Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015291.1 Kokia drynarioides strain JFW-HI SEQ_130336, 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: 212205
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 71 characters in sequence are not A, C, G, or T
Found at i:3213 original size:24 final size:23
Alignment explanation
Indices: 3164--3213 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
3154 TAAAGTAGGT
* *
3164 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
3187 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
3211 TAT
1 TAT
3214 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:3244 original size:17 final size:17
Alignment explanation
Indices: 3224--3268 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3214 TTTAATAATA
3224 ATTATATTAAAAATATT
1 ATTATATTAAAAATATT
* * *
3241 ATTAAATTATATATATT
1 ATTATATTAAAAATATT
*
3258 ATTTTATTAAA
1 ATTATATTAAA
3269 TTGTATTTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATATTAAAAATATT
Found at i:3330 original size:55 final size:57
Alignment explanation
Indices: 3219--3340 Score: 187
Period size: 55 Copynumber: 2.2 Consensus size: 57
3209 CATATTTTAA
* *
3219 TAATAATTATATTAAAAATATTATTAAATTATATATATTATTTTATTAAATTGTATT
1 TAATAATAATATTAAAAATATAATTAAATTATATATATTATTTTATTAAATTGTATT
*
3276 TAATAATAATGTT-AAAATATAATTAAATTAT-T-TATTATTTTTATTAAATTGTATT
1 TAATAATAATATTAAAAATATAATTAAATTATATATATTA-TTTTATTAAATTGTATT
3331 TAATAATAAT
1 TAATAATAAT
3341 CTTATTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 5 0.08
55 28 0.46
56 17 0.28
57 11 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (57 bp):
TAATAATAATATTAAAAATATAATTAAATTATATATATTATTTTATTAAATTGTATT
Found at i:9663 original size:24 final size:25
Alignment explanation
Indices: 9630--9682 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9620 TTATTAAATC
* *
9630 TCTTACAACATT-TACATT-TTAGTT
1 TCTTAAAACATTGTAAATTATT-GTT
9654 TCTTAAAACATTGTAAATTATTGTT
1 TCTTAAAACATTGTAAATTATTGTT
9679 TCTT
1 TCTT
9683 TTTACAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.44
25 12 0.48
26 2 0.08
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (25 bp):
TCTTAAAACATTGTAAATTATTGTT
Found at i:12225 original size:29 final size:29
Alignment explanation
Indices: 12175--12304 Score: 116
Period size: 29 Copynumber: 4.5 Consensus size: 29
12165 AATAATACAA
*
12175 ATACAGTTACAGATACAGTCATGCCACAG
1 ATACAGTTACAGATACAATCATGCCACAG
* * * *
12204 ATATAGTTATAGATACAATCATGTCAGAG
1 ATACAGTTACAGATACAATCATGCCACAG
* * **
12233 ATACAGTTACAGATACATTCATGTCGTAG
1 ATACAGTTACAGATACAATCATGCCACAG
* * * ** *
12262 ATACAGTTACGGATGCAAACATGATACAA
1 ATACAGTTACAGATACAATCATGCCACAG
*
12291 ATACAGTTATAGAT
1 ATACAGTTACAGAT
12305 GTAGACGTGA
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (29 bp):
ATACAGTTACAGATACAATCATGCCACAG
Found at i:12295 original size:58 final size:58
Alignment explanation
Indices: 12169--12304 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 58
12159 TATAGAAATA
* * *
12169 ATACAAATACAGTTACAGATACAGTCATGCCACAGATATAGTTATAGATACAATCATG
1 ATACAAATACAGTTACAGATACAGTCATGCCACAGATACAGTTACAGATACAAACATG
* * ** * *
12227 -T-CAGAGATACAGTTACAGATACATTCATGTCGTAGATACAGTTACGGATGCAAACATG
1 ATACA-A-ATACAGTTACAGATACAGTCATGCCACAGATACAGTTACAGATACAAACATG
*
12285 ATACAAATACAGTTATAGAT
1 ATACAAATACAGTTACAGAT
12305 GTAGACGTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
56 2 0.03
57 2 0.03
58 56 0.88
59 2 0.03
60 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (58 bp):
ATACAAATACAGTTACAGATACAGTCATGCCACAGATACAGTTACAGATACAAACATG
Found at i:14564 original size:6 final size:6
Alignment explanation
Indices: 14543--14625 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
14533 TTTAAATTGG
** * **
14543 TTTAAA TTTATT TTTAAA TTTAAA TTT--C TCTTAAA TTTAAA TTTATCTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA
**
14592 TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
14626 TCAAATTTGA
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
4 1 0.02
5 5 0.09
6 46 0.81
7 1 0.02
8 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:14578 original size:17 final size:16
Alignment explanation
Indices: 14555--14623 Score: 84
Period size: 17 Copynumber: 3.9 Consensus size: 16
14545 TAAATTTATT
14555 TTTAAATTTAAATTTC
1 TTTAAATTTAAATTTC
14571 TCTTAAATTTAAATTTATC
1 T-TTAAATTTAAA-TT-TC
14590 TTTTTAAATTTAAATTTGC
1 --TTTAAATTTAAATTT-C
14609 TTTAAATTTAAATTT
1 TTTAAATTTAAATTT
14624 AATCAAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.02
17 26 0.55
18 3 0.06
19 5 0.11
20 11 0.23
21 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTAAATTTAAATTTC
Found at i:14601 original size:37 final size:35
Alignment explanation
Indices: 14543--14624 Score: 130
Period size: 37 Copynumber: 2.3 Consensus size: 35
14533 TTTAAATTGG
14543 TTTAAATTTATTTTTAAATTTAAATTT-CTCTTAAA
1 TTTAAATTTATTTTTAAATTTAAATTTGCT-TTAAA
14578 TTTAAATTTATCTTTTTAAATTTAAATTTGCTTTAAA
1 TTTAAATTTA--TTTTTAAATTTAAATTTGCTTTAAA
14615 TTTAAATTTA
1 TTTAAATTTA
14625 ATCAAATTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
35 10 0.23
37 32 0.73
38 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTTTTAAATTTAAATTTGCTTTAAA
Found at i:15426 original size:3 final size:3
Alignment explanation
Indices: 15406--15469 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
15396 TGGCATTTAT
* * **
15406 TAA TAA TAG TAA TTA TAA TAA TTAA TAA TTAA TAA TAA CT-A TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA -TAA TAA TAA -TAA TAA TAA
15453 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
15470 TTTATTAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 1 0.02
3 42 0.84
4 7 0.14
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:16536 original size:28 final size:28
Alignment explanation
Indices: 16487--16725 Score: 246
Period size: 29 Copynumber: 8.2 Consensus size: 28
16477 CCGAAGATTA
* *
16487 CATTTTTACCCGCGAACTTTCAAAAATTC
1 CATTTTTACCC-CAAACTTCCAAAAATTC
16516 CATTTTTACCGCCAAACTT-CAAAAATTTC
1 CATTTTTACC-CCAAACTTCCAAAAA-TTC
*
16545 CATTTTAACCCCGAAACTTCCAAAAATTC
1 CATTTTTACCCC-AAACTTCCAAAAATTC
**
16574 CATTTTTACCCTGAACTTCCAAAAATTC
1 CATTTTTACCCCAAACTTCCAAAAATTC
*
16602 TATTTTTGACCCCTAAACTTCCAAAAATTC
1 CATTTTT-ACCCC-AAACTTCCAAAAATTC
* *
16632 CATTTTTACCCTAAACTTCCAAAATTTC
1 CATTTTTACCCCAAACTTCCAAAAATTC
* * * * *
16660 AATTTTAACCCTAAAACTTTCAAAATTTC
1 CATTTTTACCC-CAAACTTCCAAAAATTC
* *
16689 CATTTTTGACCCCAAAACTTTCAAAAAATAC
1 CATTTTT-ACCCC-AAAC-TTCCAAAAATTC
16720 CATTTT
1 CATTTT
16726 GCCCTCAAAT
Statistics
Matches: 178, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
28 53 0.30
29 75 0.42
30 36 0.20
31 14 0.08
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (28 bp):
CATTTTTACCCCAAACTTCCAAAAATTC
Found at i:16743 original size:59 final size:58
Alignment explanation
Indices: 16621--16870 Score: 179
Period size: 59 Copynumber: 4.3 Consensus size: 58
16611 CCCCTAAACT
* * * * * * *
16621 TCCAAAAATTCCATTTTT-A-CCCTAAACTTCCAAAATTTCAATTTTAACCCTAAAACT-
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTT-GCCCTCAAA-TA
* *
16678 TTCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAAAATACCATTTTGCCCTCAAATA
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTC-AAAATTACCATTTTGCCCTCAAATA
** * * * * * * ** *
16737 TCCAAAAACTACATTTTCGACCTCAAAACTCTCAAAATTACCCTTTTACCCTTGAATG
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTTGCCCTCAAATA
* * *
16795 TCTAAAAATTT-CATTTTTTACCCC-GAACTTTCCCAAAATTACCATTTTGCCCTCGAAA-A
1 TC-CAAAATTTCCATTTTTGACCCCAAAACTTT--CAAAATTACCATTTTGCCCTC-AAATA
*
16854 TCCAAAATTACCATTTT
1 TCCAAAATTTCCATTTT
16871 ACCCCCTTGG
Statistics
Matches: 147, Mismatches: 37, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
57 21 0.14
58 39 0.27
59 74 0.50
60 13 0.09
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTTGCCCTCAAATA
Found at i:16773 original size:29 final size:30
Alignment explanation
Indices: 16692--16773 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
16682 AAATTTCCAT
* *
16692 TTTTGACCCCAAAACTTTCAAAAAATACCA
1 TTTTGACCTCAAAACTCTCAAAAAATACCA
* *
16722 TTTTGCCCTCAAATA-TC-CAAAAACTA-CA
1 TTTTGACCTCAAA-ACTCTCAAAAAATACCA
16750 TTTTCGACCTCAAAACTCTCAAAA
1 TTTT-GACCTCAAAACTCTCAAAA
16774 TTACCCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.16
29 18 0.42
30 17 0.40
31 1 0.02
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (30 bp):
TTTTGACCTCAAAACTCTCAAAAAATACCA
Found at i:24469 original size:6 final size:6
Alignment explanation
Indices: 24444--24488 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
24434 ACAATTCATA
* * *
24444 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
24489 TTTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:25262 original size:28 final size:28
Alignment explanation
Indices: 25213--25451 Score: 246
Period size: 29 Copynumber: 8.2 Consensus size: 28
25203 CCGAAGATTA
* *
25213 CATTTTTACCCGCGAACTTTCAAAAATTC
1 CATTTTTACCC-CAAACTTCCAAAAATTC
25242 CATTTTTACCGCCAAACTT-CAAAAATTTC
1 CATTTTTACC-CCAAACTTCCAAAAA-TTC
*
25271 CATTTTAACCCCGAAACTTCCAAAAATTC
1 CATTTTTACCCC-AAACTTCCAAAAATTC
**
25300 CATTTTTACCCTGAACTTCCAAAAATTC
1 CATTTTTACCCCAAACTTCCAAAAATTC
*
25328 TATTTTTGACCCCTAAACTTCCAAAAATTC
1 CATTTTT-ACCCC-AAACTTCCAAAAATTC
* *
25358 CATTTTTACCCTAAACTTCCAAAATTTC
1 CATTTTTACCCCAAACTTCCAAAAATTC
* * * * *
25386 AATTTTAACCCTAAAACTTTCAAAATTTC
1 CATTTTTACCC-CAAACTTCCAAAAATTC
* *
25415 CATTTTTGACCCCAAAACTTTCAAAAAATAC
