Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000149.1 Hibiscus syriacus cultivar Beakdansim tig00000265_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: 78741
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:2205 original size:21 final size:23
Alignment explanation
Indices: 2180--2225 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2170 TTTTAAAGGT
*
2180 GTTT-ATATTCAGT-TTGTGTTC
1 GTTTAATATTCAATATTGTGTTC
*
2201 GTTTAATTTTCAATATTGTGTTC
1 GTTTAATATTCAATATTGTGTTC
2224 GT
1 GT
2226 ATTCATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
GTTTAATATTCAATATTGTGTTC
Found at i:2331 original size:22 final size:21
Alignment explanation
Indices: 2280--2351 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
2270 TGTTCCGAAC
**
2280 ATGTTCG-TTAGCGTTCATTT
1 ATGTTCGTTTAGCGTTGTTTT
2300 ATGTTCGTTTAGCGTTGTTTT
1 ATGTTCGTTTAGCGTTGTTTT
* *
2321 AGTGTTTGTTTATCGTTCGTTTAT
1 A-TGTTCGTTTAGCGTT-GTTT-T
*
2345 ATATTCG
1 ATGTTCG
2352 ATTTTTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 7 0.17
21 12 0.29
22 13 0.31
23 8 0.19
24 2 0.05
ACGTcount: A:0.14, C:0.11, G:0.21, T:0.54
Consensus pattern (21 bp):
ATGTTCGTTTAGCGTTGTTTT
Found at i:3405 original size:2 final size:2
Alignment explanation
Indices: 3348--3386 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3338 ATACACATTC
3348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3387 TAGAATCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4441 original size:19 final size:19
Alignment explanation
Indices: 4419--4475 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 19
4409 CTCTGCAATC
4419 TTTATATAAATTACATATT
1 TTTATATAAATTACATATT
*
4438 TTTATATAAATAGATCATATT
1 TTTATATAAAT-TA-CATATT
4459 TTTATAT-AATTACATAT
1 TTTATATAAATTACATAT
4476 ATCAATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 5 0.15
19 12 0.35
20 4 0.12
21 13 0.38
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTATATAAATTACATATT
Found at i:4817 original size:19 final size:18
Alignment explanation
Indices: 4795--4832 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4785 GTTATGATAT
4795 AATTT-TAAAGTTATCTTTA
1 AATTTCTAAA-TTAT-TTTA
4814 AATTTCTAAATTATTTTA
1 AATTTCTAAATTATTTTA
4832 A
1 A
4833 TGGAATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTTCTAAATTATTTTA
Found at i:6242 original size:16 final size:16
Alignment explanation
Indices: 6221--6252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6211 CGACAAGTAC
6221 CGATGAGCATCACTAA
1 CGATGAGCATCACTAA
*
6237 CGATGAGTATCACTAA
1 CGATGAGCATCACTAA
6253 TTTAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (16 bp):
CGATGAGCATCACTAA
Found at i:8525 original size:14 final size:14
Alignment explanation
Indices: 8506--8532 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8496 ATGCAATAAG
8506 TGTATCGATACACA
1 TGTATCGATACACA
8520 TGTATCGATACAC
1 TGTATCGATACAC
8533 CCCCTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
TGTATCGATACACA
Found at i:16041 original size:18 final size:18
Alignment explanation
Indices: 16018--16076 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
16008 AGTGCTACAA
16018 AATGCATCAAAGTGTCAC
1 AATGCATCAAAGTGTCAC
* *
16036 AATGCAT-TAATTGCTACAC
1 AATGCATCAAAGTG-T-CAC
* *
16055 AATGCATCGAAGTGTCAT
1 AATGCATCAAAGTGTCAC
16073 AATG
1 AATG
16077 TACACAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.12
18 14 0.42
19 11 0.33
20 4 0.12
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (18 bp):
AATGCATCAAAGTGTCAC
Found at i:16577 original size:2 final size:2
Alignment explanation
Indices: 16566--16639 Score: 96
Period size: 2 Copynumber: 36.5 Consensus size: 2
16556 ACCACTAACA
16566 AT AT -T AT AT 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 AT
* * *
16607 AT AT AT CAC AT CAT AT AT AC AT AT AT AC AT AT A
1 AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT A
16640 CACAATAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 59 0.94
3 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:28456 original size:8 final size:8
Alignment explanation
Indices: 28427--28455 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
28417 AAAAAATAAG
28427 TGAAAACA
1 TGAAAACA
28435 TGAAAACA
1 TGAAAACA
28443 TGAAAACA
1 TGAAAACA
28451 T-AAAA
1 TGAAAA
28456 AAAGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (8 bp):
TGAAAACA
Found at i:31342 original size:31 final size:33
Alignment explanation
Indices: 31300--31371 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 33
31290 AGCCACTGAT
* *
31300 GTTATTGTTTTATTACATTTTGGTCA-TTTA-C
1 GTTATTATTTTATTAAATTTTGGTCACTTTATC
*
31331 GTTATTATTTTATTAAATTTTTGTCACTTTATC
1 GTTATTATTTTATTAAATTTTGGTCACTTTATC
31364 GTT-TTATT
1 GTTATTATT
31372 AAGTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.64
32 9 0.25
33 4 0.11
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.61
Consensus pattern (33 bp):
GTTATTATTTTATTAAATTTTGGTCACTTTATC
Found at i:38500 original size:37 final size:37
Alignment explanation
Indices: 38450--38524 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
38440 GCTTTGCTAC
* *
38450 ACAATTCTGATTACATCGATAAACAACGTTTTACCAA
1 ACAATTCTGATTACATCGACAAACAACCTTTTACCAA
* *
38487 ACAATTCTGATTACATTGGCAAACAACCTTTTACCAA
1 ACAATTCTGATTACATCGACAAACAACCTTTTACCAA
38524 A
1 A
38525 TAGGGGATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (37 bp):
ACAATTCTGATTACATCGACAAACAACCTTTTACCAA
Found at i:38974 original size:31 final size:31
Alignment explanation
Indices: 38938--38996 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
38928 AACTCAAAAG
* *
38938 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
38969 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
38997 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:39047 original size:22 final size:22
Alignment explanation
Indices: 39021--39063 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
39011 TAATAAATTA
39021 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
39043 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39064 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39072 original size:22 final size:22
Alignment explanation
Indices: 39023--39071 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
39013 ATAAATTATT
**
39023 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
39045 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
39068 TAAA
1 TAAA
39072 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:39075 original size:54 final size:55
Alignment explanation
Indices: 39011--39435 Score: 414
Period size: 54 Copynumber: 7.6 Consensus size: 55
39001 ACAACTACAA
39011 TAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAATTTTAAAATAAATCAATCCATAC
* **
39065 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT--AATTTTAA-AATAAATCAATCCATAC
** * ** * * * * *
39122 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T-TTTAAAATAAATCAATCCATAC
*
39181 TAATAAATTATTTAAAATAAATCAATCCAT-ATTTTATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAATTTTAAAATAAATCAATCCATAC
