Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005004.1 Hibiscus syriacus cultivar Beakdansim tig00011226_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: 65135
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:9597 original size:2 final size:2
Alignment explanation
Indices: 9590--9621 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9580 ATTGATATTC
9590 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
9622 TCATGTACAT
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:9900 original size:18 final size:18
Alignment explanation
Indices: 9869--9992 Score: 176
Period size: 18 Copynumber: 6.9 Consensus size: 18
9859 GCATAGAATT
* *
9869 TGTCCCGTATGACCACTA
1 TGTCCCGAAGGACCACTA
* *
9887 TGTCCTGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
9905 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
9923 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
9941 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
9959 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
*
9977 TGTCCCAAAGGACCAC
1 TGTCCCGAAGGACCAC
9993 GTAGACCCTC
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 93 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:9937 original size:54 final size:54
Alignment explanation
Indices: 9869--9992 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
9859 GCATAGAATT
* * * *
9869 TGTCCCGTATGACCACTATGTCCTGAAGGACCACTGTGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTA
*
9923 TGTCCCGAAGGACCACTATGTCCCGAATGACCACTATGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTA
*
9977 TGTCCCAAAGGACCAC
1 TGTCCCGAAGGACCAC
9993 GTAGACCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (54 bp):
TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTA
Found at i:10839 original size:20 final size:22
Alignment explanation
Indices: 10814--10871 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
10804 TTCCCCTTGA
10814 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
10834 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
10857 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
10872 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:12916 original size:2 final size:2
Alignment explanation
Indices: 12909--12935 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12899 AGTAGTTTTA
12909 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12936 GTTTAAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13165 original size:2 final size:2
Alignment explanation
Indices: 13127--13157 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13117 AAATAAACTT
13127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13158 CCATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15093 original size:2 final size:2
Alignment explanation
Indices: 15086--15112 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15076 TTTAGACTAA
15086 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15113 AATTAAGTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16176 original size:14 final size:14
Alignment explanation
Indices: 16157--16204 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
16147 TATATGTTTG
16157 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
16171 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
16181 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
16195 TTTATGTTCG
1 TTTATGTTCG
16205 AACATATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.30
11 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:16184 original size:24 final size:24
Alignment explanation
Indices: 16157--16203 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
16147 TATATGTTTG
16157 TTTATGTTCGTTCATTTATGTTCA
1 TTTATGTTCGTTCATTTATGTTCA
16181 TTTATGTTCGTTCATTTATGTTC
1 TTTATGTTCGTTCATTTATGTTC
16204 GAACATATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTATGTTCGTTCATTTATGTTCA
Found at i:16265 original size:29 final size:29
Alignment explanation
Indices: 16231--16295 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
16221 AATATGTTAC
16231 GAAGATTATTAAAGTTGTTTGGATTTCAA
1 GAAGATTATTAAAGTTGTTTGGATTTCAA
*
16260 GAAGATTATTGAAGTTGTTTGGATTTCAA
1 GAAGATTATTAAAGTTGTTTGGATTTCAA
16289 GAAGATT
1 GAAGATT
16296 GTTTTGTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (29 bp):
GAAGATTATTAAAGTTGTTTGGATTTCAA
Found at i:16529 original size:14 final size:13
Alignment explanation