1 CATTTTT-ACCCC-AAAC-TTCCAAAAATTC
25446 CATTTT
1 CATTTT
25452 GCCCTCAAAT
Statistics
Matches: 178, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
28 53 0.30
29 75 0.42
30 36 0.20
31 14 0.08
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (28 bp):
CATTTTTACCCCAAACTTCCAAAAATTC
Found at i:25469 original size:59 final size:58
Alignment explanation
Indices: 25347--25596 Score: 179
Period size: 59 Copynumber: 4.3 Consensus size: 58
25337 CCCCTAAACT
* * * * * * *
25347 TCCAAAAATTCCATTTTT-A-CCCTAAACTTCCAAAATTTCAATTTTAACCCTAAAACT-
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTT-GCCCTCAAA-TA
* *
25404 TTCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAAAATACCATTTTGCCCTCAAATA
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTC-AAAATTACCATTTTGCCCTCAAATA
** * * * * * * ** *
25463 TCCAAAAACTACATTTTCGACCTCAAAACTCTCAAAATTACCCTTTTACCCTTGAATG
1 TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTTGCCCTCAAATA
* * *
25521 TCTAAAAATTT-CATTTTTTACCCC-GAACTTTCCCAAAATTACCATTTTGCCCTCGAAA-A
1 TC-CAAAATTTCCATTTTTGACCCCAAAACTTT--CAAAATTACCATTTTGCCCTC-AAATA
*
25580 TCCAAAATTACCATTTT
1 TCCAAAATTTCCATTTT
25597 ACCCCCTTGG
Statistics
Matches: 147, Mismatches: 37, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
57 21 0.14
58 39 0.27
59 74 0.50
60 13 0.09
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
TCCAAAATTTCCATTTTTGACCCCAAAACTTTCAAAATTACCATTTTGCCCTCAAATA
Found at i:25499 original size:29 final size:30
Alignment explanation
Indices: 25418--25499 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
25408 AAATTTCCAT
* *
25418 TTTTGACCCCAAAACTTTCAAAAAATACCA
1 TTTTGACCTCAAAACTCTCAAAAAATACCA
* *
25448 TTTTGCCCTCAAATA-TC-CAAAAACTA-CA
1 TTTTGACCTCAAA-ACTCTCAAAAAATACCA
25476 TTTTCGACCTCAAAACTCTCAAAA
1 TTTT-GACCTCAAAACTCTCAAAA
25500 TTACCCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.16
29 18 0.42
30 17 0.40
31 1 0.02
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (30 bp):
TTTTGACCTCAAAACTCTCAAAAAATACCA
Found at i:33195 original size:6 final size:6
Alignment explanation
Indices: 33170--33214 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
33160 ACAATTCATA
* * *
33170 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
33215 TTTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:38392 original size:6 final size:6
Alignment explanation
Indices: 38367--38411 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
38357 ACAATTCATA
* * *
38367 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
38412 TTTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:41458 original size:32 final size:32
Alignment explanation
Indices: 41386--41491 Score: 85
Period size: 31 Copynumber: 3.3 Consensus size: 32
41376 TTCTAGCTAT
* * *
41386 AAATAAAAAAGAGAGA-AAAAAAGGCTAA-GAA
1 AAATGAAAAAGAGAGAGAAAAAAGAC-AACAAA
*
41417 AGATG-AAAAGAGAGAGAAAAAAGACAACAAA
1 AAATGAAAAAGAGAGAGAAAAAAGACAACAAA
* * *
41448 AAATGAAAAAGAAGAAAGTATAAA-ACAACAAA
1 AAATGAAAAAG-AGAGAGAAAAAAGACAACAAA
41480 GCAAATGAAAAA
1 --AAATGAAAAA
41492 ATCGAGTAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
30 12 0.20
31 17 0.28
32 13 0.21
33 9 0.15
34 10 0.16
ACGTcount: A:0.70, C:0.06, G:0.18, T:0.07
Consensus pattern (32 bp):
AAATGAAAAAGAGAGAGAAAAAAGACAACAAA
Found at i:43644 original size:17 final size:17
Alignment explanation
Indices: 43622--43668 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
43612 CTCCACCTTG
*
43622 ACAAGAATTCTCCACTA
1 ACAAGAATTCTCCACGA
* *
43639 ACAAGAACTCTCAACGA
1 ACAAGAATTCTCCACGA
43656 ACAAG--TTCTCCAC
1 ACAAGAATTCTCCAC
43669 CTCTTCCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 6 0.24
17 19 0.76
ACGTcount: A:0.40, C:0.32, G:0.09, T:0.19
Consensus pattern (17 bp):
ACAAGAATTCTCCACGA
Found at i:44831 original size:22 final size:21
Alignment explanation
Indices: 44795--44837 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44785 CAATTTGAGG
*
44795 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACAAAATT
44816 AAAAATAAAAGAAAACAAAATT
1 AAAAATAAAAG-AAACAAAATT
44838 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACAAAATT
Found at i:51371 original size:52 final size:54
Alignment explanation
Indices: 51310--51437 Score: 152
Period size: 62 Copynumber: 2.3 Consensus size: 54
51300 ATCTTTTATT
51310 CTTGAAGTTGCAGT-T-AAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTC
1 CTTGAAGTTGCAGTATGAAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTC
*
51362 CTTGAAGTTGCAATGGAATGAAGTGAAGTTGGATTAAAACTACAGTAGCGGATCTCAATCTC
1 CTTGAAGTTGC-A--G--T--A-TGAAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTC
*
51424 CTTGAAATTGCAGT
1 CTTGAAGTTGCAGT
51438 GGAATGGAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 15
0.79 0.02 0.19
Matches are distributed among these distances:
52 11 0.17
53 1 0.02
55 1 0.02
57 2 0.03
59 1 0.02
61 2 0.03
62 46 0.72
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (54 bp):
CTTGAAGTTGCAGTATGAAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTC
Found at i:51402 original size:62 final size:62
Alignment explanation
Indices: 51325--51454 Score: 224
Period size: 62 Copynumber: 2.1 Consensus size: 62
51315 AGTTGCAGTT
*
51325 AAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTCCTTGAAGTTGCAATGGAATGAAGTG
1 AAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTCCTTGAAATTGCAATGGAATGAAGTG
* * *
51387 AAGTTGGATTAAAACTACAGTAGCGGATCTCAATCTCCTTGAAATTGCAGTGGAATGGAGTG
1 AAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTCCTTGAAATTGCAATGGAATGAAGTG
51449 AAGTTA
1 AAGTTA
51455 CATCACCATC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (62 bp):
AAGTTAGATTAAAACTACAGTAGCGGATCTCAATCTCCTTGAAATTGCAATGGAATGAAGTG
Found at i:51518 original size:40 final size:40
Alignment explanation
Indices: 51459--51681 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
51449 AAGTTACATC
*
51459 ACCATCCAATCTCTCACCCCGATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
* * * * * ***
51499 ACCATCCGATCTGTTACCCCGATCATGAGACA-AATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
* *
51538 GCCATCCAATCTCTTACCCCGATCATGGGGCAAATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
* * *
51578 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATCACAAT
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTA-AAA
* *
51619 A--ATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
**
51657 ACCATCCGTTCTCTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCGATCA
51682 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
38 3 0.02
39 61 0.41
40 82 0.55
41 3 0.02
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (40 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
Found at i:51595 original size:79 final size:79
Alignment explanation
Indices: 51459--51681 Score: 311
Period size: 79 Copynumber: 2.8 Consensus size: 79
51449 AAGTTACATC
* *
51459 ACCATCCAATCTCTCACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTGTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCCGATCA
*
51524 TGAGACAAATCGCA
66 TGAGACAAATCACA
* * * *
51538 GCCATCCAATCTCTTACCCCGATCATGGGGCAAATTAAAAATCATCCAATCTCTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCCGATCA
* * *
51603 TGGGGCAGATCACA
66 TGAGACAAATCACA
** * * *
51617 ATAATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAAACCATCCGTTCTCTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCCGATCA
51682 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 125 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (79 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCCGATCA
TGAGACAAATCACA
Found at i:51866 original size:79 final size:79
Alignment explanation
Indices: 51732--52246 Score: 599
Period size: 79 Copynumber: 6.5 Consensus size: 79
51722 NNNNNNNNNN
* ** * * **
51732 TGGGGCAGATCACAATAATCCAATCTCTTACCCCGATCATAGGGCAGACTAAAAACCATTTGATC
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATC
51797 TCTTACCCCGATCA
66 TCTTACCCCGATCA
* ** * *
51811 TGAGGCAGATCGCAGTCATCCAATCTCTTACCCCGATCATGGGGCATATTGAAAACCATCCGATC
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATC
*
51876 TCTTACCCTGA-CA
66 TCTTACCCCGATCA
* * * * *
51889 TGGGACAGATCGCAGCCATCCAATCTCTTACCCCGATCATGGGGCATATTAAAAATCATCTGATC
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATC
*
51954 TCTT-CTCCTGATCA
66 TCTTAC-CCCGATCA
* ** * * ** *
51968 TGGGGCA-ATTCACAGTCATCCAATCTCTTACCTCGATCATGTGATAGATTAAAACCCATCCGAT
1 TGGGGCAGA-TCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGAT
*
52032 CTCTTACCCTGATCA
65 CTCTTACCCCGATCA
* * *
52047 TGGGGCAGATCGCAACCATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAAACCATCCGTTC
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATC
52112 TCTTACCCCGATCA
66 TCTTACCCCGATCA
* ***
52126 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCA-AATCGCAACCATCC-ATT
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGA-T
52189 CTCTTACCCCGATCA
65 CTCTTACCCCGATCA
* * * ** *
52204 TGAGGCAGATTGAAACCATTTAATCTCTTACTCCGATCATGGG
1 TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGG
52247 ACAAATTGAA
Statistics
Matches: 378, Mismatches: 52, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.00
78 134 0.35
79 241 0.64
80 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (79 bp):
TGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATC
TCTTACCCCGATCA
Found at i:51957 original size:118 final size:116
Alignment explanation