*
39235 TAATAAATTATTTAAAATAAATCAATTCAT-ATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAATTTTAAAATAAATCAATCCATAC
* **
39289 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT--AATTTTAA-AATAAATCAATCCATAC
** * ** * * *
39346 TTTTAAAATAAAT-AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T-TTTAAAATAAATCAATCCATAC
*
39405 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
39436 CTAATAAATT
Statistics
Matches: 296, Mismatches: 55, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
54 131 0.44
55 1 0.00
56 20 0.07
57 31 0.10
58 71 0.24
59 23 0.08
60 19 0.06
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (55 bp):
TAATAAATTATTTAAAATAAATCAATCCATAATTTTAAAATAAATCAATCCATAC
Found at i:39221 original size:22 final size:22
Alignment explanation
Indices: 39191--39233 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
39181 TAATAAATTA
39191 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
39213 TTTATAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39234 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39271 original size:22 final size:22
Alignment explanation
Indices: 39245--39287 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
39235 TAATAAATTA
*
39245 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
39267 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39288 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39296 original size:22 final size:22
Alignment explanation
Indices: 39247--39295 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
39237 ATAAATTATT
* **
39247 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
39269 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
39292 TAAA
1 TAAA
39296 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:39358 original size:170 final size:167
Alignment explanation
Indices: 39012--39691 Score: 527
Period size: 170 Copynumber: 4.0 Consensus size: 167
39002 CAACTACAAT
39012 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* ** *
39077 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAA
66 TAAAATAAATCAATTCAT---ACTACAATAATAAATCAATCCATATAATAAAATAAATAAATCAA
* *
39142 TCCATACAAATAAATTATTTAAAATAAATCAATACATACT
128 TCCATACAAATAAATTATATAAAATAAATCAATACATACA
*
39182 AATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* **
39247 TAAAATAAATCAATTCATATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
66 TAAAATAAATCAATTCATACTACAATAATAAATCAATCCATA-TAATAAA--A--T-AAATAAAT
* * * **
39311 CAATCCATACAACTACAA-TA-AT-AAATCAATCCATATTTTA-A
125 CAATCCATACAAATA-AATTATATAAAATAAATCAATA-CATACA
* * * * *
39352 AATAAATAAATCAATCCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATACTAATAAAT
1 AATAAATTATTTAA---A-ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT
* * * * * ***
39413 TATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAGT
62 TATTTAAAATAAATCAATTCATACT-A-CAA-TA-AT-AAATCAATCCATATAATAAAATAAA-T
* * * *
39477 AAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACA
121 AAATCAATCCATACAAATAAATTATATAAAATAAATCAATACATACA
* * *
39524 ACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAAT
1 AATAAATTATTTAAAATAAATCAATCCATATTTT---A-AAATAAATCAATCCATACTAATAAAT
* * * **
39583 TATTTAAAATAGATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT--T-TTA-A
62 TATTTAAAATAAATCAATTCATAC---TACA--A--T--AATAAATCAATCCATATAATAAAATA
* * *
39644 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
118 AATAAATCAATCCATACAAATAAATTATATAAAATAAATCAATACATA
39692 TTTTAAAGTA
Statistics
Matches: 417, Mismatches: 54, Indels: 78
0.76 0.10 0.14
Matches are distributed among these distances:
162 8 0.02
163 1 0.00
165 2 0.00
166 19 0.05
167 9 0.02
169 7 0.02
170 269 0.65
171 14 0.03
172 43 0.10
173 6 0.01
174 25 0.06
175 3 0.01
176 11 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (167 bp):
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATTCATACTACAATAATAAATCAATCCATATAATAAAATAAATAAATCAATCC
ATACAAATAAATTATATAAAATAAATCAATACATACA
Found at i:39378 original size:18 final size:18
Alignment explanation
Indices: 39355--39412 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
39345 ATTTTAAAAT
39355 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
39373 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
39387 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
39405 TAATAAAT
1 AAATAAAT
39413 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:39390 original size:14 final size:14
Alignment explanation
Indices: 39373--39458 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
39363 CAATCCATAC
39373 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
39387 AAATAAATCAATCCATA
1 AAATAAAT-TAT--TTA
*
39404 CTAATAAATTATTTA
1 -AAATAAATTATTTA
*
39419 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
39436 CTAATAAATTATTTA
1 -AAATAAATTATTTA
39451 AAATAAAT
1 AAATAAAT
39459 CAATCTATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 22 0.41
15 9 0.17
17 9 0.17
18 14 0.26
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:39406 original size:224 final size:224
Alignment explanation
Indices: 39011--39435 Score: 814
Period size: 224 Copynumber: 1.9 Consensus size: 224
39001 ACAACTACAA
39011 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
39076 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCA
39141 ATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAA
131 ATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAA
39206 TCCATATTTTATAATAAATCAATCCATAC
196 TCCATATTTTATAATAAATCAATCCATAC
*
39235 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
39300 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCA
*
39365 ATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
131 ATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAA
*
39430 TTCATA
196 TCCATA
39436 CTAATAAATT
Statistics
Matches: 197, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
224 197 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (224 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCA
ATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAA
TCCATATTTTATAATAAATCAATCCATAC
Found at i:39442 original size:202 final size:202
Alignment explanation
Indices: 39163--39637 Score: 810
Period size: 202 Copynumber: 2.4 Consensus size: 202
39153 AAATTATTTA
* *
39163 AAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-T--T---TTA--T--
1 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
39218 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAA
66 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAA
39282 TCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
130 TCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
39347 TTTAAAAT
195 TTTAAAAT
39355 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
39420 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAAT
66 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
*
39485 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
131 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