Indices: 16488--16536 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
16478 TGTTTTTTGT
*
16488 GTTTGTGTTGTTC
1 GTTTATGTTGTTC
16501 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
16514 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
*
16528 GTTTGTGTT
1 GTTTATGTT
16537 TGTTTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 1 0.03
13 17 0.55
14 13 0.42
ACGTcount: A:0.04, C:0.08, G:0.27, T:0.61
Consensus pattern (13 bp):
GTTTATGTTGTTC
Found at i:16541 original size:24 final size:22
Alignment explanation
Indices: 16481--16551 Score: 90
Period size: 24 Copynumber: 3.1 Consensus size: 22
16471 ATAAGTTTGT
*
16481 TTTTTGTGTTTGTGT-TGTTCG
1 TTTTTGTGTTTGTTTATGTTCG
*
16502 TTTATTGTGTTCGTTTATGTTCG
1 TTT-TTGTGTTTGTTTATGTTCG
16525 TTCGTTTGTGTTTGTTTATGTTCG
1 TT--TTTGTGTTTGTTTATGTTCG
16549 TTT
1 TTT
16552 ATCATTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.07
22 11 0.26
23 8 0.19
24 20 0.47
25 1 0.02
ACGTcount: A:0.04, C:0.07, G:0.24, T:0.65
Consensus pattern (22 bp):
TTTTTGTGTTTGTTTATGTTCG
Found at i:18079 original size:31 final size:31
Alignment explanation
Indices: 18043--18109 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
18033 TAAACATTAT
*
18043 TAAAATATTAATTTTACCCA-TAAATTTTAAA
1 TAAAATATTAA-TTTAACCATTAAATTTTAAA
* *
18074 TAAAATATTAATTTAACCATTGAATTTTAGA
1 TAAAATATTAATTTAACCATTAAATTTTAAA
18105 TAAAA
1 TAAAA
18110 CTAATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (31 bp):
TAAAATATTAATTTAACCATTAAATTTTAAA
Found at i:21648 original size:22 final size:21
Alignment explanation
Indices: 21623--21678 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
21613 TATATATAAT
*
21623 ATAAATAATAATATTTAATTTA
1 ATAAAT-ATAATAATTAATTTA
*
21645 ATAAATTTAATAATTAATTT-
1 ATAAATATAATAATTAATTTA
21665 -TAAAT-TAA-AATTAA
1 ATAAATATAATAATTAA
21679 AATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 3 0.09
19 5 0.16
21 12 0.38
22 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAATATAATAATTAATTTA
Found at i:21661 original size:21 final size:18
Alignment explanation
Indices: 21631--21688 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
21621 ATATAAATAA
*
21631 TAATATTTAATTTAATAAATT
1 TAATAATTAATTT--TAAA-T
21652 TAATAATTAATTTTAAAT
1 TAATAATTAATTTTAAAT
21670 TAA-AATTAAAATTTTAAAT
1 TAATAATT--AATTTTAAAT
21689 GTGTAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 14 0.41
21 12 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATAATTAATTTTAAAT
Found at i:21697 original size:23 final size:23
Alignment explanation
Indices: 21671--21727 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
21661 ATTTTAAATT
21671 AAAATTAAAATTTTAAATGTGTA
1 AAAATTAAAATTTTAAATGTGTA
21694 AAAATTAAAATTTTAAATGTGTA
1 AAAATTAAAATTTTAAATGTGTA
21717 AAAATTAAAAT
1 AAAATTAAAAT
21728 GACCCAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
AAAATTAAAATTTTAAATGTGTA
Found at i:22600 original size:32 final size:31
Alignment explanation
Indices: 22543--22612 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 31
22533 TAAAGATAAT
*
22543 TTTTAATTTAAAATTAGTAGGATAATTACTC
1 TTTTAATTTAAAATTAATAGGATAATTACTC
*
22574 TTTTAATTTGAATATTAATAGGATAATTACTC
1 TTTTAATTT-AAAATTAATAGGATAATTACTC
22606 TTTTAAT
1 TTTTAAT
22613 AAGTCAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 9 0.25
32 27 0.75
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (31 bp):
TTTTAATTTAAAATTAATAGGATAATTACTC
Found at i:27619 original size:27 final size:27
Alignment explanation
Indices: 27581--27697 Score: 164
Period size: 27 Copynumber: 4.4 Consensus size: 27
27571 GATAATGGCT
* * *
27581 CTGAATCATTCATAATGTAATTCTGTG
1 CTGAATCATTCAGAATGTACTTCTATG
* * *
27608 CTGAATCGTTCATAATGTACTT-TGTG
1 CTGAATCATTCAGAATGTACTTCTATG
27634 CTGAATCATTCAGAATGTACTTCTATG
1 CTGAATCATTCAGAATGTACTTCTATG
*
27661 TTGAATCATTCAGAATGTACTTCTATG
1 CTGAATCATTCAGAATGTACTTCTATG
27688 CTGAATCATT
1 CTGAATCATT
27698 AAGCACTGTT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 24 0.29
27 58 0.71
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTATG
Found at i:27643 original size:53 final size:54
Alignment explanation
Indices: 27581--27697 Score: 164
Period size: 53 Copynumber: 2.2 Consensus size: 54
27571 GATAATGGCT
* * * * *
27581 CTGAATCATTCATAATGTAATTCTGTGCTGAATCGTTCATAATGTACTT-TGTG
1 CTGAATCATTCAGAATGTAATTCTATGCTGAATCATTCAGAATGTACTTCTATG
* *
