Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008002.1 Hibiscus syriacus cultivar Beakdansim tig00110461_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: 1031338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:939 original size:21 final size:23
Alignment explanation
Indices: 915--964 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
905 ATGCAATGAT
* *
915 AATATT-TTAAAA-TGTTTATTA
1 AATATTATTAAAACCGTTTATCA
936 AATATTAATTAAAACCGTTTATCA
1 AATATT-ATTAAAACCGTTTATCA
960 AATAT
1 AATAT
965 AAAATTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
23 6 0.25
24 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (23 bp):
AATATTATTAAAACCGTTTATCA
Found at i:1240 original size:13 final size:14
Alignment explanation
Indices: 1222--1251 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1212 AGCAAAGCAT
1222 AGAAGAAGAAA-AA
1 AGAAGAAGAAAGAA
1235 AGAAGAAGAAAGAA
1 AGAAGAAGAAAGAA
1249 AGA
1 AGA
1252 CAGCTTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAAGAA
Found at i:6476 original size:8 final size:8
Alignment explanation
Indices: 6466--6501 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
6456 CTTCCCCATA
*
6466 TATATATA
1 TATATATG
6474 TATATATG
1 TATATATG
*
6482 TATGTATG
1 TATATATG
6490 TATATATG
1 TATATATG
6498 TATA
1 TATA
6502 GCCTCTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:7106 original size:2 final size:2
Alignment explanation
Indices: 7099--7158 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
7089 ACATACATGC
7099 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
7141 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
7159 CATGCATGCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11937 original size:26 final size:26
Alignment explanation
Indices: 11901--11952 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11891 TGGAGACATC
11901 TGCTTACAAAATAAGCCATTTCAGAA
1 TGCTTACAAAATAAGCCATTTCAGAA
11927 TGCTTACAAAATAAGCCATTTCAGAA
1 TGCTTACAAAATAAGCCATTTCAGAA
11953 GCAAGGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (26 bp):
TGCTTACAAAATAAGCCATTTCAGAA
Found at i:14444 original size:26 final size:25
Alignment explanation
Indices: 14392--14450 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
14382 ATGTATGTAT
*
14392 AAAAATTGATTGAAATGTTAAACAAA
1 AAAAATTGATTGAAATG-TAAAAAAA
*
14418 AAAAATTGATTGAAATGAAATGAAAAA
1 AAAAATTGATTGAAATGTAA--AAAAA
14445 AAAAAT
1 AAAAAT
14451 ATGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.59
27 10 0.34
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (25 bp):
AAAAATTGATTGAAATGTAAAAAAA
Found at i:28787 original size:4 final size:4
Alignment explanation
Indices: 28778--28813 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
28768 AATAATGTAT
*
28778 ATTA ATTA ATTA ATTA ATTA ATTA ATTA CTTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
28814 GTTTTGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:30346 original size:38 final size:39
Alignment explanation
Indices: 30266--30348 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
30256 AATCATATCT
* *
30266 AAAA-TTTAGATTTTGTTTCATTTTAGTACCCATCGTTA
1 AAAATTTTAGATTTTGTTTCATTTTAGTACCCACCATTA
* *
30304 AAAATTTTAGCTTTTGTTTCATTTTAGTACCC-CCATTC
1 AAAATTTTAGATTTTGTTTCATTTTAGTACCCACCATTA
30342 AAAATTT
1 AAAATTT
30349 AACATTAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 14 0.35
39 26 0.65
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (39 bp):
AAAATTTTAGATTTTGTTTCATTTTAGTACCCACCATTA
Found at i:34504 original size:156 final size:160
Alignment explanation
Indices: 34267--34584 Score: 590
Period size: 157 Copynumber: 2.0 Consensus size: 160
34257 TATTCATAAC
34267 CTTCTATCTAATTCTTAACAAACACTTGAATTGCATGTAAATAATATTAAAAGAAATGAGATGAA
1 CTTCTATCTAATTCTTAACAAACA--TGAATTGCATGTAAATAATATTAAAAGAAATGAGATGAA
34332 ACCTGGATTTCTCACTGTGGCATGAACCTTAT-ACATCTTTCAAGACGAAGC-TCACCAACCATG
64 ACCTGGATTTCTCACTGTGGCATGAACCTTATAACATCTTTCAAGACGAAGCTTCACCAACCATG
34395 AACCGATGTAACCCGTGGATCCGGTGACACAA
129 AACCGATGTAACCCGTGGATCCGGTGACACAA
34427 CTTCTATCTAATTCTTAACAAACA-GAATTGCATGTAAATAATATTAAAAG-AATGAGATGAAAC
1 CTTCTATCTAATTCTTAACAAACATGAATTGCATGTAAATAATATTAAAAGAAATGAGATGAAAC
34490 CTGGATTTCTCACTGTGGCATGAACCTTATAACATCTTTCAAGACGAAGCTTCACCAACCATGAA
66 CTGGATTTCTCACTGTGGCATGAACCTTATAACATCTTTCAAGACGAAGCTTCACCAACCATGAA
34555 CCGATGTAACCCGTGGATCCGGTGACACAA
131 CCGATGTAACCCGTGGATCCGGTGACACAA
34585 TACGTCGGAG
Statistics
Matches: 156, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
156 43 0.28
157 45 0.29
158 44 0.28
160 24 0.15
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (160 bp):
CTTCTATCTAATTCTTAACAAACATGAATTGCATGTAAATAATATTAAAAGAAATGAGATGAAAC
CTGGATTTCTCACTGTGGCATGAACCTTATAACATCTTTCAAGACGAAGCTTCACCAACCATGAA
CCGATGTAACCCGTGGATCCGGTGACACAA
Found at i:38420 original size:2 final size:2
Alignment explanation
Indices: 38415--38455 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
38405 AAAATAAAAT
38415 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38456 AAAACGAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:46031 original size:20 final size:20
Alignment explanation
Indices: 46002--46046 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
45992 CACTGAGTTT
*
46002 TTAAAGTTATAAAATAATTA
1 TTAAATTTATAAAATAATTA
*
46022 TTAAATTTATCAAATAATTA
1 TTAAATTTATAAAATAATTA
46042 -TAAAT
1 TTAAAT
46047 GACCAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAAATTTATAAAATAATTA
Found at i:46193 original size:30 final size:29
Alignment explanation
Indices: 46102--46197 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 29
46092 TAAGTTTCGT
*
46102 TGACTATTTTATACTTATTTGATAAAATTTAA
1 TGACTATTTTATA--TATTT-TTAAAATTTAA
* * *
46134 -AATTATTTTATA-ATATTTCAATAAGTTTAA
1 TGACTATTTTATATAT-TTTTAA-AA-TTTAA
46164 TGACTATTTTATATATTTTTAAAACTTTAA
1 TGACTATTTTATATATTTTTAAAA-TTTAA
46194 TGAC
1 TGAC
46198 AAAAACCATA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 4 0.08
29 4 0.08
30 16 0.31
31 25 0.49
32 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (29 bp):
TGACTATTTTATATATTTTTAAAATTTAA
Found at i:46813 original size:184 final size:184
Alignment explanation
Indices: 46578--46948 Score: 622
Period size: 184 Copynumber: 2.0 Consensus size: 184
46568 ATTAAATTTT
* * *
46578 AAATTTTAAATATATTATATAAACATATGTGCTCAGCCCAAACCATTTAAAACCCAATTAATAAT
1 AAATATTAAATATATTATATAAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAAT
*
46643 TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAATTTAT-ATAAAATTT
66 TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATGTATCATAAAA-TT
* *
46706 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTT-AATTGAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTTGAATTAAA
*
46761 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACTATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATA-AACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
46826 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATGTATCTTAAAATT
65 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATGTATCATAAAATT
46891 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
46946 AAA
1 AAA
46949 ACATTTAATT
Statistics
Matches: 176, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
183 20 0.11
184 92 0.52
185 59 0.34
186 5 0.03
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (184 bp):
AAATATTAAATATATTATATAAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAAT
TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATGTATCATAAAATTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
Found at i:47104 original size:15 final size:14
Alignment explanation
Indices: 47080--47117 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
47070 AAGAAAAAAA
47080 AGTTTGGTTAATTC
1 AGTTTGGTTAATTC
47094 AGTTATGGTTAATTC
1 AGTT-TGGTTAATTC
*
47109 GGTTTGGTT
1 AGTTTGGTT
47118 CGGTTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.50
Consensus pattern (14 bp):
AGTTTGGTTAATTC
Found at i:50234 original size:11 final size:11
Alignment explanation
Indices: 50115--50281 Score: 57
Period size: 11 Copynumber: 15.3 Consensus size: 11
50105 TTAAACATCT
*
50115 TTATTAAAATA
1 TTATTATAATA
* *
50126 TTATTAGATTA
1 TTATTATAATA
50137 TTA-TATTAATA
1 TTATTA-TAATA
50148 TTAAATATATAAATA
1 TT--AT-TAT-AATA
*
50163 ATATTAT--TCA
1 TTATTATAAT-A
50173 TTATTAATAAT-
1 TTATT-ATAATA
*
50184 TTTTTAT-ATA
1 TTATTATAATA
*
50194 TTATTAAAATA
1 TTATTATAATA
* *
50205 ATAATATAATA
1 TTATTATAATA
*
50216 -T-CT-T-ATA
1 TTATTATAATA
50223 TTATTATAATA
1 TTATTATAATA
* **
50234 TAATTGAGCATA
1 TTATT-ATAATA
50246 TTATTATAATA
1 TTATTATAATA
*
50257 TTA-TAAATATA
1 TTATTATA-ATA
*
50268 TTATTACAATA
1 TTATTATAATA
50279 TTA
1 TTA
50282 ATAAATATAT
Statistics
Matches: 115, Mismatches: 22, Indels: 38
0.66 0.13 0.22
Matches are distributed among these distances:
7 3 0.03
8 2 0.02
9 5 0.04
10 19 0.17
11 60 0.52
12 14 0.12
13 4 0.03
14 1 0.01
15 7 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
TTATTATAATA
Found at i:50235 original size:23 final size:21
Alignment explanation
Indices: 50205--50300 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 21
50195 TATTAAAATA
50205 ATAATATAATATCTTATATTATT
1 ATAATATAATA-C-TATATTATT
50228 ATAATATAATTGAGC-ATATTATT
1 ATAATATAA-T-A-CTATATTATT
* *
50251 ATAATATTATAAATATATTATT
1 ATAATATAAT-ACTATATTATT
* *
50273 ACAATATTAATAAATATATT-TT
1 ATAATA-TAAT-ACTATATTATT
50295 A-AATAT
1 ATAATAT
50301 TTTAATAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
20 1 0.02
21 4 0.06
22 18 0.29
23 37 0.59
24 1 0.02
25 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAATATAATACTATATTATT
Found at i:50297 original size:11 final size:11
Alignment explanation
Indices: 50254--50300 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
50244 TATTATTATA
50254 ATATTATAAAT
1 ATATTATAAAT
50265 ATATTATTACAAT
1 ATATTA-TA-AAT
*
50278 AT-TAATAAAT
1 ATATTATAAAT
*
50288 ATATTTTAAAT
1 ATATTATAAAT
50299 AT
1 AT
50301 TTTAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.17
11 16 0.53
12 4 0.13
13 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTATAAAT
Found at i:50308 original size:23 final size:22
Alignment explanation
Indices: 50243--50301 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