Indices: 51749--52249 Score: 449
Period size: 118 Copynumber: 4.2 Consensus size: 116
51739 GATCACAATA
* *** ***
51749 ATCCAATCTCTTACCCCGATCATAGGG-CAGACTAAAAACCATTTGATCTCTTACCCCGATCATG
1 ATCCAATCTCTTACCCTGATCAT-GGGACAGA-TCGCAACCATCCAATCTCTTACCCCGATCATG
* ** * *
51813 AGGCAGATCGCAGTCATCCAATCTCTTACCCCGATCATGGGGCATATTGAAAACC
64 GGGCA-ATCGCAACCAT-CAATCTCTTACCCCGATCATGAGGCAGATTGAAAACC
* *
51868 ATCCGATCTCTTACCCTGA-CATGGGACAGATCGCAGCCATCCAATCTCTTACCCCGATCATGGG
1 ATCCAATCTCTTACCCTGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCGATCATGGG
*** * * * * * * **
51932 GCATATTAAAAATCATCTGATCTCTT-CTCCTGATCATGGGGCA-ATTCACAGTC
66 GCA-A-TCGCAACCATC-AATCTCTTAC-CCCGATCATGAGGCAGATTGAAAACC
* * *** * *
51985 ATCCAATCTCTTA-CCTCGATCATGTGATAGATTAAAACCCATCCGATCTCTTACCCTGATCATG
1 ATCCAATCTCTTACCCT-GATCATGGGACAGATCGCAA-CCATCCAATCTCTTACCCCGATCATG
* *
52049 GGGCAGATCGCAACCATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAAACC
64 GGGCA-ATCGCAACCAT-CAATCTCTTACCCCGATCATGAGGCAGATTGAAAACC
** * *
52104 ATCCGTTCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGG
1 ATCCAATCTCTTACCCTGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCGATCATGGG
*
52169 GCAAATCGCAACCATCCATTCTCTTACCCCGATCATGAGGCAGATTG-AAACC
66 GC-AATCGCAACCAT-CAATCTCTTACCCCGATCATGAGGCAGATTGAAAACC
**
52221 ATTTAATCTCTTACTCC-GATCATGGGACA
1 ATCCAATCTCTTAC-CCTGATCATGGGACA
52250 AATTGAAACC
Statistics
Matches: 309, Mismatches: 60, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
116 3 0.01
117 81 0.26
118 142 0.46
119 81 0.26
120 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (116 bp):
ATCCAATCTCTTACCCTGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCGATCATGGG
GCAATCGCAACCATCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACC
Found at i:52035 original size:236 final size:237
Alignment explanation
Indices: 51732--52171 Score: 652
Period size: 236 Copynumber: 1.9 Consensus size: 237
51722 NNNNNNNNNN
* **
51732 TGGGGCAGATCACAATAATCCAATCTCTTACCCCGATCATAGGGCAGACTAAAAACCATTTGATC
1 TGGGGCAGATCACAATAATCCAATCTCTTACCCCGATCATAGGACAGACTAAAAACCATCCGATC
** * * *
51797 TCTTACCCCGATCATGAGGCAGATCGCAGTCATCCAATCTCTTACCCCGATCATGGGGCATATTG
66 TCTTACCCCGATCATGAGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTA
* *
51862 AAAACCATCCGATCTCTTACCCTGA-CATGGGACAGATCGCAGCCATCCAATCTCTTACCCCGAT
131 AAAACCATCCGATCTCTTACCCCGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCGAT
51926 CATGGGGCATATTAAAAATCATCTGATCTCTTCTCCTGATCA
196 CATGGGGCATATTAAAAATCATCTGATCTCTTCTCCTGATCA
* * * * * *
51968 TGGGGCA-ATTCACAGTCATCCAATCTCTTACCTCGATCAT-GTGATAGATTAAAACCCATCCGA
1 TGGGGCAGA-TCACAATAATCCAATCTCTTACCCCGATCATAG-GACAGACTAAAAACCATCCGA
* * *
52031 TCTCTTACCCTGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCTGATCATGAGGCAGAT
64 TCTCTTACCCCGATCATGAGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGAGGCAGAT
* *
52096 TAAAAACCATCCGTTCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCG
129 TAAAAACCATCCGATCTCTTACCCCGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCG
52161 ATCATGGGGCA
194 ATCATGGGGCA
52172 AATCGCAACC
Statistics
Matches: 180, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
235 2 0.01
236 132 0.73
237 46 0.26
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (237 bp):
TGGGGCAGATCACAATAATCCAATCTCTTACCCCGATCATAGGACAGACTAAAAACCATCCGATC
TCTTACCCCGATCATGAGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTA
AAAACCATCCGATCTCTTACCCCGATCATGGGACAGATCGCAACCATCCAATCTCTTACCCCGAT
CATGGGGCATATTAAAAATCATCTGATCTCTTCTCCTGATCA
Found at i:52255 original size:39 final size:39
Alignment explanation
Indices: 51749--52260 Score: 463
Period size: 39 Copynumber: 13.0 Consensus size: 39
51739 GATCACAATA
* **
51749 ATCCAATCTCTTACCCCGATCATAGGGCAGACTAAAAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAACC
*** * * * **
51789 ATTTGATCTCTTACCCCGATCATGAGGCAGATCGCAGTC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
*
51828 ATCCAATCTCTTACCCCGATCATGGGGCATATTGAAAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AAACC
* * * * * *
51868 ATCCGATCTCTTACCCTGA-CATGGGACAGATCGCAGCC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
* * *
51906 ATCCAATCTCTTACCCCGATCATGGGGCATATTAAAAATC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAAACC
** * * **
51946 ATCTGATCTCTT-CTCCTGATCATGGGGCA-ATTCACAGTC
1 ATCCAATCTCTTAC-CCCGATCATGGGGCAGATTGA-AACC
* * ** *
51985 ATCCAATCTCTTACCTCGATCATGTGATAGATTAAAACCC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA-CC
* * * *
52025 ATCCGATCTCTTACCCTGATCATGGGGCAGATCGCAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
* * *
52064 ATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAAACC
** * *
52104 ATCCGTTCTCTTACCCCGATCATGGGGCAGATCGCAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
* * *
52143 ATCCAATCTCTTACCCCGATCATGGGGCAAATCGCAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
* *
52182 ATCCATTCTCTTACCCCGATCATGAGGCAGATTGAAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
** * * *
52221 ATTTAATCTCTTACTCCGATCATGGGACAAATTGAAACC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
52260 A
1 A
52261 CAACCCAATC
Statistics
Matches: 377, Mismatches: 86, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
38 21 0.06
39 219 0.58
40 137 0.36
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (39 bp):
ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACC
Found at i:53316 original size:15 final size:14
Alignment explanation
Indices: 53292--53321 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
53282 ACACATACTC
53292 ATAAAATATAAAAA
1 ATAAAATATAAAAA
53306 ATAATAATATAAAAA
1 ATAA-AATATAAAAA
53321 A
1 A
53322 AAGAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAATATAAAAA
Found at i:55196 original size:16 final size:16
Alignment explanation
Indices: 55175--55231 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
55165 TTTTGACAAA
55175 TGTAAAAGTGATCAAG
1 TGTAAAAGTGATCAAG
* * *
55191 TGTAAAGGGGTAGAACAAA
1 TGTAAA--AGT-GATCAAG
55210 TGTAAAAGTGATCAAG
1 TGTAAAAGTGATCAAG
55226 TGTAAA
1 TGTAAA
55232 GGGGTAGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 17 0.53
17 2 0.06
18 2 0.06
19 11 0.34
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.23
Consensus pattern (16 bp):
TGTAAAAGTGATCAAG
Found at i:55211 original size:35 final size:35
Alignment explanation
Indices: 55170--55240 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
55160 AAACGTTTTG
55170 ACAAATGTAAAAGTGATCAAGTGTAAAGGGGTAGA
1 ACAAATGTAAAAGTGATCAAGTGTAAAGGGGTAGA
55205 ACAAATGTAAAAGTGATCAAGTGTAAAGGGGTAGA
1 ACAAATGTAAAAGTGATCAAGTGTAAAGGGGTAGA
55240 A
1 A
55241 TAAGTCCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (35 bp):
ACAAATGTAAAAGTGATCAAGTGTAAAGGGGTAGA
Found at i:60552 original size:24 final size:24
Alignment explanation
Indices: 60520--60573 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
60510 GTAAATGTTT
*
60520 GTTAATTTTA-TAATTTAATATAAA
1 GTTATTTTTAGTAA-TTAATATAAA
*
60544 GTTATTTTTAGTAATTATTATAAA
1 GTTATTTTTAGTAATTAATATAAA
60568 -TTATTT
1 GTTATTT
60574 GTTTTGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
GTTATTTTTAGTAATTAATATAAA
Found at i:60723 original size:140 final size:139
Alignment explanation
Indices: 60551--60985 Score: 333
Period size: 140 Copynumber: 3.1 Consensus size: 139
60541 AAAGTTATTT
60551 TTAGTAATTATTATAAATTATTTGTTTT-GTTTAGTTTAATCCTTATTTGGTTTGTTATTAATTT
1 TTAGTAATTATTATAAATTATTT-TTTTAGTTTAGTTTAAT-CTTATTTGGTTTGTTATTAATTT
*
60615 TGTTATTTAGTAGAGTAAGGGAGAAAAAGAAAAGTAAGTTTTGTTTTTGTTTTTAATTTAATTTA
64 TGTTATTTAGTAGAGTAAGGGAGAAAAAGAAAAGTAAGTTTTGTTTTTATTTTTAATTTAATTTA
60680 ATTTAATTTTG
129 ATTTAATTTTG
* * * * *
60691 TTAGTAATTATTATAAAATATTTTTTTAGTTTAATGTTT-ATGTGA-TT-GTTATAATT-TT-TT
1 TTAGTAATTATTATAAATTATTTTTTTAGTTT-A-GTTTAATCTTATTTGGTT-T-GTTATTAAT
* * * * * * * *
60751 TTTGTT-TAGTAGGTAAATTAAAGGAAGAAAAAAGCTAAAAGAAAGGTAATTATTATAATTTTTT
62 TTTGTTAT-TTA-GTAGAGT-AAGGGAG-AAAAAG--AAAAGTAA-GT-TTTGTT-T--TTATTT
*
60815 TTAGTTTAATTTAATTTAAAGTTTT-
116 TTAATTTAATTTAATTT-AA-TTTTG
* * * * *
60840 TAAAGTAATTATTATAAATTATTTGTTTAGTTT--TTTAATTTTTATGTGTTTTGTTATTAATTT
1 T-TAGTAATTATTATAAATTATTTTTTTAGTTTAGTTTAA-TCTTATTTGGTTTGTTATTAATTT
* *
60903 T-TTATTTAGTAGAGTAGATAAGGGAGAGAAAG-AAAGATAAGCTTTG---TTATTTTTAATTTA
64 TGTTATTTAGT--AG-AG-TAAGGGAGAAAAAGAAAAG-TAAGTTTTGTTTTTATTTTTAATTTA
60963 ATTTAATTTAATTTTG
124 ATTTAATTTAATTTTG
60979 TTAGTAA
1 TTAGTAA
60986 GTAAGTTTTA
Statistics
Matches: 228, Mismatches: 35, Indels: 66
0.69 0.11 0.20
Matches are distributed among these distances:
137 1 0.00
138 21 0.09
139 17 0.07
140 57 0.25
141 9 0.04
142 4 0.02
143 7 0.03
144 2 0.01
145 4 0.02
146 6 0.03
147 6 0.03
148 30 0.13
149 11 0.05
150 45 0.20
151 7 0.03
152 1 0.00
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (139 bp):
TTAGTAATTATTATAAATTATTTTTTTAGTTTAGTTTAATCTTATTTGGTTTGTTATTAATTTTG
TTATTTAGTAGAGTAAGGGAGAAAAAGAAAAGTAAGTTTTGTTTTTATTTTTAATTTAATTTAAT
TTAATTTTG
Found at i:60779 original size:286 final size:286
Alignment explanation
Indices: 60405--60985 Score: 757
Period size: 286 Copynumber: 2.0 Consensus size: 286
60395 ATTTTTTTAG
* *
60405 TAGTAATTAATATAAAATATTTATTTTTGTTTAATATTTATGTGATTTGTGCTAATTTTTTTTGT
1 TAGTAATTAATATAAAATATTTATTTTAGTTTAATATTTATGTGATTTGTGATAATTTTTTTTGT
* * * *
60470 TTAGTAAGTAGATTAAGGGAAGAAAAAAAATAAAAGAAAGGTAAATGTT-T-GTTAATTTTA-TA
66 TTAGTAAGTAAATTAAAGGAAGAAAAAAAATAAAAGAAAGGTAAATATTATAATTAATTTTATTA
