Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003420.1 Hibiscus syriacus cultivar Beakdansim tig00007198_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: 163802
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:3614 original size:27 final size:23
Alignment explanation
Indices: 3569--3660 Score: 62
Period size: 23 Copynumber: 3.8 Consensus size: 23
3559 TTTTTTATAT
3569 TTACATTTATTTTATTATTTTCA
1 TTACATTTATTTTATTATTTTCA
*
3592 TTACTATTTATTATATATATATTTTCGT
1 TTAC-ATTTATT-T-TAT-TATTTTC-A
** *
3620 TTTTATGTA-TTTATTA-TTTCA
1 TTACATTTATTTTATTATTTTCA
* *
3641 TTGTCATTTATATTATTATT
1 TT-ACATTTATTTTATTATT
3661 GATATATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
21 2 0.04
22 9 0.17
23 12 0.23
24 11 0.21
25 2 0.04
26 4 0.08
27 11 0.21
28 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (23 bp):
TTACATTTATTTTATTATTTTCA
Found at i:3802 original size:13 final size:13
Alignment explanation
Indices: 3786--3823 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3776 TTTTCTCACC
3786 ATGTTTTTATTTT
1 ATGTTTTTATTTT
3799 ATG-TTTTATTCTT
1 ATGTTTTTATT-TT
3812 AT-TTTTTATTTT
1 ATGTTTTTATTTT
3824 TTGATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (13 bp):
ATGTTTTTATTTT
Found at i:9055 original size:23 final size:22
Alignment explanation
Indices: 8996--9062 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
8986 TATGGACATC
*
8996 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
9018 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
9040 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
9063 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:11911 original size:34 final size:33
Alignment explanation
Indices: 11873--11946 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
11863 GTTCATTTAC
*
11873 GTTCGTGAACGTTCGCTTATGTTCGCTCGATTAT
1 GTTCGT-AACGTTCACTTATGTTCGCTCGATTAT
* * * * *
11907 GTTCGATTATGTTCATTTATGTTTGTTCGATTAT
1 GTTCG-TAACGTTCACTTATGTTCGCTCGATTAT
11941 GTTCGT
1 GTTCGT
11947 TTATGTTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.03
34 31 0.94
35 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (33 bp):
GTTCGTAACGTTCACTTATGTTCGCTCGATTAT
Found at i:11912 original size:10 final size:10
Alignment explanation
Indices: 11899--11954 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
11889 TTATGTTCGC
11899 TCGATTATGT
1 TCGATTATGT
11909 TCGATTATGT
1 TCGATTATGT
*
11919 TC-ATT-T-A
1 TCGATTATGT
11926 T-G-TT-TGT
1 TCGATTATGT
11933 TCGATTATGT
1 TCGATTATGT
*
11943 TCGTTTATGT
1 TCGATTATGT
11953 TC
1 TC
11955 ATTCATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
8 2 0.05
9 5 0.13
10 26 0.68
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (10 bp):
TCGATTATGT
Found at i:11933 original size:24 final size:24
Alignment explanation
Indices: 11906--11953 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11896 CGCTCGATTA
11906 TGTTCGATTATGTTCATTTATGTT
1 TGTTCGATTATGTTCATTTATGTT
*
11930 TGTTCGATTATGTTCGTTTATGTT
1 TGTTCGATTATGTTCATTTATGTT
11954 CATTCATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (24 bp):
TGTTCGATTATGTTCATTTATGTT
Found at i:11951 original size:34 final size:34
Alignment explanation
Indices: 11889--11957 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
11879 GAACGTTCGC
11889 TTATGTTCGCTCGATTATGTTCGATTATGTTCAT
1 TTATGTTCGCTCGATTATGTTCGATTATGTTCAT
* * *
11923 TTATGTTTGTTCGATTATGTTCGTTTATGTTCAT
1 TTATGTTCGCTCGATTATGTTCGATTATGTTCAT
11957 T
1 T
11958 CATTTATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.16, C:0.12, G:0.17, T:0.55
Consensus pattern (34 bp):
TTATGTTCGCTCGATTATGTTCGATTATGTTCAT
Found at i:11964 original size:24 final size:24
Alignment explanation
Indices: 11908--11967 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
11898 CTCGATTATG
**
11908 TTCGATTATGTTCATTTATGTTTG
1 TTCGATTATGTTCATTTATGTTCA
*
11932 TTCGATTATGTTCGTTTATGTTCA
1 TTCGATTATGTTCATTTATGTTCA
11956 TTC-ATTTATGTT
1 TTCGA-TTATGTT
11968 TAACTCAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (24 bp):