50233 ATAATTGAGC
*
50243 ATATTATTATAATATT-ATAAAT
1 ATATT-TTACAATATTAATAAAT
50265 ATATTATTACAATATTAATAAAT
1 ATATT-TTACAATATTAATAAAT
50288 ATATTTTA-AATATT
1 ATATTTTACAATATT
50302 TTAATAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 6 0.17
22 18 0.51
23 11 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTTTACAATATTAATAAAT
Found at i:52526 original size:25 final size:25
Alignment explanation
Indices: 52492--52541 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
52482 CTTGGTAAGT
*
52492 TGGTATGGCAAAATTTATGTATGAA
1 TGGTATGGCAAAATTTACGTATGAA
52517 TGGTATGGCAAAATTTACGTATGAA
1 TGGTATGGCAAAATTTACGTATGAA
52542 CATGGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (25 bp):
TGGTATGGCAAAATTTACGTATGAA
Found at i:55308 original size:19 final size:19
Alignment explanation
Indices: 55284--55320 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
55274 ATGAACCTGC
55284 AGATTATTGTGGAAGCTTG
1 AGATTATTGTGGAAGCTTG
55303 AGATTATTGTGGAAGCTT
1 AGATTATTGTGGAAGCTT
55321 TGATGATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (19 bp):
AGATTATTGTGGAAGCTTG
Found at i:65256 original size:2 final size:2
Alignment explanation
Indices: 65249--65303 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
65239 TTAATAAAAC
65249 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65291 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
65304 GTGTGTGTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65533 original size:22 final size:22
Alignment explanation
Indices: 65503--65546 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65493 TATGTATTCT
*
65503 TATGCCTTTATGACATATTTTC
1 TATGCCTTTATGACACATTTTC
*
65525 TATGTCTTTATGACACATTTTC
1 TATGCCTTTATGACACATTTTC
65547 GATCGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (22 bp):
TATGCCTTTATGACACATTTTC
Found at i:67907 original size:16 final size:15
Alignment explanation
Indices: 67877--67910 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
67867 ATGGATATCT
67877 AAATATTAATTTTAA
1 AAATATTAATTTTAA
*
67892 AAATATTAATTTTTA
1 AAATATTAATTTTAA
67907 AAAT
1 AAAT
67911 TAATGGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATTAATTTTAA
Found at i:67914 original size:13 final size:15
Alignment explanation
Indices: 67876--67914 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
67866 AATGGATATC
67876 TAAATATTAATTTTA
1 TAAATATTAATTTTA
*
67891 AAAATATTAATTTT-
1 TAAATATTAATTTTA
67905 TAAA-ATTAAT
1 TAAATATTAAT
67915 GGCAGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.27
14 3 0.14
15 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAATATTAATTTTA
Found at i:68575 original size:6 final size:6
Alignment explanation
Indices: 68564--68588 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
68554 TATACCCTGA
68564 ACTTGG ACTTGG ACTTGG ACTTGG A
1 ACTTGG ACTTGG ACTTGG ACTTGG A
68589 GAGTCAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
ACTTGG
Found at i:76013 original size:22 final size:22
Alignment explanation
Indices: 75988--76036 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
75978 AGTATAATTT
75988 TATGAGGAAGAATTAGGTGTTA
1 TATGAGGAAGAATTAGGTGTTA
*** *
76010 TATGATTTAGAATTGGGTGTTA
1 TATGAGGAAGAATTAGGTGTTA
76032 TATGA
1 TATGA
76037 TTTAGGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.39
Consensus pattern (22 bp):
TATGAGGAAGAATTAGGTGTTA
Found at i:76037 original size:22 final size:22
Alignment explanation
Indices: 75996--76041 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
75986 TTTATGAGGA
75996 AGAATTAGGTGTTATATGATTT
1 AGAATTAGGTGTTATATGATTT
*
76018 AGAATTGGGTGTTATATGATTT
1 AGAATTAGGTGTTATATGATTT
76040 AG
1 AG
76042 GTATGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (22 bp):
AGAATTAGGTGTTATATGATTT
Found at i:76085 original size:2 final size:2
Alignment explanation
Indices: 76078--76122 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
76068 AATTAAGTAT
76078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76120 TA T
1 TA T
76123 GTTTATAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78579 original size:23 final size:23
Alignment explanation
Indices: 78544--78601 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
78534 AATCTTATAT
*
78544 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
78567 GGCACTTCTGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
78590 GGCACTCCGGTG
1 GGCACTACGGTG
78602 TATTTATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:78959 original size:2 final size:2
Alignment explanation
Indices: 78954--78985 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78944 TTGTGAAGCA
78954 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
78986 GTTTGGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82467 original size:24 final size:24
Alignment explanation
Indices: 82435--82490 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
82425 CTATTCTTTC
82435 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
82459 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
82483 GCTTCAAT
1 GCTTCAAT
82491 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:86869 original size:23 final size:23
Alignment explanation
Indices: 86819--86894 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
86809 AACTTACCAT
* *
86819 AAAGGTAGAGATAAAAGTG-CTAC
1 AAAGGCAGAGATAAACGTGTC-AC
* *
86842 AAAGGCAGGGATAAATGTGTCAC
1 AAAGGCAGAGATAAACGTGTCAC
* *
86865 CAAGGAAGAGATAAACGTGTCAC
1 AAAGGCAGAGATAAACGTGTCAC
86888 AAAGGCA
1 AAAGGCA
86895 TAATTATTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.14
Consensus pattern (23 bp):
AAAGGCAGAGATAAACGTGTCAC
Found at i:87419 original size:200 final size:203
Alignment explanation
Indices: 87167--87600 Score: 664
Period size: 200 Copynumber: 2.1 Consensus size: 203
87157 GTTTTTCAAT
87167 AAACGCCGCTAAAACTCATACTTTAGTGGCGTTTATTCACAAACGCCGCTAAAGATAAGTACTTT
1 AAACGCCGCTAAAACTCATACTTTAGTGGCGTTTATTCACAAACGCCGCTAAAGATAAGTACTTT
87232 AGTGGCGTTT-TTAAACAAACG-GCCATAGAATCGTTCTTTAGTGGCGTTTTTAAACAAA-A-GT
66 AGTGGCGTTTGTT-AACAAACGCGCCATAGAATCGTTCTTTAGTGGCGTTTTTAAACAAACACG-
* * *
87293 CAATAGGGTACATATATTGTGGC-ATTTTAGATAAACGCCGCTAAAACCTAGTACTTTAGAGGCG
129 CAATAGGGTACATATATCGTGGCGATTTTAAATAAACGCCGCTAAAACCTAATACTTTAGAGGCG
87357 TTTTATGCAA
194 TTTTATGCAA
*
87367 AAACGCTGCTAAAACTCATACTTTAGTGGCGTTTATTCGACAAACG-CGCTAAAGATAAGTACTT
1 AAACGCCGCTAAAACTCATACTTTAGTGGCGTTTATTC-ACAAACGCCGCTAAAGATAAGTACTT
* * *
87431 TAGTGGCGTTTGTTTACAAACGCCGTCATAGAATCGTTCTTTAGTGGCGTTTTTAAATAAACGAC
65 TAGTGGCGTTTGTTAACAAACG-CGCCATAGAATCGTTCTTTAGTGGCGTTTTTAAACAAAC-AC
* * *
87496 GCAATAGGGTACATATATCGTTGCGTTTTTAAATAAACGCCGCTAAAACCTAATACTTTAGTGGC
128 GCAATAGGGTACATATATCGTGGCGATTTTAAATAAACGCCGCTAAAACCTAATACTTTAGAGGC
**
87561 GTTTTATTTAA
193 GTTTTATGCAA
87572 AAACGCCGCTAAATACTCATACTTTAGTG
1 AAACGCCGCTAAA-ACTCATACTTTAGTG
87601 ACAATTTTAG
Statistics
Matches: 212, Mismatches: 13, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
200 73 0.34
201 9 0.04
202 35 0.17
204 22 0.10
205 58 0.27
206 15 0.07
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (203 bp):
AAACGCCGCTAAAACTCATACTTTAGTGGCGTTTATTCACAAACGCCGCTAAAGATAAGTACTTT
AGTGGCGTTTGTTAACAAACGCGCCATAGAATCGTTCTTTAGTGGCGTTTTTAAACAAACACGCA
ATAGGGTACATATATCGTGGCGATTTTAAATAAACGCCGCTAAAACCTAATACTTTAGAGGCGTT
TTATGCAA
Found at i:87563 original size:41 final size:40
Alignment explanation
Indices: 87157--87643 Score: 232
Period size: 41 Copynumber: 12.0 Consensus size: 40
87147 ACATTAACGG
* * *
87157 GTTTTTCAATAAACGCCGCTAAAACTCATACTTTAGTGGC
1 GTTTTTAAACAAACGCCGCTAAAACTAATACTTTAGTGGC
*
87197 GTTTATT-CACAAACGCCGCTAAAGA-TAAGTACTTTAGTGGC
1 GTTT-TTAAACAAACGCCGCTAAA-ACTAA-TACTTTAGTGGC
* * ** *
87238 GTTTTTAAACAAACGGCC-ATAGAA-TCGTTCTTTAGTGGC
1 GTTTTTAAACAAAC-GCCGCTAAAACTAATACTTTAGTGGC
* * ** ***
87277 GTTTTTAAACAAAAGTCAAT-AGGGTACATA-TATT-GTGGC
1 GTTTTTAAACAAACGCCGCTAAAACTA-ATACT-TTAGTGGC
* * * * *
87316 -ATTTTAGATAAACGCCGCTAAAACCTAGTACTTTAGAGGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAATACTTTAGTGGC
* * *
87356 GTTTTATGCAA-AAACGCTGCTAAAACTCATACTTTAGTGGC
1 GTTTT-T-AAACAAACGCCGCTAAAACTAATACTTTAGTGGC
**
87397 GTTTATTCGACAAACG-CGCTAAAGA-TAAGTACTTTAGTGGC
1 GTTT-TTAAACAAACGCCGCTAAA-ACTAA-TACTTTAGTGGC
* * ** *
87438 GTTTGTT-TACAAACGCCGTCATAGAA-TCGTTCTTTAGTGGC
1 GTTT-TTAAACAAACGCCG-C-TAAAACTAATACTTTAGTGGC
* * ** * * *
87479 GTTTTTAAATAAACGACGC-AATAGGGTACATA-TATCGTTGC
1 GTTTTTAAACAAACGCCGCTAA-A-ACTA-ATACTTTAGTGGC
*
87520 GTTTTTAAATAAACGCCGCTAAAACCTAATACTTTAGTGGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAATACTTTAGTGGC
* * *
87561 GTTTTATTTAA-AAACGCCGCTAAATACTCATACTTTAGTGAC
1 G-TTT-TTAAACAAACGCCGCTAAA-ACTAATACTTTAGTGGC
** * * *
87603 AATTTTAGACAAACGCCGCTAAAACCTAGTACTTTATTGGC
1 GTTTTTAAACAAACGCCGCTAAAA-CTAATACTTTAGTGGC
87644 ATTTAACCCT
Statistics
Matches: 338, Mismatches: 73, Indels: 71
0.70 0.15 0.15
Matches are distributed among these distances:
38 15 0.04
39 39 0.12
40 61 0.18
41 160 0.47
42 54 0.16
43 9 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (40 bp):
GTTTTTAAACAAACGCCGCTAAAACTAATACTTTAGTGGC
Found at i:88105 original size:19 final size:20
Alignment explanation
Indices: 88060--88105 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
88050 AAATGTTTGG
88060 GTTTTC-TAGCTTTTTACAC
1 GTTTTCTTAGCTTTTTACAC
88079 GTTTTCTTA-CTTTTTACAC
1 GTTTTCTTAGCTTTTTACAC
88098 GTTTTCTT
1 GTTTTCTT
88106 GATCTGGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.59
Consensus pattern (20 bp):
GTTTTCTTAGCTTTTTACAC
Found at i:92493 original size:42 final size:43
Alignment explanation
Indices: 92420--92647 Score: 311
Period size: 43 Copynumber: 5.3 Consensus size: 43
92410 GTTTGTATAG
* *
92420 AAAAACGCCGCTATAAAT-TCCGACCTTTTGCGGCGTTTGTTCC
1 AAAAATGCCGCTATAAATCT-CGACCTTTTGCGGCATTTGTTCC
* * * *
92463 AAAAATGCTGCTATAGATAT-GACCTTTTGCGGCATTTGTTTC
1 AAAAATGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
*
92505 AAAAACGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
1 AAAAATGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
* *
92548 -AAAATCGCCGCTATAGATCT-GACCTTTTACGGCATTTGTTCC
1 AAAAAT-GCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
* *
92590 AAAAATGCCGCTATAAATCTCGACCTTTAGCGGCGTTTGTTCC