** *
60532 ATTTAATATAAAGTTATTTTTAGTAATTATTATAAATTATTTGTTTTGTTTAGTTTAATCCTTAT
131 ATTTAATATAAAGTT-TTTAAAGTAATTATTATAAATTATTTGTTTAGTTT--TTTAATCCTTAT
* *
60597 TTGGTTTGTTATTAATTTTGTTATTTAGT-AG-AG-TAAGGGAGAAAAAGAAA-AGTAAGTTTTG
193 GTGGTTTGTTATTAATTTT-TTATTTAGTAAGTAGATAAGGGAGAAAAAGAAAGA-TAAGCTTTG
*
60658 TTTTTGTTTTTAATTTAATTTAATTTAATTTTGT
256 ---TTATTTTTAATTTAATTTAATTTAATTTTGT
* * *
60692 TAGTAATTATTATAAAATATTT-TTTTAGTTTAATGTTTATGTGA-TTGTTATAATTTTTTTTTG
1 TAGTAATTAATATAAAATATTTATTTTAGTTTAATATTTATGTGATTTGTGATAA-TTTTTTTTG
* ** * **
60755 TTTAGTAGGTAAATTAAAGGAAGAAAAAAGCTAAAAGAAAGGTAATTATTATAATTTTTTTTAGT
65 TTTAGTAAGTAAATTAAAGGAAGAAAAAAAATAAAAGAAAGGTAAATATTATAATTAATTTTA--
* **
60820 TTAATTTAATTTAAAGTTTTTAAAGTAATTATTATAAATTATTTGTTTAGTTTTTTAATTTTTAT
128 TTAATTTAATATAAAGTTTTTAAAGTAATTATTATAAATTATTTGTTTAGTTTTTTAATCCTTAT
* *
60885 GTGTTTTGTTATTAATTTTTTATTTAGTAGAGTAGATAAGGGAGAGAAAGAAAGATAAGCTTTGT
193 GTGGTTTGTTATTAATTTTTTATTTAGTA-AGTAGATAAGGGAGAAAAAGAAAGATAAGCTTTGT
60950 TATTTTTAATTTAATTTAATTTAATTTTGT
257 TATTTTTAATTTAATTTAATTTAATTTTGT
60980 TAGTAA
1 TAGTAA
60986 GTAAGTTTTA
Statistics
Matches: 257, Mismatches: 26, Indels: 21
0.85 0.09 0.07
Matches are distributed among these distances:
285 7 0.03
286 72 0.28
287 31 0.12
288 70 0.27
289 2 0.01
290 34 0.13
291 40 0.16
292 1 0.00
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (286 bp):
TAGTAATTAATATAAAATATTTATTTTAGTTTAATATTTATGTGATTTGTGATAATTTTTTTTGT
TTAGTAAGTAAATTAAAGGAAGAAAAAAAATAAAAGAAAGGTAAATATTATAATTAATTTTATTA
ATTTAATATAAAGTTTTTAAAGTAATTATTATAAATTATTTGTTTAGTTTTTTAATCCTTATGTG
GTTTGTTATTAATTTTTTATTTAGTAAGTAGATAAGGGAGAAAAAGAAAGATAAGCTTTGTTATT
TTTAATTTAATTTAATTTAATTTTGT
Found at i:60884 original size:23 final size:23
Alignment explanation
Indices: 60858--60909 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
60848 TTATTATAAA
*
60858 TTATTTGTTTAGTTTTTTAA-TTT
1 TTATTTGTTTAG-TTATTAATTTT
* *
60881 TTATGTGTTTTGTTATTAATTTT
1 TTATTTGTTTAGTTATTAATTTT
60904 TTATTT
1 TTATTT
60910 AGTAGAGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (23 bp):
TTATTTGTTTAGTTATTAATTTT
Found at i:60933 original size:153 final size:147
Alignment explanation
Indices: 60664--60938 Score: 333
Period size: 150 Copynumber: 1.8 Consensus size: 147
60654 TTTGTTTTTG
* *
60664 TTTTTAATTTAATTTAATTTAATTTTGTTAGTAATTATTATAAAATATTTTTTTAGTTTAATGTT
1 TTTTTAATTTAATTTAATTTAATTTTGTAAGTAATTATTATAAAATATTTGTTTAGTTTAATGTT
*
60729 TATGTGATTGTTATAATTTTTTTTTGTTTAGTAGGTAAATTAAAGGAAGAAA-AAAGCTAAAAGA
66 TATGTGATTGTTATAA--TTTTTTTATTTAGTAGGTAAATTAAAGGAAGAAAGAAAGCTAAAAGA
60793 AAGGTAATTATTATAATTT
129 AAGGTAATTATTATAATTT
* *
60812 TTTTTAGTTTAATTTAATTTAAAGTTTT-TAAAGTAATTATTATAAATTATTTGTTTAGTTTTTT
1 TTTTTAATTTAATTTAATTT-AA-TTTTGT-AAGTAATTATTATAAAATATTTGTTTAG---TTT
* * * *
60876 AATTTTTATGTGTTTTGTTATTAA-TTTTTTATTTAGTAGAGTAGA-TAAGGGAGAGAAAGAAAG
60 AATGTTTATGTG-ATTGTTA-TAATTTTTTTATTTAGTAG-GTAAATTAAAGGA-AGAAAGAAAG
60939 ATAAGCTTTG
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
148 19 0.18
149 3 0.03
150 29 0.27
152 20 0.19
153 23 0.21
154 10 0.09
155 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.51
Consensus pattern (147 bp):
TTTTTAATTTAATTTAATTTAATTTTGTAAGTAATTATTATAAAATATTTGTTTAGTTTAATGTT
TATGTGATTGTTATAATTTTTTTATTTAGTAGGTAAATTAAAGGAAGAAAGAAAGCTAAAAGAAA
GGTAATTATTATAATTT
Found at i:61304 original size:19 final size:19
Alignment explanation
Indices: 61277--61316 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
61267 ACTTACGTCA
*
61277 TTTATGAAATTAAATTAGG
1 TTTACGAAATTAAATTAGG
61296 TTTACGAAATTAAATTAGG
1 TTTACGAAATTAAATTAGG
61315 TT
1 TT
61317 ATATTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (19 bp):
TTTACGAAATTAAATTAGG
Found at i:62673 original size:40 final size:39
Alignment explanation
Indices: 62588--62678 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
62578 AATAAATAAA
* *
62588 GTAAAAGATTTGATGGTCTTCAATCTGCCCTCTGATTAGG
1 GTAAAAGA-TTGATGGTCTTCAATCTGCCCTATGAGTAGG
* *
62628 GTAAAAGATTGAATGGTCTTCAATCTGTCCTAT-AGTCGG
1 GTAAAAGATTG-ATGGTCTTCAATCTGCCCTATGAGTAGG
62667 GATAAAAGATTG
1 G-TAAAAGATTG
62679 GATGTGGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.18
40 37 0.82
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (39 bp):
GTAAAAGATTGATGGTCTTCAATCTGCCCTATGAGTAGG
Found at i:83523 original size:13 final size:13
Alignment explanation
Indices: 83505--83570 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
83495 TTTGACTATT
83505 TATTTAAATTTCA
1 TATTTAAATTTCA
*
83518 TATTTATATTTC-
1 TATTTAAATTTCA
* *
83530 GACTTAAATTTCA
1 TATTTAAATTTCA
*
83543 TATTTATATTTC-
1 TATTTAAATTTCA
* *
83555 GACTTAAATTTCA
1 TATTTAAATTTCA
83568 TAT
1 TAT
83571 ACATTTTACG
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
12 18 0.46
13 21 0.54
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTTAAATTTCA
Found at i:83537 original size:25 final size:25
Alignment explanation
Indices: 83508--83570 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
83498 GACTATTTAT
83508 TTAAATTTCATATTTATATTTCGAC
1 TTAAATTTCATATTTATATTTCGAC
83533 TTAAATTTCATATTTATATTTCGAC
1 TTAAATTTCATATTTATATTTCGAC
83558 TTAAATTTCATAT
1 TTAAATTTCATAT
83571 ACATTTTACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAAATTTCATATTTATATTTCGAC
Found at i:83624 original size:14 final size:13
Alignment explanation
Indices: 83605--83656 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
83595 CATACCTATT
83605 TTTAGGGTTTATGG
1 TTTAGGGTTTA-GG
*
83619 TTTAGGATTTAGGG
1 TTTAGGGTTTA-GG
*
83633 TTTATGGTTTAGG
1 TTTAGGGTTTAGG
*
83646 ATTTAAGGTTT
1 -TTTAGGGTTT
83657 TTAAAGATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 2 0.06
14 30 0.94
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:83631 original size:21 final size:21
Alignment explanation
Indices: 83605--83656 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
83595 CATACCTATT
83605 TTTAGGGTTTATGGTTTAGGA
1 TTTAGGGTTTATGGTTTAGGA
83626 TTTAGGGTTTATGGTTTAGGA
1 TTTAGGGTTTATGGTTTAGGA
*
83647 TTTAAGGTTT
1 TTTAGGGTTT
83657 TTAAAGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTAGGA
Found at i:86780 original size:27 final size:27
Alignment explanation
Indices: 86718--86780 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
86708 ACAGTGGTGT
* *
86718 CACCCTTTAAAAGGGCACATTTGGTGC
1 CACCCATTAAAAGGGCACATTTGGCGC
**
86745 TGCCCATTAAAAGGGCACATTTGGCGC
1 CACCCATTAAAAGGGCACATTTGGCGC
*
86772 CACCTATTA
1 CACCCATTA
86781 GACTGGCACA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (27 bp):
CACCCATTAAAAGGGCACATTTGGCGC
Found at i:101234 original size:6 final size:6
Alignment explanation
Indices: 101223--101252 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
101213 AAGGAGGTAA
*
101223 AAAAAG AAAAAG AAAAGG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
101253 GGTCGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:102621 original size:112 final size:112
Alignment explanation
Indices: 102424--102629 Score: 313
Period size: 112 Copynumber: 1.8 Consensus size: 112
102414 AGTATGAGTC
* * *
102424 ATTTTTAATCTTTTCATTCATGCGAGCTTTATCTCTAATAAAATTCAATTTTATCCACCACGCAA
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCACACAA
* *
102489 CCCTGTTCAATCATTTTTGCATCGAAATAACAGTTAATGGACCAATG
66 CCCTATTCAAGCATTTTTGCATCGAAATAACAGTTAATGGACCAATG
* * **
102536 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTTACAA
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCACACAA
* *
102601 TCCTATTCAAGCATTTTTGCATTGAAATA
66 CCCTATTCAAGCATTTTTGCATCGAAATA
102630 GCGATTTGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 83 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCACACAA
CCCTATTCAAGCATTTTTGCATCGAAATAACAGTTAATGGACCAATG
Found at i:103439 original size:147 final size:146
Alignment explanation
Indices: 103173--103516 Score: 382
Period size: 147 Copynumber: 2.3 Consensus size: 146
103163 TATACCCTTG
* * * * *
103173 AGACGTGGAGGGAAAGGTTGAAACCGCAACGATAAACTTATACTCTAGAGATGTGGAGGGAAAGA
1 AGACGTGGAGAGAAAGGTTGAAACCGCAACGATAAACTTATACCCTAAAGATGTGAAGGAAAAGA
* *
103238 TTAAAGTCGCAACAACGAATCTCATGCCCTAGAGATGTGAAGGGAAAGAATGAAGCCACAATGAA
66 TTAAAGTCGCAACAACGAATCTCATGCCCTAAAGATATGAAGGGAAAGAATGAAGCCACAATGAA
103303 GAATCTCATGCCCTAA
131 GAATCTCATGCCCTAA
** * *
103319 AGACGTGGAGAGAAAGGTTGAAGTCGCAACGGTGAACCTTATACCCTAAAGATGTGAAGGAAAAG
1 AGACGTGGAGAGAAAGGTTGAAACCGCAACGAT-AAACTTATACCCTAAAGATGTGAAGGAAAAG
* * * * ** ** *
103384 ATTGAAGTCGCAACGATGAATCTCATGCCCTAAAGATATGGAGGGAAAGGTTGAAGATATAATGA
65 ATTAAAGTCGCAACAACGAATCTCATGCCCTAAAGATATGAAGGGAAAGAATGAAGCCACAATGA
** * ** *
103449 CCAATCTTAAACCTTAA
130 AGAATCTCATGCCCTAA
* * * * * *
103466 AGATGTGAAGAGAAAGATTGAAGCTGCAACGACAAATCTTATACCCTAAAG
1 AGACGTGGAGAGAAAGGTTGAAACCGCAACGATAAA-CTTATACCCTAAAG
103517 CTGAAGAGGA
Statistics
Matches: 162, Mismatches: 34, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
146 31 0.19
147 131 0.81
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (146 bp):
AGACGTGGAGAGAAAGGTTGAAACCGCAACGATAAACTTATACCCTAAAGATGTGAAGGAAAAGA
TTAAAGTCGCAACAACGAATCTCATGCCCTAAAGATATGAAGGGAAAGAATGAAGCCACAATGAA
GAATCTCATGCCCTAA
Found at i:103516 original size:49 final size:49
Alignment explanation
Indices: 103059--103516 Score: 332
Period size: 49 Copynumber: 9.4 Consensus size: 49
103049 AGGAAACGTT
* * * ***
103059 GAATCTTATACCCTAAAGACGTGTAGGGAAATATTGAAGCCATAACTG-C
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAAC-GAC
* * * * *