TTCGATTATGTTCATTTATGTTCA
Found at i:13059 original size:10 final size:10
Alignment explanation
Indices: 13044--13078 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
13034 GTCTCGAACG
13044 TTTATGTTCA
1 TTTATGTTCA
13054 TTTATGTTCA
1 TTTATGTTCA
*
13064 TTTATGTTCG
1 TTTATGTTCA
13074 TTTAT
1 TTTAT
13079 TTATTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.17, C:0.09, G:0.11, T:0.63
Consensus pattern (10 bp):
TTTATGTTCA
Found at i:24097 original size:42 final size:42
Alignment explanation
Indices: 24051--24138 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
24041 TTAGATGTTT
* * * * *
24051 GTTCTCAGTACTCAGCCGCTCGGTT-TCCACTTTTAAGAATCC
1 GTTCTCAGAACTCACCCGCTC-ATTCTCCAATTTTAACAATCC
*
24093 GTTCTCAGAACTTACCCGCTCATTCTCCAATTTTAACAATCC
1 GTTCTCAGAACTCACCCGCTCATTCTCCAATTTTAACAATCC
24135 GTTC
1 GTTC
24139 ACACTACTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (42 bp):
GTTCTCAGAACTCACCCGCTCATTCTCCAATTTTAACAATCC
Found at i:26461 original size:60 final size:59
Alignment explanation
Indices: 26387--26498 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
26377 GTCACCAAGT
*
26387 TATAACTCTCATTTTAAATT-GATTCTTAAACTTTTGAATATTCTAATTCTATCTCTAAAC
1 TATAACTCTCATTTTAAATTAG-TCCTTAAACTTTTGAA-ATTCTAATTCTATCTCTAAAC
* ** *
26447 TATAACTTTCATTTTAAATTAGTCCTTAAGTTTTTGAAATTCTAATTTTATC
1 TATAACTCTCATTTTAAATTAGTCCTTAAACTTTTGAAATTCTAATTCTATC
26499 CCAAATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 13 0.28
60 32 0.70
61 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.49
Consensus pattern (59 bp):
TATAACTCTCATTTTAAATTAGTCCTTAAACTTTTGAAATTCTAATTCTATCTCTAAAC
Found at i:26526 original size:59 final size:60
Alignment explanation
Indices: 26387--26530 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 60
26377 GTCACCAAGT
* ** *
26387 TATAA-CTCTCATTTTAAATT-GATTCTTAAACTTTTGAATATTCTAATTCTATCTCTAAAC
1 TATAACCT-TCATTTTAAATTAG-TCCTTAAGTTTTTGAATATTCTAATTCTATCTCCAAAC
* * *
26447 TATAACTTTCATTTTAAATTAGTCCTTAAGTTTTTGAA-ATTCTAATTTTATC-CCAAATT
1 TATAACCTTCATTTTAAATTAGTCCTTAAGTTTTTGAATATTCTAATTCTATCTCCAAA-C
*
26506 TATGACCTTC-TTTCTAAATTAGTCC
1 TATAACCTTCATTT-TAAATTAGTCC
26531 CCGAACTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
58 7 0.10
59 32 0.45
60 30 0.42
61 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (60 bp):
TATAACCTTCATTTTAAATTAGTCCTTAAGTTTTTGAATATTCTAATTCTATCTCCAAAC
Found at i:36927 original size:41 final size:41
Alignment explanation
Indices: 36870--36947 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
36860 GTATCACAAA
* *
36870 TTCGCGTTGCGATAGTTGAAAACCGCGTTGCGGTTTTTCAT
1 TTCGCGTTGCAATAGTTGAAAACCGCGTTGCGATTTTTCAT
**
36911 TTCGCGTTGCAATAGTTGAAAATTGCGTTGCGATTTT
1 TTCGCGTTGCAATAGTTGAAAACCGCGTTGCGATTTT
36948 CCAAATTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCAATAGTTGAAAACCGCGTTGCGATTTTTCAT
Found at i:36964 original size:19 final size:20
Alignment explanation
Indices: 36930--37024 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 20
36920 CAATAGTTGA
36930 AAATTGCGTTGCGATTTTCC
1 AAATTGCGTTGCGATTTTCC
*
36950 AAATT-CGTTGTGATTTTCC
1 AAATTGCGTTGCGATTTTCC
* ** *
36969 -ATTTCGCGTTGCGATAGTCT
1 AAATT-GCGTTGCGATTTTCC
* * *
36989 ACAGTTGTCGCTACGATTTTCC
1 A-AATTG-CGTTGCGATTTTCC
37011 AAATT-CGTTGCGAT
1 AAATTGCGTTGCGAT
37025 AGTCCAAAAA
Statistics
Matches: 55, Mismatches: 15, Indels: 11
0.68 0.19 0.14
Matches are distributed among these distances:
18 3 0.05
19 20 0.36
20 15 0.27
21 4 0.07
22 13 0.24
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
AAATTGCGTTGCGATTTTCC
Found at i:36972 original size:60 final size:61
Alignment explanation
Indices: 36903--37020 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 61
36893 CGCGTTGCGG
* * *
36903 TTTTTCATTTCGCGTTGCAATAGT-TGAAAATTG-CGTTGCGATTTTCCAAATTCGTTGTGA
1 TTTTCCATTTCGCGTTGCAATAGTCT-AAAATTGTCGCTACGATTTTCCAAATTCGTTGTGA
* * *
36963 TTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTCGCTACGATTTTCCAAATTCGTTG
1 TTTTCCATTTCGCGTTGCAATAGTCTAAAATTGTCGCTACGATTTTCCAAATTCGTTG