27634 CTGAATCATTCAGAATGTACTTCTATGTTGAATCATTCAGAATGTACTTCTATG
1 CTGAATCATTCAGAATGTAATTCTATGCTGAATCATTCAGAATGTACTTCTATG
27688 CTGAATCATT
1 CTGAATCATT
27698 AAGCACTGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 43 0.77
54 13 0.23
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (54 bp):
CTGAATCATTCAGAATGTAATTCTATGCTGAATCATTCAGAATGTACTTCTATG
Found at i:30928 original size:20 final size:21
Alignment explanation
Indices: 30903--30954 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30893 TTTTCCCAAT
*
30903 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
30923 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
30944 TCGCAATGCGA
1 TCGCAATGCGA
30955 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:30968 original size:20 final size:20
Alignment explanation
Indices: 30943--31097 Score: 161
Period size: 20 Copynumber: 7.7 Consensus size: 20
30933 AATTGGGAAA
30943 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
30963 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
30983 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
31003 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
31024 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
31044 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
31064 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
31084 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
31098 TTTCTAAGCG
Statistics
Matches: 116, Mismatches: 14, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
19 4 0.03
20 86 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:31028 original size:61 final size:61
Alignment explanation
Indices: 30963--31097 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
30953 GATACTGACT
* * *
30963 ATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * *
31024 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
31085 ATCGCAATGCGAT
1 ATCGCAATGCGAT
31098 TTTCTAAGCG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:31293 original size:22 final size:22
Alignment explanation
Indices: 31265--31308 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31255 CACTCTCTCA
31265 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
31287 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
31309 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:32966 original size:18 final size:18
Alignment explanation
Indices: 32945--32989 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
32935 TCCACTTCGG
*
32945 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
32963 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
32981 GAGCCATCA
1 GAGCCATCA
32990 TCTAATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:33525 original size:19 final size:20
Alignment explanation
Indices: 33471--33537 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
33461 TAGTTTACTT
* *
33471 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
33491 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
33511 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
33530 TCGCAACG
1 TCGCAACG
33538 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:33545 original size:14 final size:14
Alignment explanation
Indices: 33526--33583 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
33516 ATGCGAAATG
*
33526 AAAATCGCAACGAC
1 AAAATCGCAACGAA
33540 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
33556 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
*
33572 AAAATCGTAACG
1 AAAATCGCAACG
33584 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:33568 original size:32 final size:33
Alignment explanation
Indices: 33510--33600 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
33500 GGAAATGGCT
33510 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
33543 ATCGCAATGCGAAATG-AAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
33575 ATCGTAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
33601 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:33636 original size:14 final size:14
Alignment explanation
Indices: 33617--33707 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
33607 TTGTGTTTCG
33617 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
33631 CGTTGCTATTTCATTT
1 CGTTGCGATTT--TGT
*
33647 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
*
33663 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