103108 GAATCTTGTACCTTAGAGATGTGGAGGGAGAGATTGAAGCTGTAACGAC
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
** * * * *
103157 GAATCTTATACCCTTGAGACGTGGAGGGAAAGGTTGAAACCGCAACGA-
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
* * * * * *
103205 TAAACTTATACTCTAGAGATGTGGAGGGAAAGATTAAAG-TCGCAACAAC
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCT-GCAACGAC
* * * * * ** * *
103254 GAATCTCATGCCCTAGAGATGTGAAGGGAAAGAATGAAGCCACAATGAA
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
* * * * * **
103303 GAATCTCATGCCCTAAAGACGTGGAGAGAAAGGTTGAAG-TCGCAACGGT
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCT-GCAACGAC
* * * *
103352 GAACCTTATACCCTAAAGATGTGAAGGAAAAGATTGAAG-TCGCAACGAT
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCT-GCAACGAC
* * * * * ** *
103401 GAATCTCATGCCCTAAAGATATGGAGGGAAAGGTTGAAGATATAATGAC
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
* * * * *
103450 CAATCTTAAACCTTAAAGATGTGAAGAGAAAGATTGAAGCTGCAACGAC
1 GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
*
103499 AAATCTTATACCCTAAAG
1 GAATCTTATACCCTAAAG
103517 CTGAAGAGGA
Statistics
Matches: 315, Mismatches: 88, Indels: 12
0.76 0.21 0.03
Matches are distributed among these distances:
48 38 0.12
49 276 0.88
50 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (49 bp):
GAATCTTATACCCTAAAGATGTGGAGGGAAAGATTGAAGCTGCAACGAC
Found at i:103932 original size:43 final size:42
Alignment explanation
Indices: 103870--104080 Score: 192
Period size: 43 Copynumber: 5.0 Consensus size: 42
103860 TTACATCACC
*
103870 ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAGCA
1 ATCCAATCTTTTACCCTTAAT-CAAGAGGGGCAGATTGAAGCA
* * * * *
103913 ATCCAATCTTTTACGCTTAATCTAGAGGGACAGATTAAAGTA
1 ATCCAATCTTTTACCCTTAATCAAGAGGGGCAGATTGAAGCA
* * * *
103955 ATCCAATCTTTTACCCCTAATCCAATAAGAGCAGATTGAAGTC-
1 ATCCAATCTTTTACCCTTAAT-CAAGAGGGGCAGATTGAAG-CA
* ** * * * *
103998 ATCCAGTCTTTTACCCCCAAATCTAGAGGGGAATATTGAAGCT
1 ATCCAATCTTTTA-CCCTTAATCAAGAGGGGCAGATTGAAGCA
* *
104041 ATCCAGTCTTTTACCCTTAATTCAA-AGGGGCAAATTGAAG
1 ATCCAATCTTTTACCCTTAA-TCAAGAGGGGCAGATTGAAG
104081 TCACACACAT
Statistics
Matches: 135, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
42 54 0.40
43 74 0.55
44 7 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCCAATCTTTTACCCTTAATCAAGAGGGGCAGATTGAAGCA
Found at i:104078 original size:85 final size:85
Alignment explanation
Indices: 103870--104083 Score: 256
Period size: 85 Copynumber: 2.5 Consensus size: 85
103860 TTACATCACC
* **
103870 ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAG-CAATCCAATCTTTTACGCTTAAT
1 ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAGTC-ATCCAATCTTTTACCCCAAAT
103934 CTAGAGGGACAGATTAAAGTA
65 CTAGAGGGACAGATTAAAGTA
* * * *
103955 ATCCAATCTTTTACCCCTAATCCAATAAGAGCAGATTGAAGTCATCCAGTCTTTTACCCCCAAAT
1 ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAGTCATCCAATCTTTTA-CCCCAAAT
* *
104020 CTAGAGGGGA-ATATTGAAGCT-
65 CTAGA-GGGACAGATTAAAG-TA
* * *
104041 ATCCAGTCTTTTACCCTTAATTCAA-AGGGGCAAATTGAAGTCA
1 ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAGTCA
104084 CACACATAAC
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
85 65 0.59
86 40 0.36
87 5 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (85 bp):
ATCCAATCTTTTACCCTTAATCCAATAGGGGCAGATTGAAGTCATCCAATCTTTTACCCCAAATC
TAGAGGGACAGATTAAAGTA
Found at i:125601 original size:39 final size:39
Alignment explanation
Indices: 125558--125639 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
125548 ACCATCGTTG
*
125558 TTCACCAATCA-TAGAGTTAACATCAATCCACCATCATCA
1 TTCACCAATCAGT-GAGTCAACATCAATCCACCATCATCA
* * * *
125597 TTCACCAGTCAGTTAGTCACCATCAATCCACCATCATCG
1 TTCACCAATCAGTGAGTCAACATCAATCCACCATCATCA
125636 TTCA
1 TTCA
125640 AAATTTAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (39 bp):
TTCACCAATCAGTGAGTCAACATCAATCCACCATCATCA
Found at i:131193 original size:39 final size:39
Alignment explanation
Indices: 131135--131217 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
131125 CACAATCGTT
* *
131135 GTTCACCAGTCATGCAGTCAACACTGA-TCCACCATCATC
1 GTTCACCAATCAGGCAGTCAACA-TGAGTCCACCATCATC
* * *
131174 GTTCACCAATCAGGTAGTCATCATTAGTCCACCATCATC
1 GTTCACCAATCAGGCAGTCAACATGAGTCCACCATCATC
131213 GTTCA
1 GTTCA
131218 ATAATTAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.27
Consensus pattern (39 bp):
GTTCACCAATCAGGCAGTCAACATGAGTCCACCATCATC
Found at i:133588 original size:4 final size:4
Alignment explanation
Indices: 133579--133636 Score: 84
Period size: 4 Copynumber: 15.0 Consensus size: 4
133569 ACCTTATACA
* *
133579 CTAT CTAT CTAT CTAT CTAT TTAT CTAT CTAT GTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
133627 CT-T CTA- CTAT
1 CTAT CTAT CTAT
133637 ATATAAACTC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 6 0.12
4 42 0.88
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.52
Consensus pattern (4 bp):
CTAT
Found at i:134245 original size:47 final size:47
Alignment explanation
Indices: 134154--134246 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
134144 AATAAAATGT
* * ****
134154 TACTTAAATTATACTAGTTTTCTCAAATTAGTACCTTTTTTTTTTTG
1 TACTTAAATTATACTAATTTTCCCAAATTAGTACCTAAACTTTTTTG
* *
134201 TACTTAAATTATATTAATTTTCCCAAATTAGTATCTAAACTTTTTT
1 TACTTAAATTATACTAATTTTCCCAAATTAGTACCTAAACTTTTTT
134247 TGGTCAAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (47 bp):
TACTTAAATTATACTAATTTTCCCAAATTAGTACCTAAACTTTTTTG
Found at i:136596 original size:27 final size:26
Alignment explanation
Indices: 136566--136640 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
136556 ATTCGAGTCG
*
136566 GATACAAAATGTCACTCATTGAAGCCA
1 GATACAAAATGTCGCTCATTG-AGCCA
136593 GATACAAAATGTCGCTCATTCGAGCCA
1 GATACAAAATGTCGCTCATT-GAGCCA
* *
136620 AATACAAAATATCGCTCATTG
1 GATACAAAATGTCGCTCATTG
136641 CTGAAACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.24
Consensus pattern (26 bp):
GATACAAAATGTCGCTCATTGAGCCA
Found at i:142513 original size:52 final size:52
Alignment explanation
Indices: 142435--142548 Score: 126
Period size: 52 Copynumber: 2.2 Consensus size: 52
142425 ATAATTTTAT
* * * * *
142435 AATTTTAATATATTAGATCAAAATTTTA-TCATTTTAAAGGATT-AAAGT-ATA
1 AATTTTCATTTATTAAATCAAAATTTTATTAACTTTAAA-GATTAAAAGTGA-A
*
142486 AATTTATCATTTATTAAATTAAAATTTTATTAACTTTAAAGATTAAAAGTGAA
1 AATTT-TCATTTATTAAATCAAAATTTTATTAACTTTAAAGATTAAAAGTGAA
142539 AATTTTCATT
1 AATTTTCATT
142549 AGAAGTCGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
51 5 0.09
52 28 0.53
53 19 0.36
54 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (52 bp):
AATTTTCATTTATTAAATCAAAATTTTATTAACTTTAAAGATTAAAAGTGAA
Found at i:144449 original size:17 final size:18
Alignment explanation
Indices: 144421--144459 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
144411 ATTGTTTCTC
*
144421 AAAAATACTTTTGAGATA
1 AAAAATACTTTTGAAATA
*
144439 AAAAATATTTTTGAAATA
1 AAAAATACTTTTGAAATA
144457 AAA
1 AAA
144460 GCATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAAATACTTTTGAAATA
Found at i:145152 original size:29 final size:30
Alignment explanation
Indices: 145090--145152 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
145080 ATGAATCTAC
* * * **
145090 TTTTTCTCAATTCTGATATCTAAACTTTTT
1 TTTTTCTCAATTCTGAAATCTAAAATATCA
145120 TTTTTCTCAATT-TGAAATCTAAAATATCA
1 TTTTTCTCAATTCTGAAATCTAAAATATCA
145149 TTTT
1 TTTT
145153 GTTATAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTTTCTCAATTCTGAAATCTAAAATATCA
Found at i:156429 original size:37 final size:37
Alignment explanation
Indices: 156379--156454 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
156369 CAAGAATTTA
*
156379 AACCAATTAATAATGAGTTAGAAAACATAAAAAAACT
1 AACCAATTAATAATGAGGTAGAAAACATAAAAAAACT
156416 AACCAATTAATAATGAGGTAGAAAACATAAAAAAACT
1 AACCAATTAATAATGAGGTAGAAAACATAAAAAAACT
156453 AA
1 AA
156455 GTATGAAGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (37 bp):
AACCAATTAATAATGAGGTAGAAAACATAAAAAAACT
Found at i:159826 original size:52 final size:52
Alignment explanation
Indices: 159747--160030 Score: 406
Period size: 52 Copynumber: 5.5 Consensus size: 52
159737 AAAAGGTTCA
159747 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * * *
159799 ATGACTAAGTTTCATCGTGAGTTTATGAATCCTTTACAGATTATGAGGTCTA
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* *
159851 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * *
159903 ATAACTAAGTGTTATCGTAAGTATATGAATCCTTTACGGATTATGAGGTCTG
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * * ** *
159955 ATAACTAAGAGTCATCGTGAGTATATGAATCATTTACAAATTATGAGGTTTG
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * *
160007 ATGACTATGTGTAATCGTAAGTAT
1 ATGACTAAGTGTCATCGTGAGTAT
160031 TAAATGAAAT
Statistics
Matches: 205, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 205 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (52 bp):
ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTG
Found at i:166406 original size:31 final size:31
Alignment explanation
Indices: 166368--166427 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
166358 GCTGGGCTTC
166368 TAATACTCAGATAGAAGAAGAATTACCTTTT
1 TAATACTCAGATAGAAGAAGAATTACCTTTT
166399 TAATACTCAGATAGAAGAAGAATTACCTT
1 TAATACTCAGATAGAAGAAGAATTACCTT
166428 GCACTATCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (31 bp):
TAATACTCAGATAGAAGAAGAATTACCTTTT
Found at i:173924 original size:19 final size:19
Alignment explanation