1 AAAAATGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
92633 AAAAATGCCGCTATA
1 AAAAATGCCGCTATA
92648 TATCACTACC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
42 74 0.45
43 88 0.54
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
AAAAATGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC
Found at i:92563 original size:85 final size:85
Alignment explanation
Indices: 92420--92647 Score: 361
Period size: 85 Copynumber: 2.7 Consensus size: 85
92410 GTTTGTATAG
*
92420 AAAAACGCCGCTATAAAT-TCCGACCTTTTGCGGCGTTTGTTCCAAAAATGCTGCTATAGATATG
1 AAAAACGCCGCTATAAATCT-CGACCTTTTGCGGCGTTTGTTCCAAAAATGCCGCTATAGATATG
* *
92484 ACCTTTTGCGGCATTTGTTTC
65 ACCTTTTACGGCATTTGTTCC
* *
92505 AAAAACGCCGCTATAAATCTCGACCTTTTGCGGCATTTGTTCC-AAAATCGCCGCTATAGATCTG
1 AAAAACGCCGCTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAAT-GCCGCTATAGATATG
92569 ACCTTTTACGGCATTTGTTCC
65 ACCTTTTACGGCATTTGTTCC
* *
92590 AAAAATGCCGCTATAAATCTCGACCTTTAGCGGCGTTTGTTCCAAAAATGCCGCTATA
1 AAAAACGCCGCTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAATGCCGCTATA
92648 TATCACTACC
Statistics
Matches: 132, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
84 5 0.04
85 121 0.92
86 6 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (85 bp):
AAAAACGCCGCTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAATGCCGCTATAGATATGA
CCTTTTACGGCATTTGTTCC
Found at i:94005 original size:18 final size:17
Alignment explanation
Indices: 93982--94029 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
93972 AATATATTTA
93982 AAAACAATAAAATAAAT
1 AAAACAATAAAATAAAT
*
93999 GAAAACATATAAAATAACT
1 -AAAACA-ATAAAATAAAT
94018 AAAA-AATAAAAT
1 AAAACAATAAAAT
94030 TAAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.25
17 1 0.04
18 10 0.36
19 10 0.36
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAACAATAAAATAAAT
Found at i:94022 original size:19 final size:18
Alignment explanation
Indices: 93980--94022 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
93970 ACAATATATT
93980 TAAAAACAATAAAATAAA
1 TAAAAACAATAAAATAAA
* *
93998 TGAAAACATATAAAATAAC
1 TAAAAACA-ATAAAATAAA
94017 TAAAAA
1 TAAAAA
94023 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAAACAATAAAATAAA
Found at i:95381 original size:3 final size:3
Alignment explanation
Indices: 95373--95436 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
95363 AATATATATT
95373 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95420 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
95437 TGGATAAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:96148 original size:225 final size:226
Alignment explanation
Indices: 95752--97061 Score: 2273
Period size: 225 Copynumber: 5.8 Consensus size: 226
95742 TAGAATTATG
*
95752 CAAAAAGTTGAACAAGTTC-T-T-ATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * *
95814 TCATTATGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAAC
63 TCATTATGAAC-CTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAAC
* *
95878 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCT
127 AAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
* * * * **
95942 CTGG-AAAGCTGATCCATCAAATGATGGATTCAGG
192 CTGGTAATGTTGATCCATCAAATGATGAATTTAAA
* * *
95976 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
96041 TTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 TT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
96106 TTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
130 TTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
96171 GTAATGTTGATCCATCAAATGATGAATTTAAA
195 GTAATGTTGATCCATCAAATGATGAATTTAAA
*
96203 C-AAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96267 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
96332 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
96397 TAATGTTGATCCATC-AATGATGAATTTAAA
196 TAATGTTGATCCATCAAATGATGAATTTAAA
96427 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96492 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
96557 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
96622 TAATGTTGATCCATCAAATGATGAATTTAAA
196 TAATGTTGATCCATCAAATGATGAATTTAAA
*
96653 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96718 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
* *
96783 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
96848 TAATGTTGATCCATCAAATGATG-ATTTAAA
196 TAATGTTGATCCATCAAATGATGAATTTAAA
96878 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
96943 TTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT-AACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
*
97007 TCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
97062 TCTACCTTGC
Statistics
Matches: 1048, Mismatches: 29, Indels: 19
0.96 0.03 0.02
Matches are distributed among these distances:
223 42 0.04
224 81 0.08
225 571 0.54
226 302 0.29
227 52 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (226 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
TAATGTTGATCCATCAAATGATGAATTTAAA
Found at i:96395 original size:338 final size:339
Alignment explanation
Indices: 95752--97092 Score: 2265
Period size: 338 Copynumber: 4.0 Consensus size: 339
95742 TAGAATTATG
*
95752 CAAAAAGTTGAACAAGTTC-T-T-ATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * *
95814 TCATTATGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAAC
63 TCATTATGAAC-CTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAAC
* *
95878 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCT
127 AAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
* * * * *** * *
95942 CTGG-AAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATG
192 CTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
* *
96006 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGGCAATGTTGATCC
257 AACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACCTTCTCTGGCAATGTTGATCC
96071 ATCAAATGATGAATTTAAA
321 ATCAAATGATGAATTTAAA
*
96090 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96155 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAAC-AAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
96219 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
96284 TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
196 TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
*
96349 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATC-A
261 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAA
96413 ATGATGAATTTAAA
326 ATGATGAATTTAAA
96427 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96492 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
96557 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
96622 TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
196 TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
*
96687 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATCAA
261 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAA
96752 ATGATGAATTTAAA
326 ATGATGAATTTAAA
96766 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
96831 TTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATG-ATTTAAACAAAAAGTTGAACAAGT
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
* *
96895 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
*
96960 TAATGTTGATCCATCAAATGATGAATTT-AACAAAAAGTTGAACAAGTTCTTCTCATTATG-ACT
196 TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
* * * **
97023 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTTGCAATGTTAATCTTTCA
261 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-CTTCTCTGGCAATGTTGATCCATCA
97087 AATGAT
325 AATGAT
97093 AGATTTGAAT
Statistics
Matches: 962, Mismatches: 32, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
336 62 0.06
337 234 0.24
338 431 0.45
339 207 0.22
340 1 0.00
341 27 0.03
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (339 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
TCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
TAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACC
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAA
ATGATGAATTTAAA
Found at i:96402 original size:113 final size:113
Alignment explanation
Indices: 95752--97061 Score: 2273
Period size: 113 Copynumber: 11.6 Consensus size: 113
95742 TAGAATTATG
*
95752 CAAAAAGTTGAACAAGTTC-T-T-ATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * *
95814 TCATTATGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAG
63 TCATTATGAAC-CTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
* *
95865 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * **
95930 TTATGAA-CTTCTCTGG-AAAGCTGATCCATCAAATGATGGATTCAGG
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
* * *
95976 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
96041 TTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAA
66 TT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
*
96090 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96155 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
*
96203 C-AAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96267 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
*
96315 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96380 TTATGAACCTTCTCTGGTAATGTTGATCCATC-AATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
96427 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96492 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
*
96540 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96605 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
*
96653 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
96718 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
96766 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
96831 TTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATG-ATTTAAA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
96878 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
96943 TTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT-AA
66 TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
96990 CAAAAAGTTGAACAAGTTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
97054 TTATGAAC
66 TTATGAAC
97062 TCTACCTTGC
Statistics
Matches: 1161, Mismatches: 26, Indels: 22
0.96 0.02 0.02