33680 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
33696 CGTTGCGATTTT
1 CGTTGCGATTTT
33708 CATTTCGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
14 25 0.42
15 3 0.05
16 12 0.20
17 4 0.07
18 10 0.17
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:33689 original size:19 final size:19
Alignment explanation
Indices: 33665--33746 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
33655 GATTTTGTCG
33665 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
33684 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
33698 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
33717 TTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCA-TTTCGCA
33737 TTGCGATTTT
1 TTGCGATTTT
33747 AAGTTTCGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 16 0.32
20 14 0.28
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:33746 original size:39 final size:33
Alignment explanation
Indices: 33612--33723 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
33602 GCGATTTGTG
* *
33612 TTTCGCGTTGCGATTTTGTCGTTGCTA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
33644 TTTCGCATTACGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
33677 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
33710 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
33724 AGTCATTTTC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 24 0.32
33 51 0.68
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:33753 original size:20 final size:19
Alignment explanation
Indices: 33663--33762 Score: 84
Period size: 20 Copynumber: 5.4 Consensus size: 19
33653 ACGATTTTGT
33663 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
33682 CATTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
33696 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* **
33715 CATTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
33735 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
33755 TGTTGCGA
1 CGTTGCGA
33763 AAGTAAACTA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
14 7 0.11
15 3 0.05
16 2 0.03
17 2 0.03
18 3 0.05
19 18 0.29
20 27 0.44
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:34206 original size:41 final size:42
Alignment explanation
Indices: 34110--34197 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
34100 GACTCACCTG
* *
34110 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
34152 TCCTCCCTCAAGAGTCCCC-CCTACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
34193 TCATC
1 TCATC
34198 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.22
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:34621 original size:17 final size:17
Alignment explanation
Indices: 34599--34632 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34589 TTAAAAATTA
34599 ATGTAATTCACTAATAT
1 ATGTAATTCACTAATAT
*
34616 ATGTAATTCACTTATAT
1 ATGTAATTCACTAATAT
34633 CGCAACACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
ATGTAATTCACTAATAT
Found at i:34655 original size:20 final size:20
Alignment explanation
Indices: 34630--34678 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
34620 AATTCACTTA
34630 TATCGCAACACGAAACTGAC
1 TATCGCAACACGAAACTGAC
34650 TATCGCAACACGAAACTGAC
1 TATCGCAACACGAAACTGAC
34670 TATCGCAAC
1 TATCGCAAC
34679 GAGAGAATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (20 bp):
TATCGCAACACGAAACTGAC
Found at i:34708 original size:19 final size:19
Alignment explanation
Indices: 34684--34748 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
34674 GCAACGAGAG
34684 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
34703 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
34722 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
34736 AATCGCAATGCGA
1 AATCGCAATGCGA
34749 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:34792 original size:20 final size:20
Alignment explanation
Indices: 34767--34804 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34757 TCGCATTGCG
*
34767 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
34787 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
34805 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:35150 original size:21 final size:21
Alignment explanation
Indices: 35120--35215 Score: 74
Period size: 20 Copynumber: 4.7 Consensus size: 21
35110 AACTTTGAAA
* *
35120 ATCGCATTGCGATTCTGTATT
1 ATCGCGTTGCGATTATGTATT
* * *
35141 ATCTCGTTGCGA--AAGTCAGT