39550 TTAAAAT
196 TTAAAAT
*
39557 AAATAAATCAATCCATACAAATAAATTATTTAAAATAGATCAATCCATACTAATAAATTATTTAA
1 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
39622 AATAAATCAATCCATA
66 AATAAATCAATCCATA
39638 TTTTAAAATA
Statistics
Matches: 265, Mismatches: 7, Indels: 12
0.93 0.02 0.04
Matches are distributed among these distances:
192 47 0.18
193 1 0.00
195 1 0.00
198 3 0.01
200 1 0.00
202 211 0.80
203 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (202 bp):
AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
TTAAAAT
Found at i:39480 original size:54 final size:54
Alignment explanation
Indices: 39330--39745 Score: 395
Period size: 54 Copynumber: 7.3 Consensus size: 54
39320 CAACTACAAT
* *
39330 AATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCTATATTTT---A-AAATAAATCAATCCATACTAATAAATTATTTAA
*
39388 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATC-A---AT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
39452 AATAAATCAATCTATATTTTAAAGTAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** ** * **
39506 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-A
1 AATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* * * *
39562 AATCAATCCATACAAATAAATTATTTAAAATAGATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAAT-C---TATA-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
39622 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * *
39676 AATAAATCAATCCATATTTTAAAGTAAATCAATCCATACTAATAAATTGTTTGA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
39730 AATAAATCAATCTATA
1 AATAAATCAATCTATA
39746 CAACTACAAT
Statistics
Matches: 302, Mismatches: 36, Indels: 44
0.79 0.09 0.12
Matches are distributed among these distances:
54 149 0.49
55 3 0.01
56 16 0.05
57 14 0.05
58 42 0.14
59 15 0.05
60 12 0.04
62 2 0.01
63 2 0.01
64 41 0.14
65 1 0.00
66 1 0.00
67 1 0.00
68 3 0.01
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:39482 original size:224 final size:223
Alignment explanation
Indices: 39021--39713 Score: 804
Period size: 224 Copynumber: 3.1 Consensus size: 223
39011 TAATAAATTA
39021 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
39086 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
66 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAA
39151 ATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-T--
131 ATAAATTATTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCAATCCATACTAA
* * *
39213 T---TTA-TAATAAATCAATCCATACTAATAAATT
195 TAAATTATTTA-AAATAAATCAAT-CT-AT--A-T
*
39244 ATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
39309 ATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACA
65 ATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACA
*
39374 AATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACTA
130 AATAAATTATTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCAATCCATACTA
39439 ATAAATTATTTAAAATAAATCAATCTATAT
194 ATAAATTATTTAAAATAAATCAATCTATAT
* *
39469 TTTAAAGTAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTA
*** * ***
39531 --T--AATAAATCAATCCATA-TTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAA
55 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATA-TTTTAAA--A--T-AA
* *
39591 ATAGATCAATCCATACTAATAAATTATTTAAAATAAATCAATC---C--AT--A-T-TTTAAAAT
113 ATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCATACTAATAAATTATTTAAAAT
*
39647 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
178 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
*
39693 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39714 CTAATAAATT
Statistics
Matches: 423, Mismatches: 21, Indels: 58
0.84 0.04 0.12
Matches are distributed among these distances:
216 1 0.00
218 2 0.00
220 1 0.00
223 2 0.00
224 268 0.63
225 4 0.01
226 2 0.00
227 6 0.01
228 37 0.09
229 6 0.01
230 17 0.04
231 3 0.01
232 2 0.00
233 5 0.01
234 67 0.16
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (223 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAA
ATAAATTATTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCCATACTAAT
AAATTATTTAAAATAAATCAATCTATAT
Found at i:39643 original size:22 final size:22
Alignment explanation
Indices: 39617--39659 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
39607 TAATAAATTA
39617 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
39639 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39660 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39668 original size:22 final size:22
Alignment explanation
Indices: 39619--39667 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
39609 ATAAATTATT
**
39619 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
39641 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
39664 TAAA
1 TAAA
39668 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:39684 original size:202 final size:201
Alignment explanation
Indices: 39011--39691 Score: 755
Period size: 202 Copynumber: 3.4 Consensus size: 201
39001 ACAACTACAA
** * *
39011 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAAATAAATAAATCAAT-CTAATAAA-TA
* *** *
39075 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATA-TTTTAAAATA
64 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATACAACTACAAT-
* *** * *
39132 AATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAA
127 AATAAATCAATCCATA-TTTTAAA--A--T-AAATAAATCAATCCATACAAATAAATTATTTAAA
39197 ATAAATCAATCCATA-
186 ATAAATCAATCCATAC
* ** * **
39212 T--T---TTA--T--AATAAATCAATCCATACTAATAAATTATTTAAAATAAATC-AATTCATAT
1 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAAATAAAT-AAATCAATCTAATAAATA-
39267 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
64 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
39332 TAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
129 TAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
39397 ATCCATAC
194 ATCCATAC
*
39405 TAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCT-AT--
1 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAA--A--T-AAATAAATCAATCTAATAA
* *
39467 AT-TTTAAAGTAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
61 ATATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
*
39531 TAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAGA
126 TAATAAATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAAA
39596 TCAATCCATAC
191 TCAATCCATAC
** * *
39607 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAAATAAATAAATCAAT-CTAATAAA-TA
39671 TTTAAAATAAATCAATCCATA
64 TTTAAAATAAATCAATCCATA
39692 TTTTAAAGTA
Statistics
Matches: 411, Mismatches: 36, Indels: 65
0.80 0.07 0.13
Matches are distributed among these distances:
191 2 0.00
192 92 0.22
193 13 0.03
194 7 0.02
195 2 0.00
196 14 0.03
197 7 0.02
198 36 0.09
199 7 0.02
200 2 0.00
201 7 0.02
202 207 0.50
204 2 0.00
206 11 0.03
207 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (201 bp):
TAATAAATTATTTAAAATAAATCAATCCATACTAATAAAATAAATAAATCAATCTAATAAATATT
TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATA
AATCAATCCATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATAC
Found at i:39697 original size:22 final size:22
Alignment explanation
Indices: 39671--39713 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
39661 TAATAAATTA
39671 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
39693 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39714 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39716 original size:224 final size:226
Alignment explanation
Indices: 39355--39816 Score: 729
Period size: 224 Copynumber: 2.0 Consensus size: 226
39345 ATTTTAAAAT
39355 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC--AC-AAT-AATTATTTAA
* *
39420 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAAT
62 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAAT
*
39485 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
127 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
39550 TTAAAATAAATAAATCAATCCATACAAATAAATTATTTA
192 TT---A-AAATAAATCAATCCATACAAATAAATTATTTA
* *
39589 AAATAGATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-C-AT-A-T-TTTAAAATA
1 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCACAATAATTATTTAAAATA
39648 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCAT
66 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCAT
* * *
39713 ACTAATAAATTGTTTGAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAA
131 ACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAA
*
39778 AATAAATCAATCCATACTAATAAATTATTTA
196 AATAAATCAATCCATACAAATAAATTATTTA
39809 AAATAAAT
1 AAATAAAT
39817 TATTTTAAAA
Statistics
Matches: 218, Mismatches: 10, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
220 38 0.17
221 1 0.00
224 131 0.60
225 1 0.00
226 1 0.00
228 2 0.01
230 1 0.00
233 1 0.00
234 42 0.19
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (226 bp):
AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCACAATAATTATTTAAAATA
AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCAT
ACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAA
AATAAATCAATCCATACAAATAAATTATTTA
Found at i:39781 original size:22 final size:22
Alignment explanation
Indices: 39756--39851 Score: 84
Period size: 22 Copynumber: 4.2 Consensus size: 22
39746 CAACTACAAT
39756 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
39778 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * **
39801 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
*
39825 AATAAATCAATCCATATTTTAT
1 AATAAATCAATCCATATTTTAA
39847 AATAA
1 AATAA
39852 TTTATTTTAT
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
22 28 0.52
23 12 0.22
24 12 0.22
25 2 0.04
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:39825 original size:15 final size:15
Alignment explanation
Indices: 39796--39943 Score: 172
Period size: 15 Copynumber: 9.5 Consensus size: 15
39786 AATCCATACT
39796 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
39810 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
39825 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
39847 AATAATTTATTTTAT
1 AATAAATTATTTTAA
* *
39862 AATAATTTATTTTAT
1 AATAAATTATTTTAA
39877 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
39892 AATAAATTATTTTAT
1 AATAAATTATTTTAA
39907 AATAAATTATTTTAA
1 AATAAATTATTTTAA
39922 AATAAATTATTTTAA
1 AATAAATTATTTTAA
39937 AATAAAT
1 AATAAAT
39944 AACCTTATTA
Statistics
Matches: 120, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.08
15 94 0.78
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:39838 original size:69 final size:67
Alignment explanation
Indices: 39756--39898 Score: 189
Period size: 67 Copynumber: 2.1 Consensus size: 67
39746 CAACTACAAT
39756 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATTAT
1 AATAAATCAATCCATATTTTAAAAT-AATCAAT-CATA-TAATAAATTATTTTAAAATAAATTAT
39820 TTTAA
63 TTTAA
* ** ** * *
39825 AATAAATCAATCCATATTTTATAATAATTTATTTTATAATAATTTATTTTATAATAAATTATTTT
1 AATAAATCAATCCATATTTTAAAATAATCAATCATATAATAAATTATTTTAAAATAAATTATTTT
39890 AA
66 AA
39892 AATAAAT
1 AATAAAT
39899 TATTTTATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 9 0.14
67 28 0.42
68 5 0.08
69 24 0.36
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATCAATCCATATTTTAAAATAATCAATCATATAATAAATTATTTTAAAATAAATTATTTT
AA
Found at i:41605 original size:20 final size:21
Alignment explanation
Indices: 41580--41632 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
41570 ATCAACTATC
41580 GTGGACTACCACCTTAACA-T
1 GTGGACTACCACCTTAACACT
** *
41600 GTGGACCGCCACGTTAACACT
1 GTGGACTACCACCTTAACACT
41621 GTGGACTACCAC
1 GTGGACTACCAC
41633 ATCATAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (21 bp):
GTGGACTACCACCTTAACACT
Found at i:42190 original size:22 final size:21
Alignment explanation
Indices: 42157--42201 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
42147 AATCATGAAG
*
42157 TATTCAAAAATATTTATAAAT
1 TATTAAAAAATATTTATAAAT
42178 TATTAAAAGAATATTTATAAAT
1 TATTAAAA-AATATTTATAAAT
42200 TA
1 TA
42202 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTAAAAAATATTTATAAAT
Found at i:42236 original size:16 final size:14
Alignment explanation
Indices: 42204--42230 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42194 ATAAATTAAA
42204 ATTTTAAAAAAATT
1 ATTTTAAAAAAATT
42218 ATTTTAAAAAAAT
1 ATTTTAAAAAAAT
42231 AATATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTTAAAAAAATT
Found at i:54237 original size:215 final size:214
Alignment explanation
Indices: 53677--54390 Score: 1178
Period size: 216 Copynumber: 3.3 Consensus size: 214
53667 ATTTTATGAA
* * *
53677 AAATACAAATTTA-AGAATTAAATTGAACAAATATGGAATTACAAATAAAAATTTAAATAAATTA
1 AAATA-AAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
53741 AACAACACACATTGATGAGGGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
65 AACAACACACATTGATGAGGGATCAAA-TGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
53806 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
129 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
*
53871 GTATGGGTCAATTTTAGATGC
194 GTATGAGTCAATTTTAGATGC
*
53892 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
*
53957 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTATATTGTGAGGTTGAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAAT-GAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-A
* *
54022 AAAAGTACTAAATTATACACATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
129 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
* * *
54087 GTATGTGTCAATTTCAGATGT
194 GTATGAGTCAATTTTAGATGC
*
54108 AAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAATTAAATTAA
1 AAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
** ** *
54173 AGTACTTACATTGATGAGGGATCAAATAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAA
66 ACAACACACATTGATGAGGGATCAAATGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAA
* * * *
54238 ATGTATTAAATTATACCCATTTAAAAAGTTATGAGCCAATTTAAAAATAGAAATAAGTAATAAGT
131 AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGT
*
54303 ATGAGTCAATTTTATATGC
196 ATGAGTCAATTTTAGATGC