Matches are distributed among these distances:
111 138 0.12
112 375 0.32
113 531 0.46
114 88 0.08
115 1 0.00
116 28 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAA
Found at i:97901 original size:83 final size:84
Alignment explanation
Indices: 97748--98135 Score: 524
Period size: 83 Copynumber: 4.7 Consensus size: 84
97738 GTAATTTCTA
* * *
97748 CCAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATATTCATTTTTCC-
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCA-TCTTCCA
*
97812 ACTTCAATGATTGATTATGT
65 AATTCAATGATTGATTATGT
* * *
97832 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTG-GCAAATTCATCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCCA
* *
97895 AATTCAATGATTGGTTCTG-
65 AATTCAATGATTGATTATGT
* *
97914 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-ACACATTCTTCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
97978 ATTCAATGATTGATTATGT
66 ATTCAATGATTGATTATGT
* * *
97997 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCCA
*
98062 ACTTCAATGATTGATTATGT
65 AATTCAATGATTGATTATGT
* * *
98082 CCAACCCAGATCA-ATAACTC--ATAAC-CTTCCAGAAGATGCTATGAACATATTCAT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCAT
98136 TTGTTCTATT
Statistics
Matches: 274, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
80 11 0.04
81 16 0.06
82 43 0.16
83 148 0.54
84 13 0.05
85 43 0.16
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
ATTCAATGATTGATTATGT
Found at i:110589 original size:22 final size:22
Alignment explanation
Indices: 110529--110589 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 22
110519 ATTAAAAATA
* *
110529 AATATTTAA-AAAATACTATTT
1 AATATTTAATAATATAATATTT
* * * *
110550 -ATATATATTTATAAAATATTT
1 AATATTTAATAATATAATATTT
110571 AATATTTAATAATATAATA
1 AATATTTAATAATATAATA
110590 AAATACAAAT
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
20 6 0.21
21 8 0.29
22 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTTAATAATATAATATTT
Found at i:110661 original size:19 final size:18
Alignment explanation
Indices: 110619--110669 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
110609 ACAATATATT
110619 TAAAAACAATAAAATAAA
1 TAAAAACAATAAAATAAA
* *
110637 TGAAAACATATAAAATAAC
1 TAAAAACA-ATAAAATAAA
110656 TAAAAA-AATAAAAT
1 TAAAAACAATAAAAT
110670 TAAAAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.24
18 8 0.28
19 14 0.48
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAAACAATAAAATAAA
Found at i:111496 original size:26 final size:28
Alignment explanation
Indices: 111457--111508 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
111447 ATTTTCTCTG
111457 TTTTTTTTTATGTCTCT-T-TCTCGTCT
1 TTTTTTTTTATGTCTCTCTGTCTCGTCT
*
111483 TTTTTTTTTCTGTCTCTCTGTCTCGT
1 TTTTTTTTTATGTCTCTCTGTCTCGT
111509 GTATATCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.70
27 1 0.04
28 6 0.26
ACGTcount: A:0.02, C:0.21, G:0.10, T:0.67
Consensus pattern (28 bp):
TTTTTTTTTATGTCTCTCTGTCTCGTCT
Found at i:111978 original size:3 final size:3
Alignment explanation
Indices: 111970--112048 Score: 106
Period size: 3 Copynumber: 26.7 Consensus size: 3
111960 TTAATATATT
* * *
111970 TAA TAA TAA TAG TAA AAA TAA TAA TAA -AA TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
112017 TAA TAA TAA TAA TAA TAT TAA TAA TGA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
112049 GGATAAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:113694 original size:21 final size:21
Alignment explanation
Indices: 113668--113717 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
113658 AAGTTCACAT
113668 GTTTGGAAGGGTATATCTCAA
1 GTTTGGAAGGGTATATCTCAA
113689 GTTTGGAAGGGTATATCTCAA
1 GTTTGGAAGGGTATATCTCAA
113710 GTTTGGAA
1 GTTTGGAA
113718 CAAGGTACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (21 bp):
GTTTGGAAGGGTATATCTCAA
Found at i:119442 original size:14 final size:14
Alignment explanation
Indices: 119423--119489 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 14
119413 CGCTGGGCAT
119423 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
119437 CCGAGGCCATCCGAGAGCA
1 CCGAGGCCATCC----G-A
*
119456 TCCGAGGCCATCTGA
1 -CCGAGGCCATCCGA
119471 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
119485 ACGAG
1 CCGAG
119490 TTATGCGAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 29 0.66
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 11 0.25
ACGTcount: A:0.24, C:0.37, G:0.30, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:119457 original size:34 final size:34
Alignment explanation
Indices: 119419--119484 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
119409 AACACGCTGG
119419 GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
*
119453 GCATCCGAGGCCATCTGACCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGA
119485 ACGAGTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.23, C:0.38, G:0.29, T:0.11
Consensus pattern (34 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
Found at i:119688 original size:29 final size:29
Alignment explanation
Indices: 119646--119758 Score: 181
Period size: 29 Copynumber: 3.9 Consensus size: 29
119636 GCAAGGGTAA
*
119646 GTCGTCCGGAGTGCATGGCGACCTACAAG
1 GTCGCCCGGAGTGCATGGCGACCTACAAG
119675 GTCGCCCGGAGTGCATGGCGACCTACAAG
1 GTCGCCCGGAGTGCATGGCGACCTACAAG
*
119704 GTCGCCCGGAGTGCATGGCGACCTACAAA
1 GTCGCCCGGAGTGCATGGCGACCTACAAG
* **
119733 GTCGCCCGGAATATATGGCGACCTAC
1 GTCGCCCGGAGTGCATGGCGACCTAC
119759 GGTCAACACT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (29 bp):
GTCGCCCGGAGTGCATGGCGACCTACAAG
Found at i:120587 original size:21 final size:21
Alignment explanation
Indices: 120558--120597 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
120548 TTAATGAGTC
*
120558 TAACGAGCAACGAGTCGAGCT
1 TAACAAGCAACGAGTCGAGCT
*
120579 TAACAAGCATCGAGTCGAG
1 TAACAAGCAACGAGTCGAG
120598 TTGAGCAGTA
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:0.35, C:0.23, G:0.28, T:0.15
Consensus pattern (21 bp):
TAACAAGCAACGAGTCGAGCT
Found at i:126042 original size:12 final size:13
Alignment explanation
Indices: 126008--126041 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
125998 TATGTCATCA
*
126008 ATTTTTTTTTTTC
1 ATTTTTTTTCTTC
126021 ATTTTTTTTCTTC
1 ATTTTTTTTCTTC
126034 ATTTTTTT
1 ATTTTTTT
126042 CAGAGCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (13 bp):
ATTTTTTTTCTTC
Found at i:130552 original size:14 final size:14
Alignment explanation
Indices: 130535--130571 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
130525 TATAATTAAA
130535 TAAATGTAAAG-TAT
1 TAAAT-TAAAGATAT
130549 TAAATTAAAGATAT
1 TAAATTAAAGATAT
130563 TAAATTAAA
1 TAAATTAAA
130572 AGTTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (14 bp):
TAAATTAAAGATAT
Found at i:132998 original size:29 final size:29
Alignment explanation
Indices: 132962--133019 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
132952 CACCCAAGTC
*
132962 CAAGAAACATAAGTTTAATCAATGTCCTT
1 CAAGAAACATAAGTTTAATCAATGCCCTT
132991 CAAGAAACATAAGTTTAATCAATGCCCTT
1 CAAGAAACATAAGTTTAATCAATGCCCTT
133020 ACTTTGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (29 bp):
CAAGAAACATAAGTTTAATCAATGCCCTT
Found at i:135423 original size:210 final size:210
Alignment explanation
Indices: 135061--135685 Score: 1241
Period size: 210 Copynumber: 3.0 Consensus size: 210
135051 TGACTCGAGG
135061 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
1 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
*
135126 CAAACTATATATTTTTTTCATTTAGTGAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
66 CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
135191 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
131 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
135256 ATCTTAGAGTCATGA
196 ATCTTAGAGTCATGA
135271 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
1 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
135336 CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
66 CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
135401 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
131 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
135466 ATCTTAGAGTCATGA
196 ATCTTAGAGTCATGA
135481 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
1 AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
135546 CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
66 CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
135611 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
131 ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
135676 ATCTTAGAGT
196 ATCTTAGAGT
135686 TTCTTTAGCT
Statistics
Matches: 414, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 414 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (210 bp):
AAAATAGTTCTCCTTTTCTCAATCTTGTAAGCTCTGCAATTCCTGGCAAACCAACAGTTTACTTT
CAAACTATATATTTTTTTCATTTAGTAAGACAACATTTCAGTAATAAGTAGTAAAGCTTACTTCA
ACTAAATAGTATTTAATAACAAAGAATGCTAGCGAAAATAGAAAGCTTTGGTGCAAGTCATGGAA
ATCTTAGAGTCATGA
Found at i:141503 original size:32 final size:32
Alignment explanation
Indices: 141462--141525 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
141452 TCGTATTAGG
141462 CACCCATCTATACCAATGAATTCTCGCTGACA
1 CACCCATCTATACCAATGAATTCTCGCTGACA
*
141494 CACCCATCTATACCAATGAATTCTCGTTGACA
1 CACCCATCTATACCAATGAATTCTCGCTGACA
141526 AGTGTCGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCCATCTATACCAATGAATTCTCGCTGACA
Found at i:141902 original size:12 final size:13
Alignment explanation
Indices: 141871--141911 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
141861 AAATAGTAAG
141871 AAATAAA-TAAAT
1 AAATAAATTAAAT
141883 AAATTAAATTAAA-
1 AAA-TAAATTAAAT
*
141896 AAATAAATTAAGT
1 AAATAAATTAAAT
141909 AAA
1 AAA
141912 ATGATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.44
13 10 0.40
14 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AAATAAATTAAAT
Found at i:141959 original size:36 final size:33
Alignment explanation
Indices: 141919--142001 Score: 89
Period size: 36 Copynumber: 2.5 Consensus size: 33
141909 AAAATGATAA
* *
141919 AATAAAGAAAACAAAGATAAAATAGTAAGTAAAAAT
1 AATAAAGAAAACAAA-AGAAAA-AG-AAGGAAAAAT
141955 AATAAAGAAAA-ATAAAGAAAAAGAAGGAAAAAT
1 AATAAAGAAAACA-AAAGAAAAAGAAGGAAAAAT
*
141988 -ATAAATAAAACAAA
1 AATAAAGAAAACAAA