1 ATCGCGTTGCGATTATGT-ATT
*
35161 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
*
35182 ATCGCGTTGCGA-TA-GTCAGT
1 ATCGCGTTGCGATTATGT-ATT
*
35202 ATCGCATTGCGATT
1 ATCGCGTTGCGATT
35216 TTACCAATTC
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.07
20 27 0.47
21 25 0.43
22 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:35168 original size:20 final size:20
Alignment explanation
Indices: 35140--35214 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
35130 GATTCTGTAT
* *
35140 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
35160 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
35181 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
35201 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
35215 TTTACCAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.07
20 26 0.58
21 14 0.31
22 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:35216 original size:41 final size:41
Alignment explanation
Indices: 35120--35217 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
35110 AACTTTGAAA
* *
35120 ATCGCATTGCGATTCTGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* *
35161 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
35202 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
35218 ACCAATTCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:35228 original size:41 final size:41
Alignment explanation
Indices: 35120--35235 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 41
35110 AACTTTGAAA
* ** * * *
35120 ATCGCATTGCGATTCTGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* ** *
35161 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
35202 ATCGCATTGCGATTTTACCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
35236 TTATTTATTC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
41 64 0.97
42 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
Found at i:42607 original size:2 final size:2
Alignment explanation
Indices: 42600--42643 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
42590 AATTACTCTA
42600 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
42642 AT
1 AT
42644 TAAATATTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43056 original size:2 final size:2
Alignment explanation
Indices: 43049--43112 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
43039 GCATCATTGT
43049 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
43091 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
43113 GAGAGAGAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53234 original size:64 final size:64
Alignment explanation
Indices: 53107--53226 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
53097 TATGTTATAT
* *
53107 CATTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
*
53171 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACTCTTATATAAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAAT
53227 GTAATAGGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (64 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
Found at i:53652 original size:200 final size:200
Alignment explanation
Indices: 53241--53961 Score: 792
Period size: 200 Copynumber: 3.6 Consensus size: 200
53231 TAGGTAGCGC
* ** * * * *
53241 TTATATTGACCTATTTTCGAAGT-AAATCGGTATATTTATATCGGTAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * * *
53305 TTACATTATAATTATCGGTTTCGATATTTTTT-AGATCAATACAATTT--TAAATGTATCGACTC
65 TTACATTATAATTATCGGTTTCGATGTTTTTTGAGATCGATAC-TTTTAATAAATGTATCGACAC
* * ** * * * *
53367 TTTATGCTTGCACCTCGTTGGGCATTCA-TAT--TTAAAAGTATTGACACAAACTAAAAAAATGT
129 TTTATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATTAAACAAGTGT
53429 CGATA-T
194 CGATACT
*
53435 ATTAT-TTAAACCTATTTTCTCATAAAACCGGTATATTTATACCAGG-TACATTGTAAATTTACC
1 -TTATGTT-GACCTATTTTCTCATAAAACCGGTATATTTATACC-GGTTACATTGTAAATTTACC
* * * *
53498 TATCACATTGTAATTTTC-GTTTCGATGTTTTTTGGGATCGATACTTTTAATAAATGTATCGACA
63 TATTACATTATAATTATCGGTTTCGATGTTTTTTGAGATCGATACTTTTAATAAATGTATCGACA
* * *
53562 CTCTATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGT
128 CTTTATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAA-GTATCGACACAAATTAAACAAGT
53627 GTCGATACT
192 GTCGATACT
* * * * *
53636 TTATGCTGACCTATTTTCTCATAAAACTGATATATTTATATCGGTTACATTGTAAATTTACTTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
53701 TACATTATAATTATCGGTTTCGATG-TTTTTGAGA-CTGATACTTTTAATAAATGTATCAACACT