*
54322 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
54387 ACAA
66 ACAA
54391 TATAAAGGGA
Statistics
Matches: 464, Mismatches: 32, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
214 149 0.32
215 147 0.32
216 168 0.36
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (214 bp):
AAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAA
AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGT
ATGAGTCAATTTTAGATGC
Found at i:54481 original size:2 final size:2
Alignment explanation
Indices: 54476--54581 Score: 106
Period size: 2 Copynumber: 51.0 Consensus size: 2
54466 AAAACAACTA
*
54476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
54519 AGT TT AT AT AT AA AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
54561 AGT TT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT
54582 GTTATGTATA
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
1 1 0.01
2 80 0.93
3 5 0.06
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:54547 original size:42 final size:42
Alignment explanation
Indices: 54481--54598 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
54471 AACTAATATA
* *
54481 TATATATATATATATATATATATATATATACACTATATAGTT
1 TATATATAAATATATATATATATATATATAAACTATATAGTT
*
54523 TATATATAAAGTATATGTAT-TATATATATAAACTATATAGTT
1 TATATATAAA-TATATATATATATATATATAAACTATATAGTT
* *
54565 TATATAT--ATATATATATGT-TATGTATAAACTATA
1 TATATATAAATATATATATATATATATATAAACTATA
54599 CATAACATGT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
39 22 0.32
40 2 0.03
42 37 0.54
43 8 0.12
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (42 bp):
TATATATAAATATATATATATATATATATAAACTATATAGTT
Found at i:54678 original size:2 final size:2
Alignment explanation
Indices: 54671--54829 Score: 52
Period size: 2 Copynumber: 81.5 Consensus size: 2
54661 CTACATAGTT
* * *
54671 TA TA TA TA AA T- TA TA TA TGA -A T- TA TA TA TA AA CTA TA CA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
54711 TT TA TA TT TA TA TA TA -A TG TA TA -A T- TA TA AA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
54750 TA TA AA T- TA TA TA GTT TA T- TA -A TA TA AA T- TA TA TA GTT TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
54790 TA TA TA TA AA CTA TA TA GTT TA TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA T
54830 GGTTTAGGGT
Statistics
Matches: 112, Mismatches: 27, Indels: 36
0.64 0.15 0.21
Matches are distributed among these distances:
1 11 0.10
2 93 0.83
3 8 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:54707 original size:20 final size:20
Alignment explanation
Indices: 54485--54817 Score: 163
Period size: 22 Copynumber: 16.4 Consensus size: 20
54475 AATATATATA
* *
54485 TATATATATA-TATATA-TA
1 TATATATAAACTATATAGTT
*
54503 TATATATACACTATATAGTT
1 TATATATAAACTATATAGTT
*
54523 TATATATAAAGTATAT-GTATT
1 TATATATAAACTATATAG--TT
54544 ATATATATAAACTATATAGTT
1 -TATATATAAACTATATAGTT
*
54565 TATATATATA-TATATA-TGT
1 TATATATAAACTATATAGT-T
* *
54584 TATGTATAAACTATACATAACATGTA
1 TATATATAAACTAT--AT---A-GTT
*
54610 TAAACTATAATACTATATAGTT
1 TATA-TATAA-ACTATATAGTT
* **
54632 TATATATGAACTAT-T-GAAC
1 TATATATAAACTATATAG-TT
* *
54651 TATATAGAAACTACATAGTT
1 TATATATAAACTATATAGTT
* *
54671 TATATATAAATTATATATGAAT
1 TATATATAAACTATATA-G-TT
* *
54693 TATATATAAACTATACAATT
1 TATATATAAACTATATAGTT
* * *
54713 TATAT-T-TA-TATATAATG
1 TATATATAAACTATATAGTT
* * *
54730 TATA-AT-TA-TAAATA-TA
1 TATATATAAACTATATAGTT
* *
54746 TATGTATAAATTATATAGTT
1 TATATATAAACTATATAGTT
*
54766 TATTAATATAAATTATATAGTTT
1 TA-T-ATATAAACTATATAG-TT
54789 ATATATATAAACTATATAGTT
1 -TATATATAAACTATATAGTT
54810 TATATATA
1 TATATATA
54818 TATAGTATAT
Statistics
Matches: 244, Mismatches: 40, Indels: 60
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.02
17 21 0.09
18 13 0.05
19 40 0.16
20 64 0.26
21 13 0.05
22 66 0.27
23 5 0.02
24 2 0.01
25 1 0.00
26 4 0.02
27 6 0.02
28 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:54746 original size:21 final size:21
Alignment explanation
Indices: 54720--54760 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
54710 ATTTATATTT
54720 ATATATAATGTAT-AATTATAA
1 ATATAT-ATGTATAAATTATAA
54741 ATATATATGTATAAATTATA
1 ATATATATGTATAAATTATA
54761 TAGTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
ATATATATGTATAAATTATAA
Found at i:54775 original size:15 final size:14
Alignment explanation
Indices: 54730--54821 Score: 60
Period size: 15 Copynumber: 6.3 Consensus size: 14
54720 ATATATAATG
*
54730 TATAATTATAAATA
1 TATATTTATAAATA
*
54744 TATATGTATAAATTA
1 TATATTTATAAA-TA
*
54759 TATAGTTTATTAATA
1 TATA-TTTATAAATA
* * *
54774 TA-AATTATATAGTT
1 TATATTTATA-AATA
*
54788 TATATATATAAACTA
1 TATATTTATAAA-TA
*
54803 TATAGTTTATATATA
1 TATA-TTTATAAATA
54818 TATA
1 TATA
54822 GTATATATGG
Statistics
Matches: 58, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
13 4 0.07
14 16 0.28
15 26 0.45
16 12 0.21
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (14 bp):
TATATTTATAAATA
Found at i:54840 original size:7 final size:7
Alignment explanation
Indices: 54830--54863 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
54820 TAGTATATAT
54830 GGTTTAG
1 GGTTTAG
54837 GGTTTAG
1 GGTTTAG
54844 GGTTTAG
1 GGTTTAG
54851 GGTTTAG
1 GGTTTAG
54858 GGTTTA
1 GGTTTA
54864 TGATTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:54870 original size:14 final size:14
Alignment explanation
Indices: 54830--54870 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
54820 TAGTATATAT
*
54830 GGTTTAGGGTTTAG
1 GGTTTAGGATTTAG
*
54844 GGTTTAGGGTTTAG
1 GGTTTAGGATTTAG
*
54858 GGTTTATGATTTA
1 GGTTTAGGATTTA
54871 AGATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGTTTAGGATTTAG
Found at i:54870 original size:21 final size:21
Alignment explanation
Indices: 54830--54870 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54820 TAGTATATAT
*
54830 GGTTTAGGGTTTAGGGTTTAG
1 GGTTTAGGGTTTAGGATTTAG
*
54851 GGTTTAGGGTTTATGATTTA
1 GGTTTAGGGTTTAGGATTTA
54871 AGATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGATTTAG
Found at i:55046 original size:20 final size:20
Alignment explanation
Indices: 54924--55048 Score: 85
Period size: 20 Copynumber: 6.0 Consensus size: 20
54914 TAGTAGTATT
*
54924 TAAACTATATATAAATA-ATA
1 TAAACTATATA-AACTATATA
* *
54944 TAAACTA-ACTTATACTATATG
1 TAAACTATA--TAAACTATATA
*
54965 TAAACTATATACACTATATA
1 TAAACTATATAAACTATATA
** *
54985 GTTTAC-ATATGAACTATATGTA
1 -TAAACTATATAAACTATA--TA
55007 TAAACTATATAAACTATATATA
1 TAAACTATATAAAC--TATATA
*
55029 TAAACTATGTAAACTATATA
1 TAAACTATATAAACTATATA
55049 ATTTACATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 35 0.43
21 17 0.21
22 25 0.30
24 4 0.05
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAACTATATAAACTATATA
Found at i:55048 original size:22 final size:22
Alignment explanation
Indices: 54959--55048 Score: 96
Period size: 22 Copynumber: 4.2 Consensus size: 22
54949 TAACTTATAC
* *
54959 TATATGTAAACTATATACACTA
1 TATATATAAACTATATAAACTA
* *
54981 TATAGT-T-TAC-ATATGAACTA
1 TATA-TATAAACTATATAAACTA