142002 TAAACAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 11 0.26
33 10 0.24
34 2 0.05
35 6 0.14
36 13 0.31
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.13
Consensus pattern (33 bp):
AATAAAGAAAACAAAAGAAAAAGAAGGAAAAAT
Found at i:141970 original size:10 final size:10
Alignment explanation
Indices: 141955--141988 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
141945 AAGTAAAAAT
141955 AATAAAGAAA
1 AATAAAGAAA
141965 AATAAAGAAA
1 AATAAAGAAA
* *
141975 AAGAAGGAAA
1 AATAAAGAAA
141985 AATA
1 AATA
141989 TAAATAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (10 bp):
AATAAAGAAA
Found at i:141987 original size:46 final size:45
Alignment explanation
Indices: 141917--142010 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 45
141907 GTAAAATGAT
* *
141917 AAAATAAAGAAAACAAAGATAAAATAGTAAGTAAAA-ATAATAAAGA
1 AAAATAAAGAAAACAAAGATAAAATA-TAAATAAAACA-AATAAACA
141963 AAAATAAAGAAAA-AGAAGGA-AAAATATAAATAAAACAAATAAACA
1 AAAATAAAGAAAACA-AA-GATAAAATATAAATAAAACAAATAAACA
142008 AAA
1 AAA
142011 TAATAATAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
45 19 0.44
46 22 0.51
47 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (45 bp):
AAAATAAAGAAAACAAAGATAAAATATAAATAAAACAAATAAACA
Found at i:142257 original size:3 final size:3
Alignment explanation
Indices: 142249--142278 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
142239 CATAAAACAT
142249 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
142279 TGAGTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:153335 original size:29 final size:32
Alignment explanation
Indices: 153284--153347 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 32
153274 ATGAAGAAAG
* *
153284 AAAAAATAAAATAGTAAGTAAAAAAAT-AATA
1 AAAAAAGAAAATAGTAAGGAAAAAAATAAATA
*
153315 AAAAAAGAAAA-AG-AAGGAAAAATATAAATA
1 AAAAAAGAAAATAGTAAGGAAAAAAATAAATA
153345 AAA
1 AAA
153348 CAAATAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 9 0.31
31 10 0.34
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (32 bp):
AAAAAAGAAAATAGTAAGGAAAAAAATAAATA
Found at i:153592 original size:3 final size:3
Alignment explanation
Indices: 153584--153620 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
153574 CATAAAACAT
153584 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATGA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A
153621 CAGGAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:161848 original size:2 final size:2
Alignment explanation
Indices: 161841--161867 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
161831 TGTCATTATT
161841 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 T
161868 TAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:162630 original size:31 final size:31
Alignment explanation
Indices: 162589--162647 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
162579 CTTAAAAGAG
*
162589 TTTTACAATACTGAGATTTAAATAATTTTAA
1 TTTTACAATACTGAAATTTAAATAATTTTAA
*
162620 TTTTATAATACTGAAATTTAAATAATTT
1 TTTTACAATACTGAAATTTAAATAATTT
162648 ATACAACTAC
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:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTTACAATACTGAAATTTAAATAATTTTAA
Found at i:162937 original size:28 final size:27
Alignment explanation
Indices: 162852--162937 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
162842 ATGGCACAAC
162852 AACATTAATTATCATTAAACTATTATTA
1 AACATTAATTATCA-TAAACTATTATTA
* * * * *
162880 ATCAATAA--ATCATACACCTCTTTTTTTA
1 AACATTAATTATCATA-A--ACTATTATTA
162908 AACATTAATTATCATGAAACTATTATTA
1 AACATTAATTATCAT-AAACTATTATTA
162936 AA
1 AA
162938 TATGCAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
28 28 0.67
30 6 0.14
31 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (27 bp):
AACATTAATTATCATAAACTATTATTA
Found at i:163247 original size:11 final size:11
Alignment explanation
Indices: 163231--163273 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
163221 TATTATATTT
163231 AAAATTAAATA
1 AAAATTAAATA
163242 AAAATTAAAT-
1 AAAATTAAATA
*
163252 TAAATTAAATA
1 AAAATTAAATA
*
163263 TAAATATAAAT
1 AAAAT-TAAAT
163274 TTTTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.31
11 15 0.52
12 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAAATA
Found at i:163266 original size:16 final size:17
Alignment explanation
Indices: 163232--163274 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
163222 ATTATATTTA
163232 AAATTAAA-TAAAAATT
1 AAATTAAATTAAAAATT
*
163248 AAATTAAATTAAATA-T
1 AAATTAAATTAAAAATT
163264 AAATATAAATT
1 AAAT-TAAATT
163275 TTTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAAATTAAAAATT
Found at i:163268 original size:6 final size:5
Alignment explanation
Indices: 163232--163274 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
163222 ATTATATTTA
*
163232 AAATT AAATAA AAATT AAATT AAATT AAATAT AAATAT AAATT
1 AAATT AAAT-T AAATT AAATT AAATT AAAT-T AAAT-T AAATT
163275 TTTAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 19 0.56
6 15 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:163348 original size:23 final size:25
Alignment explanation
Indices: 163307--163369 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
163297 TATATGATAT
163307 AAAATTAAATATCTATAATATA-TTAA
1 AAAATT-AATAT-TATAATATATTTAA
*
163333 AAAATTAATATT-TAATTTATTTAA
1 AAAATTAATATTATAATATATTTAA
**
163357 AATTTTAATATTA
1 AAAATTAATATTA
163370 AAATTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 5 0.16
26 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTAATATTATAATATATTTAA
Found at i:163361 original size:64 final size:64
Alignment explanation
Indices: 163306--163431 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 64
163296 TTATATGATA
163306 TAAAATTAAATATCTAT-A-AT-ATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
** **
163368 TAAAATTAATATCTATAATATAATATTAAAATTTTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
163432 CTATAATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
61 9 0.16
62 8 0.14
63 2 0.04
64 38 0.67
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
Found at i:163372 original size:14 final size:13
Alignment explanation
Indices: 163326--163408 Score: 66
Period size: 14 Copynumber: 6.4 Consensus size: 13
163316 TATCTATAAT
*
163326 ATATTAAAAAATTA
1 ATATT-AAAATTTA
*
163340 ATATT-TAATTT-
1 ATATTAAAATTTA
163351 AT-TTAAAATTTTA
1 ATATTAAAA-TTTA
163364 ATATTAAAA-TTA
1 ATATTAAAATTTA
* *
163376 ATATCTATAATATA
1 ATAT-TAAAATTTA
163390 ATATTAAAATTTTA
1 ATATTAAAA-TTTA
163404 ATATT
1 ATATT
163409 TAATTTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 14 0.25
13 10 0.18
14 25 0.45
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTAAAATTTA
Found at i:163397 original size:40 final size:36
Alignment explanation
Indices: 163333--163408 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 36
163323 AATATATTAA
*
163333 AAAATTAATATTTAATTTATTTAAAATTTTAATATT
1 AAAATTAATATTTAATTAATTTAAAATTTTAATATT
163369 AAAATTAATATCTATAATATAATATTAAAATTTTAATATT
1 AAAATTAATAT-T-TAAT-TAAT-TTAAAATTTTAATATT
163409 TAATTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 11 0.31
37 1 0.03
38 4 0.11
39 3 0.09
40 16 0.46
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATTAATATTTAATTAATTTAAAATTTTAATATT
Found at i:163428 original size:24 final size:28
Alignment explanation
Indices: 163362--163449 Score: 98
Period size: 26 Copynumber: 3.4 Consensus size: 28
163352 TTTAAAATTT
163362 TAATATT--AAAATTAATATCTATAATA
1 TAATATTAAAAAATTAATATCTATAATA
**
163388 TAATATTAAAATTTTAATAT-T-TAAT-
1 TAATATTAAAAAATTAATATCTATAATA
*
163413 TTAT-TTAAAAAATTAATATCTATAATA
1 TAATATTAAAAAATTAATATCTATAATA
*
163440 TAAAATTAAA
1 TAATATTAAA
163450 TATAAAACCT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
24 13 0.27
25 4 0.08
26 15 0.31
27 3 0.06
28 14 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAATATTAAAAAATTAATATCTATAATA
Found at i:163452 original size:64 final size:64
Alignment explanation
Indices: 163306--163454 Score: 182
Period size: 64 Copynumber: 2.4 Consensus size: 64
163296 TTATATGATA
**
163306 TAAAATTAAATATCTAT-A-AT-ATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
1 TAAAATTAAA-ATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
* **
163368 TAAAATTAATATCTATAATATAATATTAAAATTTTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAAATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
*
163432 CTATAATATAAAAT-TA-AATATAA
1 -TAAAAT-TAAAATCTATAATATAA
163455 AACCTCTTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
61 6 0.08
62 10 0.13
63 2 0.03
64 45 0.60
65 7 0.09
66 5 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (64 bp):
TAAAATTAAAATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:167935 original size:19 final size:19
Alignment explanation
Indices: 167911--167948 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
167901 TTTAAGTCAA
167911 ATCAAAATCAATATAAACT
1 ATCAAAATCAATATAAACT
* *
167930 ATCAAATTCAGTATAAACT
1 ATCAAAATCAATATAAACT
167949 TTCGAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (19 bp):
ATCAAAATCAATATAAACT
Found at i:174178 original size:34 final size:34
Alignment explanation
Indices: 174135--174203 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
174125 CATAGTTGGG
*
174135 CATTATGATTATACACAGAATTACATTTTTCTTT
1 CATTATGATTACACACAGAATTACATTTTTCTTT
174169 CATTATGATTACACACAGAATTACATTTTTCTTT
1 CATTATGATTACACACAGAATTACATTTTTCTTT
174203 C
1 C
174204 TTCAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (34 bp):
CATTATGATTACACACAGAATTACATTTTTCTTT
Found at i:175745 original size:133 final size:133
Alignment explanation
Indices: 175506--175803 Score: 336
Period size: 133 Copynumber: 2.2 Consensus size: 133
175496 TGCGATTCAG
* * * ** * *
175506 CTTAACTCAACAACGATGAGGTATTTCCCAAT-CTATATTTTGAGCTAGATTTTAACTTCACGAT
1 CTTAACTCAACAACGATGAGCTATTTTCC-ATCCTAGATTTCAAGCTAGATTTCAACTTCACGAC
* * * *
175570 GAAGAATATCATGCTTAAGTCATCTAAGATCGACTCAACTTCACGATGAATGAGTCAACCACAAT
65 GAAGAATATCAAGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAATGAGTCAACCACAAC
*
175635 TTAGT
130 ATA-T
*
175640 -TTAACTCAACAACGATGAGCTATTTTCCATCCTAGATTTCAAG-TCGGATTTCAACTTCACGAC
1 CTTAACTCAACAACGATGAGCTATTTTCCATCCTAGATTTCAAGCT-AGATTTCAACTTCACGAC
* * * * *