Indices: 173886--173929 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
173876 GTTTTTTTTT
173886 AAAAATCAAAACAGTAAAA
1 AAAAATCAAAACAGTAAAA
173905 AAAACATCAAAACAGTAAAA
1 AAAA-ATCAAAACAGTAAAA
173925 AAAAA
1 AAAAA
173930 AAACATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.75, C:0.11, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAATCAAAACAGTAAAA
Found at i:173948 original size:21 final size:24
Alignment explanation
Indices: 173901--173951 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
173891 TCAAAACAGT
173901 AAAAAAAACATCAAAACAGTAAAA
1 AAAAAAAACATCAAAACAGTAAAA
* *
173925 AAAAAAAACATCAAAATAATAAAA
1 AAAAAAAACATCAAAACAGTAAAA
173949 AAA
1 AAA
173952 TAGTACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (24 bp):
AAAAAAAACATCAAAACAGTAAAA
Found at i:173950 original size:20 final size:20
Alignment explanation
Indices: 173886--173951 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 20
173876 GTTTTTTTTT
* *
173886 AAAA-ATCAAAACAGTAAAA
1 AAAACATCAAAATAATAAAA
*
173905 AAAACATCAAAACAGTAAAAAAAA
1 AAAACATC-AAA-A-T-AATAAAA
173929 AAAACATCAAAATAATAAAA
1 AAAACATCAAAATAATAAAA
173949 AAA
1 AAA
173952 TAGTACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 4 0.11
22 2 0.05
23 3 0.08
24 13 0.34
ACGTcount: A:0.76, C:0.11, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAACATCAAAATAATAAAA
Found at i:175312 original size:10 final size:10
Alignment explanation
Indices: 175279--175320 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
175269 ACATGTAACG
*
175279 AAAATGATAA
1 AAAATTATAA
175289 AAAATTA-ATA
1 AAAATTATA-A
175299 AAAATTATAA
1 AAAATTATAA
*
175309 AAAACTATAA
1 AAAATTATAA
175319 AA
1 AA
175321 TGTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 1 0.04
10 26 0.93
11 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:175384 original size:38 final size:39
Alignment explanation
Indices: 175341--175422 Score: 125
Period size: 38 Copynumber: 2.1 Consensus size: 39
175331 GGTAAGATAG
175341 TTTTTATAA-TTTTTTACAAATTTTAT-ATATTTTTAT-AT
1 TTTTTATAATTTTTTTAC-AATTTTATAAT-TTTTTATAAT
175379 TTTTTATAATTTTTTTACAATTTTATAATTTTTTATAAT
1 TTTTTATAATTTTTTTACAATTTTATAATTTTTTATAAT
175418 TTTTT
1 TTTTT
175423 CTATATTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
38 24 0.59
39 17 0.41
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (39 bp):
TTTTTATAATTTTTTTACAATTTTATAATTTTTTATAAT
Found at i:175421 original size:19 final size:19
Alignment explanation
Indices: 175341--175421 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
175331 GGTAAGATAG
*
175341 TTTTTATAATTTTTTACAA
1 TTTTTATAATTTTTTATAA
* *
175360 ATTTTAT-ATATTTTTATAT
1 TTTTTATAAT-TTTTTATAA
175379 TTTTTATAATTTTTT-TACA
1 TTTTTATAATTTTTTATA-A
*
175398 ATTTTATAATTTTTTATAA
1 TTTTTATAATTTTTTATAA
175417 TTTTT
1 TTTTT
175422 TCTATATTAC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 4 0.08
19 43 0.84
20 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATAATTTTTTATAA
Found at i:175427 original size:12 final size:10
Alignment explanation
Indices: 175341--175513 Score: 85
Period size: 10 Copynumber: 17.6 Consensus size: 10
175331 GGTAAGATAG
175341 TTTTTATAAT
1 TTTTTATAAT
*
175351 TTTTTACAA-
1 TTTTTATAAT
*
175360 ATTTTAT-AT
1 TTTTTATAAT
175369 ATTTTTAT-AT
1 -TTTTTATAAT
175379 TTTTTATAAT
1 TTTTTATAAT
175389 TTTTT-TACA-
1 TTTTTATA-AT
*
175398 ATTTTATAAT
1 TTTTTATAAT
175408 TTTTTATAAT
1 TTTTTATAAT
*
175418 TTTTTCT-AT
1 TTTTTATAAT
**
175427 ATTACTAT-AT
1 -TTTTTATAAT
*
175437 ATTTTATAAAT
1 TTTTTAT-AAT
* **
175448 TTTTATGTTTT
1 TTTT-TATAAT
*
175459 TTTTTATAAA
1 TTTTTATAAT
* * *
175469 ATTTTACACT
1 TTTTTATAAT
175479 TTTTT-TATAT
1 TTTTTATA-AT
*
175489 TTTTTACAA-
1 TTTTTATAAT
*
175498 TTTTTGTAAT
1 TTTTTATAAT
175508 TTTTTA
1 TTTTTA
175514 AATATTTTCA
Statistics
Matches: 118, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
8 1 0.01
9 33 0.28
10 71 0.60
11 11 0.09
12 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:175441 original size:29 final size:28
Alignment explanation
Indices: 175374--175451 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
175364 TATATATTTT
*
175374 TATATTTTTTATAATTTTTTTACAATTT
1 TATATTTTTTATAATTTTTTTACAATTC
*
175402 TATAATTTTTTATAATTTTTTCTA-TATTAC
1 TAT-ATTTTTTATAATTTTTT-TACAATT-C
* *
175432 TATATATTTTATAAATTTTT
1 TATATTTTTTATAATTTTTT
175452 ATGTTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 3 0.07
29 35 0.81
30 5 0.12
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (28 bp):
TATATTTTTTATAATTTTTTTACAATTC
Found at i:175460 original size:19 final size:19
Alignment explanation
Indices: 175341--175460 Score: 80
Period size: 19 Copynumber: 6.3 Consensus size: 19
175331 GGTAAGATAG
* * *
175341 TTTTTATAATTTTTTACAA
1 TTTTTATAAATTTTTATAT
* *
175360 ATTTTATATATTTTTATAT
1 TTTTTATAAATTTTTATAT
* *
175379 TTTTTAT-AATTTTTTTACA
1 TTTTTATAAATTTTTATA-T
* *
175398 ATTTTATAATTTTTTATAAT
1 TTTTTATAAATTTTTAT-AT
* * **
175418 TTTTTCTATATTACTATAT
1 TTTTTATAAATTTTTATAT
* *
175437 ATTTTATAAATTTTTATGT
1 TTTTTATAAATTTTTATAT
175456 TTTTT
1 TTTTT
175461 TTTATAAAAT
Statistics
Matches: 72, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
18 8 0.11
19 45 0.62
20 18 0.25
21 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAT
Found at i:175481 original size:23 final size:22
Alignment explanation
Indices: 175438--175484 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
175428 TTACTATATA
* **
175438 TTTTATAAATTTTTATGTTTTT
1 TTTTATAAAATTTTAACTTTTT
175460 TTTTATAAAATTTTACACTTTTT
1 TTTTATAAAATTTTA-ACTTTTT
175483 TT
1 TT
175485 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATAAAATTTTAACTTTTT
Found at i:178030 original size:35 final size:35
Alignment explanation
Indices: 177984--178054 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
177974 ACATAAAAAT
*
177984 GCTTTTAAGGGGAATTTCAAA-AAAAAGACTTTCAC
1 GCTTTTAAGGGGAATTTCAAAGAAAAA-AATTTCAC
178019 GCTTTTAAGGGGAATTTCAAAGAAAAAAATTTCAC
1 GCTTTTAAGGGGAATTTCAAAGAAAAAAATTTCAC
178054 G
1 G
178055 TGAAAGTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (35 bp):
GCTTTTAAGGGGAATTTCAAAGAAAAAAATTTCAC
Found at i:186252 original size:129 final size:129
Alignment explanation
Indices: 186022--186283 Score: 524
Period size: 129 Copynumber: 2.0 Consensus size: 129
186012 GATAGCTGAA
186022 GATATGCAAAATCGTTCAATCGATTTCCCTTTACTGGTTGGATGGCATGAACGGCTGTTTGCACC
1 GATATGCAAAATCGTTCAATCGATTTCCCTTTACTGGTTGGATGGCATGAACGGCTGTTTGCACC
186087 ATCTTTCAAAAAAATCCACAAAAAAAGTTCTAAATTTGTTAAATATTTCAAAAGGTTAAAGTCT
66 ATCTTTCAAAAAAATCCACAAAAAAAGTTCTAAATTTGTTAAATATTTCAAAAGGTTAAAGTCT
186151 GATATGCAAAATCGTTCAATCGATTTCCCTTTACTGGTTGGATGGCATGAACGGCTGTTTGCACC
1 GATATGCAAAATCGTTCAATCGATTTCCCTTTACTGGTTGGATGGCATGAACGGCTGTTTGCACC
186216 ATCTTTCAAAAAAATCCACAAAAAAAGTTCTAAATTTGTTAAATATTTCAAAAGGTTAAAGTCT
66 ATCTTTCAAAAAAATCCACAAAAAAAGTTCTAAATTTGTTAAATATTTCAAAAGGTTAAAGTCT
186280 GATA
1 GATA
186284 AAGTAAGTGA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 133 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (129 bp):
GATATGCAAAATCGTTCAATCGATTTCCCTTTACTGGTTGGATGGCATGAACGGCTGTTTGCACC
ATCTTTCAAAAAAATCCACAAAAAAAGTTCTAAATTTGTTAAATATTTCAAAAGGTTAAAGTCT
Found at i:187021 original size:29 final size:28
Alignment explanation
Indices: 186978--187041 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
186968 TATTAATTAT
* *
186978 GTTAGTTGCAATTAATGTTGTTAG-GTGCA
1 GTTAGTTACAATTAATGTAG-TAGTG-GCA
*
187007 GTTAGTTACAGTTAATGTAGTAGTGGCA
1 GTTAGTTACAATTAATGTAGTAGTGGCA
187035 GTTAGTT
1 GTTAGTT
187042 TTGCATCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (28 bp):
GTTAGTTACAATTAATGTAGTAGTGGCA
Found at i:189037 original size:36 final size:35
Alignment explanation
Indices: 188961--189051 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 35
188951 AGTAACGGGC
* * *
188961 ATGACCTTTGGGTTAACAGGGAGAAAATGAGCATA
1 ATGACCTTTGGGTCAATAGGGAGAAAATGAACATA
*
188996 ATGACCTTTGGGTCAATAGGGAGCAAAATGAACATC
1 ATGACCTTTGGGTCAATAGGGAG-AAAATGAACATA
*
189032 GTGACCTTTTGGGTCAATAG
1 ATGACC-TTTGGGTCAATAG
189052 CGAGTAAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 21 0.43
36 15 0.31
37 13 0.27
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (35 bp):
ATGACCTTTGGGTCAATAGGGAGAAAATGAACATA
Found at i:190372 original size:41 final size:41
Alignment explanation
Indices: 190261--190363 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
190251 AACTCAATAT
* *
190261 TTAAATGGAAGACTCATGTCTCGAGATGATAATGAGATCATA
1 TTAAA-GGAAGTCTCATGTCTCGAGATGAGAATGAGATCATA
* *
190303 TTAAAGGAAGAT-TCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAG-TCTCATGTCTCGAGATGAGAATGAGATCATA
190344 TTAAAGGAAGTCTCATGTCT
1 TTAAAGGAAGTCTCATGTCT
190364 TAAAATGAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 1 0.02
41 49 0.89
42 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (41 bp):
TTAAAGGAAGTCTCATGTCTCGAGATGAGAATGAGATCATA
Found at i:190431 original size:41 final size:41
Alignment explanation
Indices: 190383--190480 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
190373 TGTGAGGTTT
* *
190383 GTGATTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGA
1 GTGATTAAAAAGGAAGACTTATCACTCGATAGAGCATAAGA
**
190424 GTGATTAAAAATTAAGACTTATCACTCGATAGAGCATAAGA
1 GTGATTAAAAAGGAAGACTTATCACTCGATAGAGCATAAGA
190465 GTGATT-AAAAGGAAGA
1 GTGATTAAAAAGGAAGA
190481 TTTTTGAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.16
41 43 0.84
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (41 bp):