*
55001 TATGTATAAACTATATAAACTA
1 TATATATAAACTATATAAACTA
*
55023 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
55045 TATA
1 TATA
55049 ATTTACATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 12 0.21
21 4 0.07
22 38 0.68
23 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:55155 original size:27 final size:27
Alignment explanation
Indices: 55125--55180 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
55115 ATATATAATA
*
55125 TACAAATTATAGTTTATATTTATATAC
1 TACAAAGTATAGTTTATATTTATATAC
*
55152 TACATAGTATAGTTTATATTTATATAC
1 TACAAAGTATAGTTTATATTTATATAC
55179 TA
1 TA
55181 TATATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (27 bp):
TACAAAGTATAGTTTATATTTATATAC
Found at i:55200 original size:27 final size:26
Alignment explanation
Indices: 55132--55219 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
55122 ATATACAAAT
* *
55132 TATAGTTTATATTTATATACTACATA
1 TATAGATTATATTTATATACTATATA
*
55158 GTATAGTTTATATTTATATACTATATA
1 -TATAGATTATATTTATATACTATATA
55185 TAT-GAATTATAGTTTACATATGAACTATATA
1 TATAG-ATTATA-TTT--ATAT--ACTATATA
55216 TATA
1 TATA
55220 CTATACTTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.02
26 8 0.15
27 28 0.54
29 4 0.08
31 11 0.21
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (26 bp):
TATAGATTATATTTATATACTATATA
Found at i:55238 original size:53 final size:54
Alignment explanation
Indices: 55175--55438 Score: 217
Period size: 53 Copynumber: 4.8 Consensus size: 54
55165 TTATATTTAT
*
55175 ATACTATATATATGAATTATAGTTTACATATGAACTATATATATACTATACTTG
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATATATACTATACTTG
* * *
55229 ATA-TTTATATATGAACTATAGTTTACATATAAACTATATAGTTTA-TATACTAACT-
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATA-TATACTATACT---TG
* *
55284 ATAGTTTGCATATAAACT-ATAGTTGATA-TTTACATATGAACTATA-ATTTAC-ATA--TG
1 ATACTTT--ATAT--A-TGA-A-TT-ATAGTTTACATATGAACTATATATATACTATACTTG
* * * *
55340 A-ACTATATATATAAACTATATAGTTTACCTATGAACTATATATATACTATAGTTG
1 ATACTTTATATATGAA-T-TATAGTTTACATATGAACTATATATATACTATACTTG
* *
55395 ATA-TTTATATATGAACTATAGTTTACATATGACCTATATATATA
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATATATA
55439 GTTTATTAGT
Statistics
Matches: 171, Mismatches: 16, Indels: 47
0.73 0.07 0.20
Matches are distributed among these distances:
50 6 0.04
51 19 0.11
52 5 0.03
53 73 0.43
54 6 0.04
55 20 0.12
56 6 0.04
58 4 0.02
60 9 0.05
61 3 0.02
62 17 0.10
63 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (54 bp):
ATACTTTATATATGAATTATAGTTTACATATGAACTATATATATACTATACTTG
Found at i:55334 original size:18 final size:18
Alignment explanation
Indices: 55184--55432 Score: 101
Period size: 18 Copynumber: 13.7 Consensus size: 18
55174 TATACTATAT
* *
55184 ATATGAATTATAGTTTAC
1 ATATGAACTATAATTTAC
*
55202 ATATGAACTATATATATAC
1 ATATGAACTATA-ATTTAC
*
55221 -TAT--ACT-TGATATTTAT
1 ATATGAACTAT-A-ATTTAC
*
55237 ATATGAACTATAGTTTAC
1 ATATGAACTATAATTTAC
* *
55255 ATATAAACTATATAGTTTAT
1 ATATGAACTATA-A-TTTAC
* *
55275 ATACT-AACTATAGTTTGC
1 ATA-TGAACTATAATTTAC
*
55293 ATATAAACTATAGTTGATATTTAC
1 ATATGAAC--TA--T-A-ATTTAC
55317 ATATGAACTATAATTTAC
1 ATATGAACTATAATTTAC
55335 ATATGAACTAT-A--T--
1 ATATGAACTATAATTTAC
*
55348 ATATAAACTATATAGTTTAC
1 ATATGAACTATA-A-TTTAC
* *
55368 CTATGAACTATATATATAC
1 ATATGAACTATA-ATTTAC
** *
55387 -TAT-AGTTGAT-ATTTAT
1 ATATGAACT-ATAATTTAC
*
55403 ATATGAACTATAGTTTAC
1 ATATGAACTATAATTTAC
*
55421 ATATGACCTATA
1 ATATGAACTATA
55433 TATATAGTTT
Statistics
Matches: 175, Mismatches: 29, Indels: 54
0.68 0.11 0.21
Matches are distributed among these distances:
13 10 0.06
15 3 0.02
16 13 0.07
17 12 0.07
18 78 0.45
19 13 0.07
20 30 0.17
21 1 0.01
22 3 0.02
23 1 0.01
24 11 0.06
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (18 bp):
ATATGAACTATAATTTAC
Found at i:55357 original size:31 final size:33
Alignment explanation
Indices: 55317--55385 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
55307 TGATATTTAC
*
55317 ATATGAACTATA-A-TTTACATATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
*
55348 ATATAAACTATATAGTTTACCTATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
55381 ATATA
1 ATATA
55386 CTATAGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 11 0.32
32 1 0.03
33 22 0.65
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (33 bp):
ATATAAACTATATAGTTTACATATGAACTATAT
Found at i:55455 original size:24 final size:24
Alignment explanation
Indices: 55411--55458 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55401 ATATATGAAC
*
55411 TATAGTTTACATATGACCTATATA
1 TATAGTTTACATATGAACTATATA
*
55435 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
55459 AACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATATA
Found at i:55463 original size:86 final size:85
Alignment explanation
Indices: 55202--55476 Score: 298
Period size: 86 Copynumber: 3.3 Consensus size: 85
55192 TATAGTTTAC
*
55202 ATATGAACTATATATATACTATACTTGATATTTATATATGAACTATAGTTTACATAT-A--A-AC
1 ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACTATA-
*
55263 TATATAGTTTATATACTAACT
65 TATATAGTTTATATAGTAACT
*** * *
55284 ATAGTTTGC-ATATA-A-ACTATAGTTGATATTTACATATGAACTATAATTTACATATGAACTAT
1 ATA-TGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATG-ACTAT
*** *
55346 ATATATAAACTATATAGTTTAC-
64 ATATATAGTTTATATAG-TAACT
*
55368 CTATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACCTATA
1 ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGA-CTATA
55433 TATATAGTTTAT-TAGTGAACT
65 TATATAGTTTATATAGT-AACT
* * *
55454 ATATAAACTATGTATATAATATA
1 ATATGAACTATATATATACTATA
55477 TACTCTATAT
Statistics
Matches: 155, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
80 37 0.24
81 1 0.01
82 9 0.06
83 4 0.03
84 21 0.14
85 11 0.07
86 72 0.46
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (85 bp):
ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACTATAT
ATATAGTTTATATAGTAACT
Found at i:55503 original size:27 final size:27
Alignment explanation
Indices: 55491--55550 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
55481 CTATATATAA
55491 ACTATAGTTTATATTTATATACTACAT
1 ACTATAGTTTATATTTATATACTACAT
*
55518 ACTATAGTTTATATTTATATACTATAT
1 ACTATAGTTTATATTTATATACTACAT
*
55545 ATTATA
1 ACTATA
55551 TATATGAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (27 bp):
ACTATAGTTTATATTTATATACTACAT
Found at i:55509 original size:20 final size:20
Alignment explanation
Indices: 55486--55563 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 20
55476 ATACTCTATA
55486 TATAAACTATAGTTTATATTTAT
1 TATAAACTATAGTTTATA--T-T
55509 ATACTACATACTATAGTTTATATT
1 -TA-TA-A-ACTATAGTTTATATT
* *
55533 TATATACTATA-TATTATATA
1 TATAAACTATAGT-TTATATT
*
55553 TATGAACTATA
1 TATAAACTATA
55564 TATACTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
19 1 0.02
20 21 0.46
22 2 0.04
23 2 0.04
24 3 0.07
25 3 0.07
26 1 0.02
27 13 0.28
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (20 bp):
TATAAACTATAGTTTATATT
Found at i:55563 original size:11 final size:9
Alignment explanation