66 TACATTATAATTATCGGTTTCGATGTTTTTTGAGATC-GATACTTTTAATAAATGTATCGACACT
* * **
53764 TTATGCGTGCACCTCGTTTGGACATTTATTCTGGACAATAAGTATCGACACAAATTCCACAAGTG
130 TTATGCGTGCACCTCGTTTGG-CATTCATTATGGACAA-AAGTATCGACACAAATTAAACAAGTG
* *
53829 TTGATACA
193 TCGATACT
* * * * * *
53837 TTATGTTGATCTGTTTTCTAAT-TAACTGGTATATTTATACCGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * *
53901 TACATTATAATTATTGGTTTTGATGTTTTTTTG-G-TCGATACTTGTAGA-AAATGTATCGACA
66 TACATTATAATTATCGGTTTCGATG-TTTTTTGAGATCGATACTTTTA-ATAAATGTATCGACA
53962 TATATTTATG
Statistics
Matches: 447, Mismatches: 58, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
194 20 0.04
195 70 0.16
196 40 0.09
197 3 0.01
199 7 0.02
200 225 0.50
201 74 0.17
202 8 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (200 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTT
TATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATTAAACAAGTGTCG
ATACT
Found at i:56445 original size:17 final size:17
Alignment explanation
Indices: 56420--56453 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56410 TAACTTTTCT
* *
56420 CATCTCATACATAATTA
1 CATCACATACAAAATTA
56437 CATCACATACAAAATTA
1 CATCACATACAAAATTA
56454 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:58385 original size:200 final size:200
Alignment explanation
Indices: 58042--59990 Score: 2738
Period size: 200 Copynumber: 9.7 Consensus size: 200
58032 TGAGTTATTT
* * * *
58042 AAAAGTATCGACACAAAATAAAAAAGTGTCGCTACATATTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * *
58107 GTATATTTATAACGGTTATATTAAAAAATTACATATTATATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
*
58172 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
* *
58237 CGATA
196 GGACA
* * * *
58242 AAAAGTATCGACACAATATTAAAAAGTATCTATACATGTTATAGACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
58307 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * *
58372 TGGGATCGATACTTTTTGAAAATGTATCGACACTCTGTGCGTTCATCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
58437 GGACA
196 GGACA
* * *
58442 AAAAGTATCGACACCAAATTAAAAAGTATCGATACATGTTATAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
** * *
58507 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAACTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
58572 TGGAATCGACACTTTTTGAAAATATATCGACACTTTGTACGTTCACCCTTTTTGGCATTCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
58637 GGACA
196 GGACA
* * * *
58642 AAAAGTATCGACACAATATTAAAAAGTATCTATACATGTTATAGACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * *
58707 GTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
58772 TGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCATTCATCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
58837 GGACA
196 GGACA
* * *
58842 AAAAGTATCGACACCAAATTAAAAAGTATCGATACATGTTATAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
** *
58907 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
** * * * *
58972 TGCAATCGACACTTTTTGAAAATATATCGACACTTTGTACGTTCACCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
59037 GGACA
196 GGACA
* * * * * * * *
59042 AAAAGTATTGATACAATATTAAAAAGTGTCAATGCATGTTGTATACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* ** * * *
59107 GTATATTTTTACTAGTTATATTACAAAATTACATATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * *
59172 TGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
59237 GGACA
196 GGACA
* * * * * *
59242 AAAAATATCAACACAATATTAAAAAGTATCGATACATATTGTAGACATATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * *
59307 GTATATTTATATCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTA
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * * * *
59372 TGGGATCGATACTTTTT-ATAAATGTATCGATACTTTATGGGTGCACCCTTTTTGGGATTTGATT
131 TGGGATCGATACTTTTTGA-AAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCA-TTCATT
59436 CTGGACA
194 CTGGACA
* * *
59443 AAAAGTATCGACACAAAATTAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * *
59508 GTATATTTATACAGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
59573 TGGGATCGATTCTTTTT-ATAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGCATTCATTC
131 TGGGATCGATACTTTTTGA-AAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTC
*
59637 TGGACC
195 TGGACA
* * *
59643 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCATAAAACTG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * *
59708 GTATATTTATATCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
59773 TGGGATCGATACTTTTT-ATAAAT-TGATCGATAGTTTATG-GTTGCACCCTTTTTTTGCATTCA
131 TGGGATCGATACTTTTTGA-AAATGT-ATCGACACTTTGTGCGTT-CACCC-TTTTTGGCATTCA
59835 TTCTGGACA
192 TTCTGGACA
*
59844 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * * * *
59909 GTATACTTATACCGGTTAAATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
59974 TGGGATCGATACTTTTT
131 TGGGATCGATACTTTTT
59991 ATATATGGAT
Statistics
Matches: 1585, Mismatches: 159, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
199 4 0.00
200 1241 0.78
201 340 0.21
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
TGGGATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATTCATTCT
GGACA
Found at i:60380 original size:19 final size:19
Alignment explanation
Indices: 60356--60404 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
60346 TTACATTCAC
60356 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
60375 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
60394 ATACAAAATTA
1 ATACAAAATTA
60405 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:61981 original size:24 final size:21
Alignment explanation
Indices: 61943--62004 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
61933 CCTCTTCATT
* *
61943 TCCTCCATATTTTCTTCTTCC
1 TCCTCCCTCTTTTCTTCTTCC
*
61964 TCTTCCCTCTTTTCTTCTTCC
1 TCCTCCCTCTTTTCTTCTTCC
61985 TCCTCCCTCTTTTCTTCTTC
1 TCCTCCCTCTTTTCTTCTTC
62005 ATATTTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (21 bp):
TCCTCCCTCTTTTCTTCTTCC
Found at i:62243 original size:32 final size:33
Alignment explanation
Indices: 62189--62253 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
62179 CATCTTAAGA
*
62189 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
62222 TCACCCCTCAA-ACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
62254 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:62278 original size:15 final size:16
Alignment explanation
Indices: 62253--62282 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62243 CTTTCACCAC
62253 TCCATCTATTTTTCCG
1 TCCATCTATTTTTCCG
62269 TCCA-CTATTTTTCC
1 TCCATCTATTTTTCC
62283 TTCAAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.33, G:0.03, T:0.50
Consensus pattern (16 bp):
TCCATCTATTTTTCCG
Found at i:62326 original size:21 final size:21
Alignment explanation
Indices: 62302--62408 Score: 178
Period size: 21 Copynumber: 5.1 Consensus size: 21
62292 CCCCTTATGC
* *
62302 CTCTTAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
62323 CTCTCAAATTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
62344 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
62365 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
62386 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
62407 CT
1 CT
62409 TGATTGTCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.16, C:0.32, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:64964 original size:182 final size:181
Alignment explanation
Indices: 64574--65028 Score: 662
Period size: 182 Copynumber: 2.5 Consensus size: 181
64564 TACACGTACT
* * *
64574 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTACCAGTTTTATCATTTCAATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATACCG
* * * * *
64639 GTTTTGTCATATTTTTACTTGTTATATCGTTATGGATCGATATTTTTTTTAAAGTATCGACACTT
66 GTTTTGTCATATTTTTACATGTTATATCATTATGGATCAATAATTTTTATAAAGTATCGACACTT
* *
64704 TATAAGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TATAAGCGCTAAAACTGCTTCTATTTTAAATTCACAAAGTGTCGATACTTA
*
64755 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATACCG
* *
64820 GTTTTGTCATATTTTTACATGTTATATCATTGTGGATTAATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCATTATGGATCAATA-ATTTTTATAAAGTATCGACACT
* *
64885 TTATAGGCGCTAAAATTGCTTCTATTTTAAATTCACAAAGTGTCGATACTTA
130 TTATAAGCGCTAAAACTGCTTCTATTTTAAATTCACAAAGTGTCGATACTTA
* * * * * *
64937 TATTAAAGTATCGACACTTTTAATATATTCGGTACCGCTTTACCGGTATTGTC-TTTACG-TGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTT-CGAT-AC
* *
65000 AGGTTTTGTCATATTTTTACCTGTTATAT
64 CGGTTTTGTCATATTTTTACATGTTATAT
65029 TGATATGAAT
Statistics
Matches: 247, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 102 0.41
182 145 0.59
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATACCG
GTTTTGTCATATTTTTACATGTTATATCATTATGGATCAATAATTTTTATAAAGTATCGACACTT
TATAAGCGCTAAAACTGCTTCTATTTTAAATTCACAAAGTGTCGATACTTA
Done.