GTGATTAAAAAGGAAGACTTATCACTCGATAGAGCATAAGA
Found at i:191768 original size:18 final size:18
Alignment explanation
Indices: 191723--191770 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
191713 ATATTAAATT
191723 TTTAGGTGAGCTCGTAAC
1 TTTAGGTGAGCTCGTAAC
* *
191741 TTT-GAATGAGCTCGTAGC
1 TTTAG-GTGAGCTCGTAAC
191759 TTTAGGTGAGCT
1 TTTAGGTGAGCT
191771 TGCAACTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (18 bp):
TTTAGGTGAGCTCGTAAC
Found at i:193123 original size:79 final size:80
Alignment explanation
Indices: 193017--193168 Score: 252
Period size: 80 Copynumber: 1.9 Consensus size: 80
193007 AAGAAGGTCG
* *
193017 AAGTTAAATTGTAATTTTTATGATAGTAAAAAT-TAATTTTTAAAGGATTAAATCAAAATTTTAT
1 AAGTTAAATTGTAATTTTTATGATAGTAAAAATGAAATTTTTAAAGGATTAAATAAAAATTTTAT
193081 CATTTTTAGGGTGCA
66 CATTTTTAGGGTGCA
* * *
193096 AAGTTAGATTTTAATTTTTATGATAGTAAAAATGAAATTTTTAAAGGATTAAGTAAAAATTTTAT
1 AAGTTAAATTGTAATTTTTATGATAGTAAAAATGAAATTTTTAAAGGATTAAATAAAAATTTTAT
193161 CATTTTTA
66 CATTTTTA
193169 TGGGGGCCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 31 0.46
80 36 0.54
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (80 bp):
AAGTTAAATTGTAATTTTTATGATAGTAAAAATGAAATTTTTAAAGGATTAAATAAAAATTTTAT
CATTTTTAGGGTGCA
Found at i:193384 original size:14 final size:14
Alignment explanation
Indices: 193367--193397 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
193357 TATATAGACT
*
193367 TTTATGGCTATTTG
1 TTTATGACTATTTG
193381 TTTATGACTATTTG
1 TTTATGACTATTTG
193395 TTT
1 TTT
193398 TCCCTTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.61
Consensus pattern (14 bp):
TTTATGACTATTTG
Found at i:195477 original size:109 final size:109
Alignment explanation
Indices: 195286--195503 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 109
195276 GATGATTGTG
195286 GCGCACAACTGGAGCATTGCACCAAGAGGAGGATGGATACTTTCGCGGTTGAAGTTTCTCCACTG
1 GCGCACAACTGGAGCATTGCACCAAGAGGAGGATGGATACTTTCGCGGTTGAAGTTTCTCCACTG
* * *
195351 TCTGCTCCCTAGGCGAGCTCATTTACTACCCGAGGCTGCTCGCC
66 TCTCCTCCCTAGGCGAGCTCATCTACTACCCGAGGCTACTCGCC
*
195395 GCGCACAATTGGAGCATTGCACCAAGAGGAGGATGGATACTTTCGCGGTTGAAGTTTCTCCACTG
1 GCGCACAACTGGAGCATTGCACCAAGAGGAGGATGGATACTTTCGCGGTTGAAGTTTCTCCACTG
195460 TCTCCTCCCTAGGCGAGCTCATCTACTACCCGAGGCTACTCGCC
66 TCTCCTCCCTAGGCGAGCTCATCTACTACCCGAGGCTACTCGCC
195504 CTTTTAAGAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.24
Consensus pattern (109 bp):
GCGCACAACTGGAGCATTGCACCAAGAGGAGGATGGATACTTTCGCGGTTGAAGTTTCTCCACTG
TCTCCTCCCTAGGCGAGCTCATCTACTACCCGAGGCTACTCGCC
Found at i:195552 original size:30 final size:30
Alignment explanation
Indices: 195516--195574 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
195506 TTTAAGAACC
* *
195516 TGAGGATACAGCTCCTATTGTCCCTCCACT
1 TGAGGATACACCTCCTACTGTCCCTCCACT
* *
195546 TGAGGATACTCCTCCTACTGTTCCTCCAC
1 TGAGGATACACCTCCTACTGTCCCTCCAC
195575 CTCGTTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.15, T:0.31
Consensus pattern (30 bp):
TGAGGATACACCTCCTACTGTCCCTCCACT
Found at i:197176 original size:90 final size:89
Alignment explanation
Indices: 197052--197266 Score: 242
Period size: 90 Copynumber: 2.4 Consensus size: 89
197042 TTAAAGGTGT
* * * *
197052 AAAAAG-CCCTCAAATTTTATCAAAAAAAA-CAATTAAGCTCTTCCCT-TTTTTT-CACTCATTT
1 AAAAAGACCCTCAAATTTT-TCAAAAAAAAGCAATTAAGCCCCT-ACTATTTTTTGCACTCAATT
197113 GGAGTACTTGAACTTTCAAAATGCATA
64 GG-GTACTTGAACTTTCAAAATGCATA
* * *
197140 AAAAAGACCCTCAAACCTTTTCAAAAAAAAGCAATTAAGCCCCTACTATTTTTTGTATTCAATTG
1 AAAAAGACCCTCAAA-TTTTTCAAAAAAAAGCAATTAAGCCCCTACTATTTTTTGCACTCAATTG
* * *
197205 GGTACTTGAACTTTTAAAATGTATC
65 GGTACTTGAACTTTCAAAATGCATA
* *
197230 AAAAAGACCCTCAATTTTTTTC-AAAAAAAGTAATTAA
1 AAAAAGACCCTCAA-ATTTTTCAAAAAAAAGCAATTAA
197267 ACCCATGCCT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
88 6 0.06
89 34 0.31
90 60 0.56
91 8 0.07
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (89 bp):
AAAAAGACCCTCAAATTTTTCAAAAAAAAGCAATTAAGCCCCTACTATTTTTTGCACTCAATTGG
GTACTTGAACTTTCAAAATGCATA
Found at i:197394 original size:20 final size:18
Alignment explanation
Indices: 197364--197519 Score: 75
Period size: 20 Copynumber: 8.1 Consensus size: 18
197354 ATAGAAAAAA
*
197364 ATAAAATTGTAAAAAATT
1 ATAAAAATGTAAAAAATT
**
197382 ATAGAAAAGTGTAAAATTTT
1 ATA-AAAA-TGTAAAAAATT
197402 ATAAAAATCGTAAAAAAATT
1 ATAAAAAT-GT-AAAAAATT
* *
197422 AT-AAAATATATAGAAATAT
1 ATAAAAATGTA-AAAAAT-T
* *
197441 AAAAAAAT-TATAAAATT
1 ATAAAAATGTAAAAAATT
* * *
197458 TTATAAATTCATAAGAAAATT
1 ATA-AAAAT-GTAA-AAAATT
*
197479 ATACAAAATATAAAGAAA-T
1 ATA-AAAATGTAAA-AAATT
197498 ATAAAAATCGTAAAAAAATT
1 ATAAAAAT-GT-AAAAAATT
197518 AT
1 AT
197520 CGTACCAAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 28
0.70 0.12 0.19
Matches are distributed among these distances:
17 3 0.03
18 23 0.22
19 27 0.26
20 40 0.38
21 12 0.11
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (18 bp):
ATAAAAATGTAAAAAATT
Found at i:197427 original size:10 final size:10
Alignment explanation
Indices: 197366--197504 Score: 55
Period size: 10 Copynumber: 14.3 Consensus size: 10
197356 AGAAAAAAAT
*
197366 AAAATTGTAA
1 AAAATTATAA
*
197376 AAAATTATAG
1 AAAATTATAA
* *
197386 AAAAGTGTAA
1 AAAATTATAA
**
197396 AATTTTAT-A
1 AAAATTATAA
197405 AAAATCGTA-AA
1 AAAAT--TATAA
197416 AAAATTATAA
1 AAAATTATAA
*
197426 AATA-TAT-A
1 AAAATTATAA
*
197434 GAAA-TATAAA
1 AAAATTAT-AA
197444 AAAATTAT--
1 AAAATTATAA
*
197452 AAAATT-TTA
1 AAAATTATAA
*
197461 TAAATTCATAA
1 AAAATT-ATAA
*
197472 GAAAATTATAC
1 -AAAATTATAA
197483 AAAA-TATAA
1 AAAATTATAA
197492 AGAAA-TATAA
1 A-AAATTATAA
197502 AAA
1 AAA
197505 TCGTAAAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 27
0.67 0.14 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.12
9 21 0.22
10 41 0.43
11 16 0.17
12 5 0.05
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:197433 original size:29 final size:29
Alignment explanation
Indices: 197401--197492 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
197391 TGTAAAATTT
*
197401 TATAAAAATCGTAAAAAAATTATAAAATA
1 TATAAAAATCATAAAAAAATTATAAAATA
*
197430 TATAGAAAT-ATAAAAAAATTATAAAAT-
1 TATAAAAATCATAAAAAAATTATAAAATA
* * *
197457 TTTATAAATTCATAAGAAAATTATACAAA-A
1 TATA-AAAATCATAAAAAAATTATA-AAATA
197487 TATAAA
1 TATAAA
197493 GAAATATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.06
28 20 0.38
29 23 0.44
30 6 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
TATAAAAATCATAAAAAAATTATAAAATA
Found at i:197444 original size:28 final size:28
Alignment explanation
Indices: 197412--197504 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 28
197402 ATAAAAATCG
197412 TAAAAAAATTATAAAATATATAGAAATA
1 TAAAAAAATTATAAAATATATAGAAATA
* *
197440 TAAAAAAATTATAAAATTTTATA-AATTCA
1 TAAAAAAATTATAAAA-TATATAGAAAT-A
* *
197469 TAAGAAAATTATACAAAATATAAAGAAATA
1 TAAAAAAATTAT--AAAATATATAGAAATA
197499 TAAAAA
1 TAAAAA
197505 TCGTAAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 19 0.36
29 17 0.32
30 10 0.19
31 7 0.13
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAAAAATTATAAAATATATAGAAATA
Found at i:197490 original size:57 final size:59
Alignment explanation
Indices: 197393--197504 Score: 158
Period size: 57 Copynumber: 1.9 Consensus size: 59
197383 TAGAAAAGTG
*
197393 TAAAATTTTATAAAAATCGTAAAAAAATTATAAAATATAT-AGAAATATAAAAAAATTA
1 TAAAATTTTATAAAAATCATAAAAAAATTATAAAATATATAAGAAATATAAAAAAATTA
* *
197451 TAAAATTTTAT-AAATTCATAAGAAAATTATACAAA-ATATAAAGAAATATAAAAA
1 TAAAATTTTATAAAAATCATAAAAAAATTATA-AAATATAT-AAGAAATATAAAAA
197505 TCGTAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
57 21 0.44
58 14 0.29
59 13 0.27
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (59 bp):
TAAAATTTTATAAAAATCATAAAAAAATTATAAAATATATAAGAAATATAAAAAAATTA
Found at i:197497 original size:59 final size:58
Alignment explanation
Indices: 197393--197504 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 58
197383 TAGAAAAGTG
* *
197393 TAAAATTTTATAAAAATCGTAAAAAAATTATAAAATATATAGAAATATAAAAAAATTA
1 TAAAATTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAAAAAAATTA
* *
197451 TAAAATTTTAT-AAATTCATAAGAAAATTATACAAAATATAAAGAAATATAAAAA
1 TAAAATTTTATAAAAATCATAAAAAAATTAT--AAAATATAAAGAAATATAAAAA
197505 TCGTAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
57 16 0.33
58 11 0.23
59 21 0.44
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (58 bp):
TAAAATTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAAAAAAATTA
Found at i:198868 original size:20 final size:20
Alignment explanation
Indices: 198821--198939 Score: 98
Period size: 20 Copynumber: 6.0 Consensus size: 20
198811 AGATGCAAGA
* *
198821 CAGGGACACCAAAGTGCAAT
1 CAGGGGCACCGAAGTGCAAT
** * *
198841 CAAAGGCATCGAAGTACAAT
1 CAGGGGCACCGAAGTGCAAT
198861 CAGGGGCACCGAAATGTG-AA-
1 CAGGGGCACCG-AA-GTGCAAT
* *
198881 CAGGGGCACTGAAGTGTAAT
1 CAGGGGCACCGAAGTGCAAT
* * *
198901 CAAGGACATCGAAGTGCAAT
1 CAGGGGCACCGAAGTGCAAT
*
198921 CAGGGGCACCGAAATGCAA
1 CAGGGGCACCGAAGTGCAA
198940 ACATTTCCGG
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 62 0.83
21 4 0.05
22 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.13
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAT
Found at i:204298 original size:30 final size:30
Alignment explanation
Indices: 204224--204397 Score: 219
Period size: 30 Copynumber: 5.9 Consensus size: 30
204214 AATTATTGAG
* *
204224 AAAGTTT-GGGGTCAAAATGTAATTTTAAA
1 AAAGTTTAAGGGTTAAAATGTAATTTTAAA