Indices: 55533--55574 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
55523 AGTTTATATT
55533 TATATACTA
1 TATATACTA
55542 TATATTA-TA
1 TATA-TACTA
55551 TATATGAACTA
1 TATAT--ACTA
55562 TATATACTA
1 TATATACTA
55571 TATA
1 TATA
55575 GTATAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 18 0.62
10 3 0.10
11 7 0.24
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (9 bp):
TATATACTA
Found at i:55591 original size:34 final size:36
Alignment explanation
Indices: 55533--55601 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 36
55523 AGTTTATATT
*
55533 TATATACTATATATTATATATATGAACTATATATAC
1 TATATACTATATATTATACATATGAACTATATATAC
*
55569 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATGAACTATATATA
55602 AAAACCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 18 0.58
35 3 0.10
36 10 0.32
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATGAACTATATATAC
Found at i:55686 original size:35 final size:38
Alignment explanation
Indices: 55618--55688 Score: 103
Period size: 35 Copynumber: 1.9 Consensus size: 38
55608 ATATAAACTA
*
55618 TATACTATAGTTGATATTTATATACTATATAATATAATT
1 TATACTATAGTTGATA-TTATAAACTATATAATATAATT
55657 TATACTATAG-T-ATA-TATAAACTATATAATATA
1 TATACTATAGTTGATATTATAAACTATATAATATA
55689 TATAAACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 17 0.55
37 3 0.10
38 1 0.03
39 10 0.32
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
TATACTATAGTTGATATTATAAACTATATAATATAATT
Found at i:55706 original size:18 final size:18
Alignment explanation
Indices: 55662--55895 Score: 172
Period size: 18 Copynumber: 13.6 Consensus size: 18
55652 TAATTTATAC
55662 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
55680 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
* **
55698 CATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
55714 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
**
55731 TACGGTATATATAAA--A
1 TATAGTATATATAAACTA
*
55747 CTATA-CAT-TATAAACTA
1 -TATAGTATATATAAACTA
*
55764 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
55782 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* * **
55800 TACATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
55818 TA-AGTATATATAAACTA
1 TATAGTATATATAAACTA
*
55835 TATAGTATATGTAAACTA
1 TATAGTATATATAAACTA
* **
55853 CATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
*
55869 T-TAGTATATATAACCTA
1 TATAGTATATATAAACTA
55886 TATAGTATAT
1 TATAGTATAT
55896 GACATATACA
Statistics
Matches: 167, Mismatches: 31, Indels: 36
0.71 0.13 0.15
Matches are distributed among these distances:
15 14 0.08
16 20 0.12
17 34 0.20
18 99 0.59
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:55719 original size:51 final size:51
Alignment explanation
Indices: 55664--55953 Score: 298
Period size: 51 Copynumber: 5.5 Consensus size: 51
55654 ATTTATACTA
*
55664 TAGTATATATAAACTATATAATATATATAAACTACATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTACATATTATATAGTTCAT
** * * **
55715 TAGTATATATAAACTATACGGTATATATAAAACTATACATTATA-AACT-AT
1 TAGTATATATAAACTATATAGTATATAT-AAACTACATATTATATAGTTCAT
* * *
55765 ATAATATATATAAACTATATGGTATATATAAACTATACAT-TATATATATTTCAT
1 -TAGTATATATAAACTATATAGTATATATAAAC--TACATAT-TATATAGTTCAT
* *
55819 AAGTATATATAAACTATATAGTATATGTAAACTACATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTACATATTATATAGTTCAT
* * * *
55870 TAGTATATATAACCTATATAGTATATGACATATACAAACTATATATTATACAGTGCAT
1 TAGTATATATAAACTATATAG--TAT---ATAT--AAACTACATATTATATAGTTCAT
*
55928 TAGTATATATAACCTATATAGTATAT
1 TAGTATATATAAACTATATAGTATAT
55954 GGTATATACA
Statistics
Matches: 200, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
50 6 0.03
51 89 0.44
52 21 0.10
53 35 0.17
54 2 0.01
56 6 0.03
58 41 0.20
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (51 bp):
TAGTATATATAAACTATATAGTATATATAAACTACATATTATATAGTTCAT
Found at i:55843 original size:104 final size:102
Alignment explanation
Indices: 55662--55953 Score: 275
Period size: 104 Copynumber: 2.8 Consensus size: 102
55652 TAATTTATAC
* *
55662 TATAGTATATATAAACTATATAATATATATAAACTACATATTATATAGTTCATTAGTATATATAA
1 TATAATATATATAAACTATATAATATATATAAACTACATATTATATAGTTCATAAGTATATATAA
*
55727 ACTATACGGTATATATAAAACTATACATTATAAACTA
66 ACTATACAGTATATATAAAACTATACATTATAAACTA
** *
55764 TATAATATATATAAACTATATGGTATATATAAACTATACAT-TATATATATTTCATAAGTATATA
1 TATAATATATATAAACTATATAATATATATAAAC--TACATAT-TATATAGTTCATAAGTATATA
* * * * * *
55828 TAAACTATATAGTATATGT-AAACTACATATTATATAGT-
63 TAAACTATACAGTATATATAAAACTATACATTATAAACTA
* * * * * *
55866 TCATTAGTATATATAACCTATATAGTATATGACATATACAAACTATATATTATACAGTGCATTAG
1 T-A-TAATATATATAAACTATATA--ATAT---ATAT--AAACTACATATTATATAGTTCATAAG
* *
55931 TATATATAACCTATATAGTATAT
57 TATATATAAACTATACAGTATAT
55954 GGTATATACA
Statistics
Matches: 155, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
102 32 0.21
103 17 0.11
104 57 0.37
106 3 0.02
109 41 0.26
110 1 0.01
111 4 0.03
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (102 bp):
TATAATATATATAAACTATATAATATATATAAACTACATATTATATAGTTCATAAGTATATATAA
ACTATACAGTATATATAAAACTATACATTATAAACTA
Found at i:55916 original size:58 final size:58
Alignment explanation
Indices: 55847--55976 Score: 215
Period size: 58 Copynumber: 2.2 Consensus size: 58
55837 TAGTATATGT
* * *
55847 AAACTACATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGACATATAC
1 AAACTATATATTATACAGTGCATTAGTATATATAACCTATATAGTATATGACATATAC
**
55905 AAACTATATATTATACAGTGCATTAGTATATATAACCTATATAGTATATGGTATATAC
1 AAACTATATATTATACAGTGCATTAGTATATATAACCTATATAGTATATGACATATAC
55963 AAACTATATATTAT
1 AAACTATATATTAT
55977 TTATAATTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (58 bp):
AAACTATATATTATACAGTGCATTAGTATATATAACCTATATAGTATATGACATATAC
Found at i:56013 original size:17 final size:17
Alignment explanation
Indices: 55956--56013 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
55946 TAGTATATGG
* *
55956 TATATACAAACTATATAT
1 TATATATAAA-TATAAAT
* * *
55974 TATTTATAATTATACAT
1 TATATATAAATATAAAT
55991 TATATATAAATATAAAT
1 TATATATAAATATAAAT
*
56008 TGTATA
1 TATATA
56014 GTTTATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 25 0.78
18 7 0.22
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATATAAATATAAAT
Found at i:56033 original size:20 final size:20
Alignment explanation
Indices: 56010--56077 Score: 50
Period size: 22 Copynumber: 3.4 Consensus size: 20
56000 ATATAAATTG
56010 TATAGTTTATATATAATTCA
1 TATAGTTTATATATAATTCA
* *
56030 TATACAATTTATATATAA-ACTA
1 TAT--AGTTTATATATAATTC-A
* * *
56052 TGTAGTTTCTATATAGTTCA
1 TATAGTTTATATATAATTCA
56072 -ATAGTT
1 TATAGTT
56078 CATTAGTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
19 5 0.14
20 14 0.39
21 2 0.06
22 15 0.42
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (20 bp):
TATAGTTTATATATAATTCA
Found at i:56761 original size:112 final size:112
Alignment explanation
Indices: 56539--56772 Score: 330
Period size: 113 Copynumber: 2.1 Consensus size: 112
56529 TTCTCTCTAG
* * *
56539 AAATTTATCCGTGTTCTCCATTTGTTCATCTCAGTTCTTCCTCAAACCATCATTTGATCTTCAAA