175703 GAA-AGATATCAAGCTCGAGTCATCCGAGATCGACTTAACTTCACGATGAATGAGTCATCCATAA
65 GAAGA-ATATCAAGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAATGAGTCAACCACAA
175767 CATAT
129 CATAT
* * *
175772 CTTAACGCAACAACGATCAGTTATTTT-CATCC
1 CTTAACTCAACAACGATGAGCTATTTTCCATCC
175804 AACTTAATTC
Statistics
Matches: 139, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
132 10 0.07
133 129 0.93
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (133 bp):
CTTAACTCAACAACGATGAGCTATTTTCCATCCTAGATTTCAAGCTAGATTTCAACTTCACGACG
AAGAATATCAAGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAATGAGTCAACCACAACA
TAT
Found at i:176516 original size:15 final size:15
Alignment explanation
Indices: 176496--176525 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
176486 CTTGAAGGAA
176496 TAATTCCATTTCGAG
1 TAATTCCATTTCGAG
176511 TAATTCCATTTCGAG
1 TAATTCCATTTCGAG
176526 AGTGATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
TAATTCCATTTCGAG
Found at i:177547 original size:36 final size:38
Alignment explanation
Indices: 177485--177558 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
177475 CTTTGGTAAA
*
177485 ATGTTTTATCAATTTTTTATT-CCTTTTTAAATTGCGT
1 ATGTTTTATCAATTTTTTATTACTTTTTTAAATTGCGT
*
177522 ATGTTTTATCAA-TTTTTATTACTTTTTTAATTTGCGT
1 ATGTTTTATCAATTTTTTATTACTTTTTTAAATTGCGT
177559 TTTAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 8 0.24
37 26 0.76
ACGTcount: A:0.22, C:0.09, G:0.08, T:0.61
Consensus pattern (38 bp):
ATGTTTTATCAATTTTTTATTACTTTTTTAAATTGCGT
Found at i:199771 original size:23 final size:23
Alignment explanation
Indices: 199745--199792 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
199735 ATAAAGTACA
*
199745 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
199768 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
199791 AT
1 AT
199793 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:200775 original size:23 final size:23
Alignment explanation
Indices: 200749--200813 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
200739 ATGCGAGATA
200749 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
200772 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
200795 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
200814 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:201174 original size:22 final size:22
Alignment explanation
Indices: 201148--201198 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
201138 ACACTTTACA
201148 ATATAACCATTACCTATTAC-TT
1 ATATAACCA-TACCTATTACATT
*
201170 ATATAAACGATACCTATTACATT
1 ATAT-AACCATACCTATTACATT
201193 ATATAA
1 ATATAA
201199 GGGCTACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAACCATACCTATTACATT
Found at i:201198 original size:23 final size:23
Alignment explanation
Indices: 201158--201219 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
201148 ATATAACCAT
201158 TACCTATTAC-TTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
201180 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
201203 TACCTATTACATCATAT
1 TACCTATTACATTATAT
201220 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:201561 original size:422 final size:429
Alignment explanation
Indices: 200823--201739 Score: 1726
Period size: 423 Copynumber: 2.2 Consensus size: 429
200813 TGTTTACCTA
*
200823 TTATAAAAAGGATCGATATTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTG
1 TTAT-AAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTG
200888 TTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAAATTATTTGATTG
65 TTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC-AAAAAATTATTTGATTG
200953 TTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAA
129 TTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAA
201018 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
194 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
201083 TTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
259 TTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
201148 ATATAACCATTACCTATTAC-TTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTA
324 ATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTA
201212 CATCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TT
389 CATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTT
*
201252 TTATAAAATGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAACAGTGT
1 TTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
201316 TTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTT
66 TTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTT
201380 TTTATA-TTT-TAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAA
131 TTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAA
201443 AA-AAATCATTAGACGCCTATAATTACTAAATT-ATATCTTAAAACTCACTCAAAAGATAACCTT
196 AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
201506 AAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAA
261 AAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAA
201571 TATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTAC
325 TATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTAC
201636 ATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTT
390 ATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTT
201676 TTATAAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
1 TTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
201740 ACTGCGAATT
Statistics
Matches: 481, Mismatches: 3, Indels: 13
0.97 0.01 0.03
Matches are distributed among these distances:
421 52 0.11
422 92 0.19
423 169 0.35
424 36 0.07
425 24 0.05
427 60 0.12
428 44 0.09
429 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (429 bp):
TTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
TTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTT
TTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAA
AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
AAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAAT
ATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACA
TCATATGTTTACCTATTATATTGAAAGTGTCCATACTTT
Found at i:201595 original size:21 final size:20
Alignment explanation
Indices: 201565--201618 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
201555 GATAGACACT
*
201565 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
201586 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
201609 TTACATTATA
1 TTACATTATA
201619 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:201606 original size:23 final size:23
Alignment explanation
Indices: 201580--201642 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
201570 ATATAACCAT
201580 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
201603 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
201626 TACCTATTACATCATAT
1 TACCTATTACATTATAT
201643 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:204498 original size:184 final size:184
Alignment explanation
Indices: 204189--205032 Score: 1629
Period size: 183 Copynumber: 4.6 Consensus size: 184
204179 TTTTAAATGG
* *
204189 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
204254 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
204319 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204373 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204438 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
204503 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204557 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204621 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
204686 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204740 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204804 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
204869 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204923 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204988 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
205033 TTATTAATAT
Statistics
Matches: 654, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
183 365 0.56
184 289 0.44
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:206404 original size:3 final size:3
Alignment explanation
Indices: 206396--206482 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
206386 ACTTGTTTGG
* * * **
206396 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
206444 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
206483 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:206419 original size:18 final size:18
Alignment explanation
Indices: 206396--206497 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
206386 ACTTGTTTGG
206396 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
206414 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
206432 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
206450 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
206468 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
206486 AGCTTCATCTTC
1 ATCATCATCTTC
206498 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:206463 original size:42 final size:42
Alignment explanation
Indices: 206404--206494 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
206394 GGATCATCAT
*
206404 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
206446 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
206488 CTTCATC
1 CTTCATC
206495 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:208841 original size:195 final size:198
Alignment explanation
Indices: 207954--209351 Score: 2433
Period size: 197 Copynumber: 7.1 Consensus size: 198
207944 TTTAAATTAG
* * *
207954 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
208018 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
208083 CGACACGTTTTATATATGGATCGACACTTTA-GGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
208147 AAAA
195 AAAA
*
208151 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
208216 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
208281 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTT--TTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
208344 AAA
196 AAA
*
208347 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTTAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