**
204253 AAAGTTTAA-GGTTAAAATGTAATTTTGGA
1 AAAGTTTAAGGGTTAAAATGTAATTTTAAA
*
204282 AAATTTTAAGGGTTAAAATGTAATTTTAAA
1 AAAGTTTAAGGGTTAAAATGTAATTTTAAA
* *
204312 GAAGTTTAAGGGTTAAAATATAATTTTAAA
1 AAAGTTTAAGGGTTAAAATGTAATTTTAAA
* * * *
204342 AAAGTTTAGGGGTCAGAATGTAATTTTAGA
1 AAAGTTTAAGGGTTAAAATGTAATTTTAAA
204372 AAAGTTTATA-GGTTAAAATGTAATTT
1 AAAGTTTA-AGGGTTAAAATGTAATTT
204398 AAGAAAAATT
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
29 32 0.26
30 91 0.74
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (30 bp):
AAAGTTTAAGGGTTAAAATGTAATTTTAAA
Found at i:204362 original size:60 final size:59
Alignment explanation
Indices: 204224--204435 Score: 250
Period size: 60 Copynumber: 3.6 Consensus size: 59
204214 AATTATTGAG
* **
204224 AAAGTTT-GGGGTCAAAATGTAATTTTAAAAAAGTTTAAGGTTAAAATGTAATTTTGGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAAAGAAGTTTAAGGTTAAAATGTAATTTTAAA
* * * *
204282 AAATTTTAAGGGTTAAAATGTAATTTTAAAGAAGTTTAAGGGTTAAAATATAATTTTAAA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAAAGAAGTTTAA-GGTTAAAATGTAATTTTAAA
*
204342 AAAGTTTAGGGGTCAGAATGTAATTTTAGAA-AAGTTTATAGGTTAAAATGTAA-TTTAAGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTA-AAGAAGTTTA-AGGTTAAAATGTAATTTTAA-A
* * **
204402 AAAATTTAGAGGTCAAAATAAAAATTTTAAAGAA
1 AAAGTTTAGGGGTCAAAAT-GTAATTTTAAAGAA
204436 AACAGAGGCT
Statistics
Matches: 130, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
58 6 0.05
59 33 0.25
60 79 0.61
61 12 0.09
ACGTcount: A:0.46, C:0.01, G:0.18, T:0.35
Consensus pattern (59 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTAAAGAAGTTTAAGGTTAAAATGTAATTTTAAA
Found at i:204386 original size:90 final size:89
Alignment explanation
Indices: 204232--204432 Score: 246
Period size: 90 Copynumber: 2.2 Consensus size: 89
204222 AGAAAGTTTG
* * * *
204232 GGGTCAAAATGTAATTTTAAAAAAGTTTAAGGTTAAAATGTAATTTTGGAAAATTTTAAGGGTTA
1 GGGTCAAAATATAATTTTAAAAAAGTTTAAGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTTA
204297 AAATGTAATTTTAAAGAAGTTTAA
66 AAATGTAATTTTAAAGAAGTTTAA
* * *
204321 GGGTTAAAATATAATTTTAAAAAAGTTTAGGGGTCAGAATGTAATTTTAGAAAAGTTTATA-GGT
1 GGGTCAAAATATAATTTTAAAAAAGTTTA-AGGTCAAAATGTAATTTTAGAAAAGTTTA-AGGGT
* *
204385 TAAAATGTAA-TTTAAGAAAAATTT-A
64 TAAAATGTAATTTTAA-AGAAGTTTAA
*
204410 GAGGTCAAAATAAAAATTTTAAA
1 G-GGTCAAAAT-ATAATTTTAAA
204433 GAAAACAGAG
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
89 34 0.35
90 51 0.53
91 11 0.11
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.35
Consensus pattern (89 bp):
GGGTCAAAATATAATTTTAAAAAAGTTTAAGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTTA
AAATGTAATTTTAAAGAAGTTTAA
Found at i:204403 original size:30 final size:29
Alignment explanation
Indices: 204237--204420 Score: 208
Period size: 30 Copynumber: 6.2 Consensus size: 29
204227 GTTTGGGGTC
204237 AAAATGTAATTTTAAAAAAGTTTAAGGTT
1 AAAATGTAATTTTAAAAAAGTTTAAGGTT
** *
204266 AAAATGTAATTTTGGAAAATTTTAAGGGTT
1 AAAATGTAATTTTAAAAAAGTTTAA-GGTT
*
204296 AAAATGTAATTTTAAAGAAGTTTAAGGGTT
1 AAAATGTAATTTTAAAAAAGTTTAA-GGTT
* * *
204326 AAAATATAATTTTAAAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAAAAAAGTTTA-AGGTT
* *
204356 AGAATGTAATTTTAGAAAAGTTTATAGGTT
1 AAAATGTAATTTTAAAAAAGTTTA-AGGTT
* *
204386 AAAATGTAA-TTTAAGAAAAATTTAGAGGTC
1 AAAATGTAATTTTAA-AAAAGTTTA-AGGTT
204416 AAAAT
1 AAAAT
204421 AAAAATTTTA
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.20
30 104 0.80
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTAAAAAAGTTTAAGGTT
Found at i:205690 original size:38 final size:37
Alignment explanation
Indices: 205557--205690 Score: 148
Period size: 38 Copynumber: 3.6 Consensus size: 37
205547 TGAGCTCCAA
*
205557 CAATGTGAA-TGGATTCGTTTTAAGCAAACAAAAGAG
1 CAATGTGAACTGGATTCTTTTTAAGCAAACAAAAGAG
*
205593 CAATGTGAACTAAGA-TCTTTTTAAGCAAACAAAAGAGG
1 CAATGTGAACT-GGATTCTTTTTAAGCAAACAAAAGA-G
* *
205631 CAATTTTG-ACTCGATTCTTTTTAAGCAAACAAAAGAG
1 CAA-TGTGAACTGGATTCTTTTTAAGCAAACAAAAGAG
* * *
205668 ATAATGTGAACTGGGTTGTTTTT
1 -CAATGTGAACTGGATTCTTTTT
205691 TTTTCTCAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
36 9 0.11
37 27 0.33
38 43 0.52
39 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (37 bp):
CAATGTGAACTGGATTCTTTTTAAGCAAACAAAAGAG
Found at i:206020 original size:28 final size:31
Alignment explanation
Indices: 205951--206026 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 31
205941 GGTATTAGAC
*
205951 TTAGGTACCAAATCAGTGGACGGAAAAAAAAGT
1 TTAGGTACC-AATCTGTGGAC-GAAAAAAAAGT
* *
205984 TCAGATACCAATCTG-GGAC-AAAAAAAA-T
1 TTAGGTACCAATCTGTGGACGAAAAAAAAGT
206012 TTAGGTACCAATCTG
1 TTAGGTACCAATCTG
206027 AGAGAAAGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 14 0.37
29 8 0.21
31 4 0.11
32 5 0.13
33 7 0.18
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (31 bp):
TTAGGTACCAATCTGTGGACGAAAAAAAAGT
Found at i:206272 original size:33 final size:33
Alignment explanation
Indices: 206211--206274 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
206201 TCAAGTCTTT
* * * *
206211 CTTTAAATTTCCAACGTATACTTTAAGGCTCCC
1 CTTTAAATCTCCAACATACACTTCAAGGCTCCC
*
206244 CTTTAAATCTCCAATATACACTTCAAGGCTC
1 CTTTAAATCTCCAACATACACTTCAAGGCTC
206275 ATTTGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (33 bp):
CTTTAAATCTCCAACATACACTTCAAGGCTCCC
Found at i:209334 original size:19 final size:19
Alignment explanation
Indices: 209276--209334 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
209266 TTTATTAATT
* * *
209276 ATATTTATGTTAAACTATA
1 ATATTTATGTTATATTAAA
*
209295 ATTTTTAT-TTATATTAAAA
1 ATATTTATGTTATATT-AAA
209314 ATATTTATGTTATATTAAA
1 ATATTTATGTTATATTAAA
209333 AT
1 AT
209335 TAAAAGGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 5 0.15
19 21 0.64
20 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATTTATGTTATATTAAA
Found at i:209505 original size:40 final size:41
Alignment explanation
Indices: 209461--209591 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 41
209451 GGAAAGCATT
* **
209461 GCTATTGCTTTACATTTTGCGGCGTTTTACCATAAA-TTCC
1 GCTATTGCTTTACCTTTTGCGGCGTTTTACCATAAAGCGCC
* ***
209501 GCTATTTCTCTTTACCTTTTGCGGCG-TTTATGGTAAAGCGCC
1 GCTA-TT-GCTTTACCTTTTGCGGCGTTTTACCATAAAGCGCC
* * *
209543 GCTATTGCTTTACCTTTTGCGGTGTTTTCCCATAAA-CGCT
1 GCTATTGCTTTACCTTTTGCGGCGTTTTACCATAAAGCGCC
209583 GCTATTGCT
1 GCTATTGCT
209592 CTTTACTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 32 0.44
41 19 0.26
42 22 0.30
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (41 bp):
GCTATTGCTTTACCTTTTGCGGCGTTTTACCATAAAGCGCC
Found at i:209522 original size:42 final size:42
Alignment explanation
Indices: 209468--209612 Score: 134
Period size: 42 Copynumber: 3.5 Consensus size: 42
209458 ATTGCTATTG
* **
209468 CTTTACATTTTGCGGCGTTTTACCATAAATTCCGCTATTTCT
1 CTTTACCTTTTGCGGCGTTTTACCATAAACGCCGCTATTTCT
*** *
209510 CTTTACCTTTTGCGGCG-TTTATGGTAAAGCGCCGCTA-TT-G
1 CTTTACCTTTTGCGGCGTTTTACCATAAA-CGCCGCTATTTCT
* * * *
209550 CTTTACCTTTTGCGGTGTTTTCCCATAAACGCTGCTATTGCT
1 CTTTACCTTTTGCGGCGTTTTACCATAAACGCCGCTATTTCT
* * *
209592 CTTTACTTTTTACGGCATTTT
1 CTTTACCTTTTGCGGCGTTTT
209613 TGGTCGAAAC
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
40 23 0.29
41 18 0.22
42 39 0.49
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
CTTTACCTTTTGCGGCGTTTTACCATAAACGCCGCTATTTCT
Found at i:209528 original size:82 final size:82
Alignment explanation
Indices: 209386--209607 Score: 237
Period size: 82 Copynumber: 2.7 Consensus size: 82
209376 CGTTAATTCT
* * * * * * ** **
209386 CTTTACCTTTTGTGGCATTTTCCCATAAACGTCACTATTGCTAGTTACCTTTTGTTGCGTTTATG
1 CTTTACATTTTGCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCGGCGTTTATG
**
209451 GGAAAGCATTGCTATTG
66 GGAAAGCACCGCTATTG
** *
209468 CTTTACATTTTGCGGCGTTTTACCATAAATTCCGCTATTTCTCTTTACCTTTTGCGGCGTTTATG
1 CTTTACATTTTGCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCGGCGTTTATG
* *
209533 GTAAAGCGCCGCTATTG
66 GGAAAGCACCGCTATTG
* * * * * *
209550 CTTTACCTTTTGCGGTGTTTTCCCATAAACGCTGCTATTGCTCTTTACTTTTTACGGC
1 CTTTACATTTTGCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCGGC
209608 ATTTTTGGTC
Statistics
Matches: 114, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
82 114 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (82 bp):
CTTTACATTTTGCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCGGCGTTTATG
GGAAAGCACCGCTATTG
Found at i:209925 original size:31 final size:31
Alignment explanation
Indices: 209890--209951 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
209880 AGGGGGTGGG
*
209890 ATGGAAGGGAGCAAAAAGTTTT-GAGGGAAAA
1 ATGGAAAGGAG-AAAAAGTTTTAGAGGGAAAA
* *
209921 ATGGAAAGGAGTAAAAGTTTTAGGGGGAAAA
1 ATGGAAAGGAGAAAAAGTTTTAGAGGGAAAA
209952 TAAAAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.45, C:0.02, G:0.35, T:0.18
Consensus pattern (31 bp):
ATGGAAAGGAGAAAAAGTTTTAGAGGGAAAA
Found at i:211859 original size:27 final size:27
Alignment explanation
Indices: 211806--211906 Score: 148
Period size: 27 Copynumber: 3.6 Consensus size: 27
211796 GGGAAGAGAC
211806 TAGAGGGACAGTAGGAGGAGTATCCTCAGG
1 TAGAGGGACAGT---AGGAGTATCCTCAGG
211836 TAGAGGGACAGTAGGAGTATCCTCAGG
1 TAGAGGGACAGTAGGAGTATCCTCAGG
* *
211863 TGGAGGGACAATAGGAGTATCCTCAGG
1 TAGAGGGACAGTAGGAGTATCCTCAGG
*
211890 TGGAGGGACAGTAGGAG
1 TAGAGGGACAGTAGGAG
211907 CAATATCTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 56 0.82
30 12 0.18
ACGTcount: A:0.30, C:0.13, G:0.41, T:0.17
Consensus pattern (27 bp):
TAGAGGGACAGTAGGAGTATCCTCAGG
Done.