1 AAATTCATCCGTGTTCTCCATTTGTTCATCCCAATTCTTCCTCAAACCATCATTTGATCTTCAAA
56604 AACACAAAAACCCAAACAATTTCGTGTTTTTTCGATCAAACACCCA-
66 AACACAAAAACCCAAACAATTTCGTGTTTTTTCGATCAAACACCCAC
* * *
56650 AATATTCATCCGTGTTCTTCATTTGTTCATCCCAATTCTTTCC-CAAAACCCTTATTTGATCTTC
1 AA-ATTCATCCGTGTTCTCCATTTGTTCATCCCAATTC-TTCCTC-AAACCATCATTTGATCTTC
** * *
56714 AAAAACACCGAAACCCAAACCATTTCGTGTTTTTT-TATCAAACACCCAC
63 AAAAACACAAAAACCCAAACAATTTCGTGTTTTTTCGATCAAACACCCAC
56763 AAATTCATCC
1 AAATTCATCC
56773 ATTTTTCATA
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
111 2 0.02
112 52 0.48
113 55 0.50
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (112 bp):
AAATTCATCCGTGTTCTCCATTTGTTCATCCCAATTCTTCCTCAAACCATCATTTGATCTTCAAA
AACACAAAAACCCAAACAATTTCGTGTTTTTTCGATCAAACACCCAC
Found at i:56934 original size:18 final size:18
Alignment explanation
Indices: 56890--56934 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
56880 CCCTAACCTT
*
56890 AACCTTAACCCAAACCCG
1 AACCTAAACCCAAACCCG
* * *
56908 ATCCCAAACCTAAACCCG
1 AACCTAAACCCAAACCCG
56926 AACCTAAAC
1 AACCTAAAC
56935 TATTCGAAAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.42, G:0.04, T:0.11
Consensus pattern (18 bp):
AACCTAAACCCAAACCCG
Found at i:57151 original size:2 final size:2
Alignment explanation
Indices: 57144--57168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57134 TATATGCTTG
57144 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57169 CATACTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57269 original size:63 final size:63
Alignment explanation
Indices: 57177--57397 Score: 336
Period size: 63 Copynumber: 3.5 Consensus size: 63
57167 TACATACTGG
* *
57177 TTTATTGTTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTT
* * *
57240 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTCACGTAAACTAACCTTGGTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTT
*
57303 TTTATTGCTGTTGATGTAAATGATATACTTTCAGAAGCATTTAATGTAAACTAACCATGGTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTT
* ** *
57366 TTT-TTGCAAGGGGATGCAAATGATATACTGTC
1 TTTATTGC-TGTTGATGTAAATGATATACTGTC
57398 CGAAACAATT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 4 0.03
63 140 0.97
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (63 bp):
TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTT
Found at i:59862 original size:23 final size:22
Alignment explanation
Indices: 59828--59870 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
59818 TGTTTTCTTA
59828 ATGCAAGATGCTTGCTGAATCG
1 ATGCAAGATGCTTGCTGAATCG
*
59850 ATGCAACGATGCTTGTTGAAT
1 ATGCAA-GATGCTTGCTGAAT
59871 TGGAACATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
ATGCAAGATGCTTGCTGAATCG
Found at i:60492 original size:21 final size:20
Alignment explanation
Indices: 60453--60490 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
60443 ATTTAAATTT
60453 AATTTAGTAATTATAAATAA
1 AATTTAGTAATTATAAATAA
60473 AATTTA-TAA-TAT-AATAA
1 AATTTAGTAATTATAAATAA
60490 A
1 A
60491 TATAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 3 0.17
20 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTTAGTAATTATAAATAA
Found at i:65208 original size:2 final size:2
Alignment explanation
Indices: 65201--65281 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
65191 TTCCTCTTTC
65201 AT AT AT AT AT 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 AT
65243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65282 GGTTACTATC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65307 original size:21 final size:21
Alignment explanation
Indices: 65281--65323 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65271 ATATATATAT
*
65281 AGGTTACTATCTTTTAGGTGC
1 AGGTTACTAGCTTTTAGGTGC
*
65302 AGGTTAGTAGCTTTTAGGTGC
1 AGGTTACTAGCTTTTAGGTGC
65323 A
1 A
65324 TGTGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.40
Consensus pattern (21 bp):
AGGTTACTAGCTTTTAGGTGC
Found at i:68111 original size:16 final size:17
Alignment explanation
Indices: 68090--68125 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
68080 TTAACGTTAT
68090 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
68106 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
68123 TTT
1 TTT
68126 TTCTCAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:68917 original size:34 final size:34
Alignment explanation
Indices: 68878--68962 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
68868 TATATATATA
68878 TATATATATAATATTTTATATATTT-TATATTAAT
1 TATATATATAATATTTTATAT-TTTGTATATTAAT
68912 TATATATATAATATTTTATATTTTGTATATTAAT
1 TATATATATAATATTTTATATTTTGTATATTAAT
68946 TATATATATAATATTTT
1 TATATATATAATATTTT
68963 CGTGTTCGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 3 0.06
34 47 0.94
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTGTATATTAAT
Found at i:68950 original size:25 final size:25
Alignment explanation
Indices: 68866--68933 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
68856 CCCCGCCCTG
*
68866 ATTATATATA-TATA-TATATA-TA
1 ATTATATATATTATATTTTATATTA
*
68888 A-TAT-TTTA-TATATTTTATATTA
1 ATTATATATATTATATTTTATATTA
*
68910 ATTATATATATAATATTTTATATT
1 ATTATATATATTATATTTTATATT
68934 TTGTATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 7 0.19
21 8 0.22
22 4 0.11
23 3 0.08
24 3 0.08
25 12 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTATATATATTATATTTTATATTA
Found at i:72738 original size:19 final size:19
Alignment explanation
Indices: 72716--72753 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
72706 AAAGATATTT
72716 ACATCTA-ATAAATTTTATA
1 ACATCTATAT-AATTTTATA
*
72735 ACATCTCTATAATTTTATA
1 ACATCTATATAATTTTATA
72754 TTTTAGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (19 bp):
ACATCTATATAATTTTATA
Found at i:76955 original size:21 final size:21
Alignment explanation
Indices: 76931--76970 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
76921 ATATTTTCCA
*
76931 GAAAAATAATCGATCCCTTTT
1 GAAAAATAATCAATCCCTTTT
*
76952 GAAAAATGATCAATCCCTT
1 GAAAAATAATCAATCCCTT
76971 GGAAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (21 bp):
GAAAAATAATCAATCCCTTTT
Found at i:76975 original size:20 final size:21
Alignment explanation
Indices: 76931--76976 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
76921 ATATTTTCCA
* *
76931 GAAAAATAATCGATCCCTTTT
1 GAAAAATAATCAATCCCTTTG
*
76952 GAAAAATGATCAATCCC-TTG
1 GAAAAATAATCAATCCCTTTG
76972 GAAAA
1 GAAAA
76977 GAGATATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (21 bp):
GAAAAATAATCAATCCCTTTG
Found at i:76996 original size:20 final size:20
Alignment explanation
Indices: 76932--76996 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
76922 TATTTTCCAG
* *
76932 AAAAATAATCGATCCCTTTT
1 AAAAATGATCAATCCCTTTT
**
76952 GAAAAATGATCAATCCCTTGG
1 -AAAAATGATCAATCCCTTTT
76973 AAAAGA-GAT-ATATCCCTTTT
1 AAAA-ATGATCA-ATCCCTTTT
76993 AAAA
1 AAAA
76997 CATTTCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.50
21 17 0.47
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (20 bp):
AAAAATGATCAATCCCTTTT
Done.