208411 ATTGTACCGGTTAGATT--AAAA--A-ATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
208471 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
208536 AAA
196 AAA
208539 TATCGACACAAACTATATTAGTGTCGACACATT-TTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
208603 ATTGTACC-GTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
208666 CGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
208730 AAA
196 AAA
208733 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
208797 ATTGTACCGGTTATATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
208861 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
208925 AAAA
195 AAAA
208929 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
208994 ATTGTACCGGTTAGATTGAAAAATTAC--ATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
209056 CGACACTTTT-TATATAGATCGACACTTTATTGATGCACCTTGTTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTTAATTCATTCTGGAAAA
209120 AAAA
195 AAAA
209124 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
209189 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
209254 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
209319 AAAA
195 AAAA
*
209323 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
209352 TGACCCTTAA
Statistics
Matches: 1156, Mismatches: 21, Indels: 46
0.95 0.02 0.04
Matches are distributed among these distances:
190 84 0.07
191 27 0.02
192 69 0.06
193 60 0.05
194 136 0.12
195 223 0.19
196 127 0.11
197 230 0.20
198 112 0.10
199 57 0.05
200 31 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
AAA
Found at i:209459 original size:19 final size:19
Alignment explanation
Indices: 209432--209472 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
209422 TATTCACATA
209432 AAAAATATAAATCGTATAC
1 AAAAATATAAATCGTATAC
* *
209451 AAAATTATAAATCTTATAC
1 AAAAATATAAATCGTATAC
209470 AAA
1 AAA
209473 TTAACTCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATAAATCGTATAC
Found at i:211286 original size:33 final size:33
Alignment explanation
Indices: 211249--211314 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
211239 CATCTTAATA
*
211249 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
211282 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
211315 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:213609 original size:18 final size:20
Alignment explanation
Indices: 213586--213622 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
213576 ATATATCCGG
213586 TATCATTTT-A-ACCGTTTT
1 TATCATTTTGATACCGTTTT
213604 TATCATTTTGATACCGTTT
1 TATCATTTTGATACCGTTT
213623 ATCATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (20 bp):
TATCATTTTGATACCGTTTT
Found at i:213780 original size:20 final size:20
Alignment explanation
Indices: 213753--213799 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
213743 CGACTTTTAA
213753 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
213772 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
213793 TTTTACC
1 TTTTACC
213800 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:221781 original size:316 final size:318
Alignment explanation
Indices: 221078--221963 Score: 1465
Period size: 317 Copynumber: 2.8 Consensus size: 318
221068 AGGGTGCTTT
221078 CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTGTTATG
1 CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTGTTATG
* *
221143 GTCACTGCTATTAGCAGATGTTAAGAGATACCAACGTGGCGCCTTAAAGTGCCCTTTCAAAAAAA
66 GTCACTGCTATTAGCAGATGTTAAGAGATACCAACGTGGCGTCTTAAAGTGCTCTTT---AAAAA
* *
221208 AAAACGTTCAGATTCCAAATTTATAACCACCGAAAAGGCTAGACTTTCGGTGAAGAGAGCAATCG
128 AAAACGTTAAGATTCCAAATTTATAACCACCGAAAAGGCTAGATTTTCGGTGAAGAGAGCAATCG
*
221273 TCGATCAAATCCCAACGATCAGAATGATTTGTTTGGTCAGAATATTAATATAATTTGTATACAAT
193 TCGATCAAATCCCAACGATCAGAATGATTCGTTTGGTCAGAATATTAATATAATTTGTATACAAT
*
221338 AACTAAACTTTTAATTTACTTTTGTTATGGTCACTGCTATTAGCAGATGTTAAGAGATATT
258 AACTAAACTTTTAATTTACTTTTGTTATGGTCACTGCTATTAGCAGATGTTAAGAGATATC
*
221399 CACTTGGTCATTAAACTTTTAAAATTTGTATAAAATCACTAAACTTTTAATTTACTTTTGTTATG
1 CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTGTTATG
* *
221464 GTCACTGCTATTAGCATATGTTAAGAGATACCAACGTGGCGTTTTAAAGTGCTCTTT-AAAAAAA
66 GTCACTGCTATTAGCAGATGTTAAGAGATACCAACGTGGCGTCTTAAAGTGCTCTTTAAAAAAAA
* *
221528 ACGTTAAGATTCCAAATTTATAACCACCGAAAAGGCTGGATTTTGGGTGAAGAGAGCAATCGTCG
131 ACGTTAAGATTCCAAATTTATAACCACCGAAAAGGCTAGATTTTCGGTGAAGAGAGCAATCGTCG
* *
221593 ATCAAATCCCAACGATCAGAATGATTCGTTTGGTTAGAATATTAATATAATTTGTATACAATCAC
196 ATCAAATCCCAACGATCAGAATGATTCGTTTGGTCAGAATATTAATATAATTTGTATACAATAAC
*
221658 T-AACTTTTAATTTGCTTTTGTTATGGTCACTGCTATTAGCAGATGTTAAGAGATATC
261 TAAACTTTTAATTTACTTTTGTTATGGTCACTGCTATTAGCAGATGTTAAGAGATATC
*
221715 CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTATTATG
1 CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTGTTATG
* * * * * *
221780 GTCACTGTTATTAGCAGATGTTAATAGATACCAATGTTGCATCTTAAAGTGCTATTTCAAAAATA
66 GTCACTGCTATTAGCAGATGTTAAGAGATACCAACGTGGCGTCTTAAAGTGCTCTTT-AAAAA-A
** *
221845 AAA--TTAAGATTCCAAATTTATAACCACCGAAAAGGCTAGATTTTCGGTGAAGTTAGCAATCAT
129 AAACGTTAAGATTCCAAATTTATAACCACCGAAAAGGCTAGATTTTCGGTGAAGAGAGCAATCGT
* *
221908 CGATCAAATCCCAACGAACAGAATGATTCGTTTAGTCAGAATATTAATATAATTTG
194 CGATCAAATCCCAACGATCAGAATGATTCGTTTGGTCAGAATATTAATATAATTTG
221964 GTTTCAAGCT
Statistics
Matches: 530, Mismatches: 32, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
316 166 0.31
317 239 0.45
318 4 0.01
319 4 0.01
321 117 0.22
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (318 bp):
CACTTGGTCATTAAACTTTTAAAATTTGTATACAATCACTAAACTTTTAATTTACTTTTGTTATG
GTCACTGCTATTAGCAGATGTTAAGAGATACCAACGTGGCGTCTTAAAGTGCTCTTTAAAAAAAA
ACGTTAAGATTCCAAATTTATAACCACCGAAAAGGCTAGATTTTCGGTGAAGAGAGCAATCGTCG
ATCAAATCCCAACGATCAGAATGATTCGTTTGGTCAGAATATTAATATAATTTGTATACAATAAC
TAAACTTTTAATTTACTTTTGTTATGGTCACTGCTATTAGCAGATGTTAAGAGATATC
Found at i:224343 original size:2 final size:2
Alignment explanation
Indices: 224336--224366 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
224326 ATTTACTGGA
*
224336 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
224367 ACATTCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:229264 original size:23 final size:23
Alignment explanation
Indices: 229234--229284 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
229224 AAAAGTCTCG
229234 CCCACGACACCTTCTGATTGCCT
1 CCCACGACACCTTCTGATTGCCT
229257 CCCACGACACCTTCTGATTGCCT
1 CCCACGACACCTTCTGATTGCCT
*
229280 GCCAC
1 CCCAC
229285 TCATGCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.45, G:0.14, T:0.24
Consensus pattern (23 bp):
CCCACGACACCTTCTGATTGCCT
Found at i:232276 original size:24 final size:23
Alignment explanation
Indices: 232241--232285 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
232231 TTAAATTATA
*
232241 TTTTTTCTATTT-AGATATCTATT
1 TTTTTTCAATTTAAG-TATCTATT
232264 TTTTTGTCAATTTAAGTATCTA
1 TTTTT-TCAATTTAAGTATCTA
232286 ACATATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTTTCAATTTAAGTATCTATT
Found at i:232404 original size:30 final size:30
Alignment explanation
Indices: 232370--232431 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
232360 AAATATACAC
* *
232370 TTGAATCAATATCAAATTTTACATGTATAA
1 TTGAATCAAGATCAAAATTTACATGTATAA
* * *
232400 TTGAATTAAGATTAAAATTTATATGTATAA
1 TTGAATCAAGATCAAAATTTACATGTATAA
232430 TT
1 TT
232432 ATACAAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (30 bp):
TTGAATCAAGATCAAAATTTACATGTATAA
Found at i:235956 original size:19 final size:20
Alignment explanation
Indices: 235934--235983 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
235924 AAAAAAAAAC
235934 ATCAAAATTAAAATTAATG-
1 ATCAAAATTAAAATTAATGT
* * **
235953 ATCAATATTAAATTTTGTGT
1 ATCAAAATTAAAATTAATGT
235973 ATCAAAATTAA
1 ATCAAAATTAA
235984 TATATCATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (20 bp):
ATCAAAATTAAAATTAATGT
Found at i:238320 original size:23 final size:23
Alignment explanation
Indices: 238294--238341 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
238284 ATAAAGTACA
*
238294 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
238317 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
238340 AT
1 AT
238342 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:238793 original size:23 final size:23
Alignment explanation
Indices: 238767--238829 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
238757 ATATAACCAC
238767 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
238790 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
238813 TACCTATTACATCATAT
1 TACCTATTACATTATAT
238830 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:239203 original size:426 final size:430
Alignment explanation
Indices: 238408--239458 Score: 2004
Period size: 426 Copynumber: 2.5 Consensus size: 430
238398 TATTACATTA
238408 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
238473 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
238537 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
238602 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
*
238667 TTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCAACAGTGAAAAAAGTATGAACACTT
261 TTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCAACAGTGAAAAAAGTATGAACACTT
238732 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
238797 TACATTATATAAGCGCTACCTATTACATCATATTTT-ACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTCACC
238836 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
238901 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTAAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
238966 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
239030 ATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
* * *
239093 TTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCAACAGTGAAAAAAGTATGAACACTT
239158 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
239223 TATATTATATAAGCGCTACCTATTACATCATATTTTCACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTCACC
239263 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
239328 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
239393 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
239458 A
196 A
239459 CAACATTAAC
Statistics
Matches: 612, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
