1 TAATCAATGGTTGATATGCTCCTTTATCTAAAACATGCCAAATCGAAGAACGATCTTGATCCTTT
* **
58916 CTCTGAAAGATGCAAAGTCA
66 CTCTAAAAGACACAAAGTCA
*
58936 TAATAAATGGTTGATATGCTCCTTT
1 TAATCAATGGTTGATATGCTCCTTT
58961 TTATGAAGGA
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (85 bp):
TAATCAATGGTTGATATGCTCCTTTATCTAAAACATGCCAAATCGAAGAACGATCTTGATCCTTT
CTCTAAAAGACACAAAGTCA
Found at i:63183 original size:65 final size:65
Alignment explanation
Indices: 63050--63209 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
63040 TGCACTAAGA
* *
63050 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATTGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* *
63114 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
63176 TAT
64 T-G
*
63179 GTGCATCGATGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
63210 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 30 0.35
65 52 0.61
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:63248 original size:65 final size:64
Alignment explanation
Indices: 63050--63251 Score: 209
Period size: 65 Copynumber: 3.1 Consensus size: 64
63040 TGCACTAAGA
* * * *
63050 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGCATTGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTC-AATTAACCATGAGTGCATCGATGCATGGTTG
* * *
63114 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTC-TGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-TAAC-CATGAGTGCATCGATGCATGGT
63177 AT-
63 -TG
* *
63179 GTGCATCGATGCATGGAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-TTA-ACCATGAGTGCATCGATGCATGG-T
63242 TG
63 TG
63244 GTGCATCG
1 GTGCATCG
63252 GCGCATCACT
Statistics
Matches: 115, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
63 4 0.03
64 49 0.43
65 61 0.53
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAACCATGAGTGCATCGATGCATGGTTG
Found at i:64341 original size:21 final size:21
Alignment explanation
Indices: 64317--64360 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
64307 GTGTCGGAGG
* *
64317 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAACT
* *
64338 AGGAGCAGCTCGTGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
64359 AG
1 AG
64361 CTCCCGGGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.39, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:65964 original size:21 final size:22
Alignment explanation
Indices: 65903--65983 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
65893 CATGGCCTTG
65903 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* * * *
65926 TGCATTGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
*
65947 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGA
65971 TGCATCGATGCAC
1 TGCATCGATGCAC
65984 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 13 0.29
22 1 0.02
23 19 0.42
24 12 0.27
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:65994 original size:44 final size:44
Alignment explanation
Indices: 65906--66002 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
65896 GGCCTTGTGC
* * *
65906 ATCGATGCACATTCAAGGCATGCATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCATGCATCGATGCACCTTCATAGTGT
* *
65950 ATCGATGCACATTCAAAGGGATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCATGCATCGATGCACCT-TCATAGTGT
65994 ATCGATGCA
1 ATCGATGCA
66003 TGAAGCACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 29 0.63
45 17 0.37
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCATGCATCGATGCACCTTCATAGTGT
Found at i:71874 original size:64 final size:65
Alignment explanation
Indices: 71806--71931 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 65
71796 TTCACTAAGA
*
71806 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-CAGAGTGCATCGATGCATGGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCAGAGTGCATCGATGCATGGG
71868 TG
64 TG
*
71870 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCGATGCATGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCAGAGTGCATCGATGCATGG
71932 AATGCATTCA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
64 29 0.51
65 25 0.44
66 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCAGAGTGCATCGATGCATGGGTG
Done.