426 218 0.36
427 171 0.28
428 134 0.22
429 89 0.15
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
TTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCAACAGTGAAAAAAGTATGAACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTCACC
Found at i:239219 original size:23 final size:23
Alignment explanation
Indices: 239193--239255 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
239183 ATATAACCAC
239193 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
239216 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
239239 TACCTATTACATCATAT
1 TACCTATTACATTATAT
239256 TTTCACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:239731 original size:39 final size:39
Alignment explanation
Indices: 239677--239762 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
239667 CAAGTTGTAG
*
239677 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
239716 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
239755 ATTTTGAT
1 ATTTTGAT
239763 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:240513 original size:23 final size:23
Alignment explanation
Indices: 240486--240544 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
240476 ATATAAACGA
*
240486 ATTACATTATATAAGCGCA-ACCT
1 ATTACATTATATAAACG-ATACCT
240509 ATTACATTATATAAACGATACCT
1 ATTACATTATATAAACGATACCT
240532 ATTACATTATATA
1 ATTACATTATATA
240545 CTTGTAGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (23 bp):
ATTACATTATATAAACGATACCT
Found at i:243328 original size:183 final size:183
Alignment explanation
Indices: 243020--243500 Score: 883
Period size: 183 Copynumber: 2.6 Consensus size: 183
243010 ACACATTTTA
243020 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
243085 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
243150 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
* *
243203 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
*
243268 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
243333 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
243386 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
* * * **
243450 ACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTTTATTATAAT
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
243501 ATGTTGAAAG
Statistics
Matches: 287, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
182 65 0.23
183 222 0.77
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (183 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:244970 original size:3 final size:3
Alignment explanation
Indices: 244962--245036 Score: 51
Period size: 3 Copynumber: 25.0 Consensus size: 3
244952 ACTTGTTTGG
* * * * ** * *
244962 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTA ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
245010 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
245037 GTCAGCTTCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:244979 original size:12 final size:12
Alignment explanation
Indices: 244966--245048 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
244956 GTTTGGATCA
*
244966 TCATCTTCATCA
1 TCATCTTCATCG
* * *
244978 TCATCATCGTCA
1 TCATCTTCATCG
*
244990 TCATCTTAATCG
1 TCATCTTCATCG
* *
245002 CCAGCTTCATCG
1 TCATCTTCATCG
*
245014 TCATCATCATCG
1 TCATCTTCATCG
245026 TCATCTTCATCG
1 TCATCTTCATCG
*
245038 TCAGCTTCATC
1 TCATCTTCATC
245049 TTCTGCGACC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:245018 original size:36 final size:36
Alignment explanation
Indices: 244970--245048 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
244960 GGATCATCAT
*
244970 CTTCATCATCATCATCGTCATCATCTTAATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTAATCGCCAG
* * * *
245006 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTAATCGCCAG
245042 CTTCATC
1 CTTCATC
245049 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.34, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTAATCGCCAG
Found at i:245049 original size:18 final size:18
Alignment explanation
Indices: 244990--245051 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
244980 ATCATCGTCA
* *
244990 TCATCTTAATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
245008 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
245026 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
245044 TCATCTTC
1 TCATCTTC
245052 TGCGACCGCT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:245051 original size:6 final size:6
Alignment explanation
Indices: 244966--245051 Score: 55
Period size: 6 Copynumber: 14.3 Consensus size: 6
244956 GTTTGGATCA
* * * * * * * * *
244966 TCATCT TCATCA TCATCA TCGTCA TCATCT TAATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
245014 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
245052 TGCGACCGCT
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:247239 original size:395 final size:397
Alignment explanation
Indices: 246507--247785 Score: 2410
Period size: 395 Copynumber: 3.2 Consensus size: 397
246497 TTAAATTAGC
*
246507 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGATATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
246572 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
246637 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
246702 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
246767 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
*
246832 ATCGACACTTTTTATGTATGGATCGACACTTTATGGTGCACCCTGTTTAATTGTTCATTCTGGAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTAATTGTTCATTCTGGAA
246897 AAAAAAT
391 AAAAAAT
246904 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
*
246969 TTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
247034 GACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
247097 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
*
247162 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTCTACTTTTGGGTTCGATGATTTTTGGG
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
*
247227 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTATTTAATTGTTCATTCTGGAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTAATTGTTCATTCTGGAA
247292 AAAAAAT
391 AAAAAAT
247299 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
247364 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
247429 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
247494 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
247558 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA--TTTGGG
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
**
247621 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTT--TCCATTCATTCTGG
326 ATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTAAT-TGTTCATTCTGG
247684 AAAAAAAAT
389 AAAAAAAAT
*
247693 ATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
247758 TTGTACCGGTTAGATTGAAAAATTACAT
66 TTGTACCGGTTAGATTGAAAAATTACAT
247786 CCTTTTGGCC
Statistics
Matches: 866, Mismatches: 12, Indels: 11
0.97 0.01 0.01
Matches are distributed among these distances:
393 1 0.00
394 151 0.17
395 400 0.46
396 74 0.09
397 240 0.28
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (397 bp):
ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTAATTGTTCATTCTGGAA
AAAAAAT
Found at i:247691 original size:197 final size:197
Alignment explanation
Indices: 246507--247785 Score: 2318
Period size: 197 Copynumber: 6.5 Consensus size: 197
246497 TTAAATTAGC
*
246507 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGATATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
246572 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
246637 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
246702 AT
196 AT
246704 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
246769 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGAT
* **
246834 CGACACTTTTTATGTATGGATCGACACTTTATGGTGCACCCTGTTTAAT-TGTTCATTCTGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTT--TCCATTCATTCTGG-AA
246898 AAAAAT
192 AAAAAT
246904 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
*
246969 TTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
247034 GACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
247097 AT
196 AT
247099 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
*
247164 TTGTACCGGTTAGATTGAAAAATTACATATTACATTCTACTTTTGGGTTCGATGATTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGAT
* **
247229 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTATTTAAT-TGTTCATTCTGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTT--TCCATTCATTCTGG-AA
247293 AAAAAT
192 AAAAAT
247299 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
247364 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
247429 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
247494 AT
196 AT
247496 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
247560 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
247624 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG-AAAA
247689 AAAT
194 AAAT
*
247693 ATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
247758 TTGTACCGGTTAGATTGAAAAATTACAT
66 TTGTACCGGTTAGATTGAAAAATTACAT
247786 CCTTTTGGCC
Statistics
Matches: 1046, Mismatches: 21, Indels: 29
0.95 0.02 0.03
Matches are distributed among these distances:
195 166 0.16
196 120 0.11
197 276 0.26
198 141 0.13
199 89 0.09
200 254 0.24
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (197 bp):
ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
AT
Found at i:247934 original size:19 final size:19
Alignment explanation
Indices: 247910--247958 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
247900 TTATATTCAC
247910 ATACAAAA-TATAAAATCGT
1 ATACAAAATTAT-AAATCGT
*
247929 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
247948 ATACAAAATTA
1 ATACAAAATTA
247959 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:249775 original size:33 final size:33
Alignment explanation
Indices: 249738--249803 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
249728 CATCTTAATA
*
249738 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
249771 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
249804 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Done.