37021 CGATAGTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 27 0.54
61 23 0.46
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (61 bp):
TTTTCCATTTCGCGTTGCAATAGTCTAAAATTGTCGCTACGATTTTCCAAATTCGTTGTGA
Found at i:37877 original size:19 final size:19
Alignment explanation
Indices: 37850--37891 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
37840 ATAATATTAT
37850 TAAAACTTGTTCTAAATTC
1 TAAAACTTGTTCTAAATTC
*
37869 TAAACCTTGTTCTAAATTC
1 TAAAACTTGTTCTAAATTC
37888 TAAA
1 TAAA
37892 TCATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAAACTTGTTCTAAATTC
Found at i:37997 original size:51 final size:51
Alignment explanation
Indices: 37922--38037 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
37912 CCAAATAAAT
37922 AATACTATTGGGAACAAGTGTTGGTAATGCCCAATCCCACATAGTTTTGGA
1 AATACTATTGGGAACAAGTGTTGGTAATGCCCAATCCCACATAGTTTTGGA
*
37973 AATACTATTGGGAACAAGTGTTGGTAATGCTCAATCCCACATAGTTTTGGA
1 AATACTATTGGGAACAAGTGTTGGTAATGCCCAATCCCACATAGTTTTGGA
*
38024 AACACTATTGGGAA
1 AATACTATTGGGAA
38038 TGGTATTTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (51 bp):
AATACTATTGGGAACAAGTGTTGGTAATGCCCAATCCCACATAGTTTTGGA
Found at i:38140 original size:6 final size:6
Alignment explanation
Indices: 38110--38150 Score: 54
Period size: 5 Copynumber: 7.5 Consensus size: 6
38100 GCGCGTCGCC
38110 GTCGT- GTCG-G GTCG-G GTCG-G GTCGTG GTCGTG GTCGTG GTC
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTC
38151 TTTGTCTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.00, C:0.20, G:0.51, T:0.29
Consensus pattern (6 bp):
GTCGTG
Found at i:38297 original size:17 final size:17
Alignment explanation
Indices: 38275--38308 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38265 GTTGGCATGC
38275 ACTAAACTTCATAGGGG
1 ACTAAACTTCATAGGGG
38292 ACTAAACTTCATAGGGG
1 ACTAAACTTCATAGGGG
38309 TTAAGTGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
ACTAAACTTCATAGGGG
Found at i:40521 original size:21 final size:19
Alignment explanation
Indices: 40492--40535 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
40482 ATTTATTTTA
40492 TTTTTATTTTAGGAAT-TATC
1 TTTTTATTTTA--AATGTATC
40512 TTTTTAATTTTAAATGTATC
1 TTTTT-ATTTTAAATGTATC
40532 TTTT
1 TTTT
40536 AGGGTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 13 0.59
21 6 0.27
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (19 bp):
TTTTTATTTTAAATGTATC
Found at i:44001 original size:26 final size:28
Alignment explanation
Indices: 43972--44032 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
43962 TTGATTATTT
* *
43972 ATTTTATTAATA-GTATC-CATTTTAAA
1 ATTTTATTAATACATATCTCATTTAAAA
*
43998 ATTTTATTTATACATATCTCATTTAAAA
1 ATTTTATTAATACATATCTCATTTAAAA
44026 ATTTTAT
1 ATTTTAT
44033 ATTACTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 11 0.37
27 4 0.13
28 15 0.50
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTATTAATACATATCTCATTTAAAA
Found at i:44654 original size:2 final size:2
Alignment explanation
Indices: 44649--44675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44639 TTTTATGATC
44649 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
44676 CAATACATTC
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:46542 original size:20 final size:21
Alignment explanation
Indices: 46517--46575 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
46507 GGCTGCTGGA
46517 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
46537 AACCGGTTCTGACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
*
46557 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
46576 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:46553 original size:10 final size:10
Alignment explanation
Indices: 46538--46607 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
46528 CCGGTTTTCA
46538 ACCGGTTCTG
1 ACCGGTTCTG
*
46548 ACCGGTT-TCA
1 ACCGGTTCT-G
46558 ACCGGTTC-G
1 ACCGGTTCTG
46567 AACCGGTT-TG
1 -ACCGGTTCTG
46577 ACCGG-TCTG
1 ACCGGTTCTG
*
46586 AATCGGTT-TG
1 -ACCGGTTCTG
46596 ACCGG-TCTG
1 ACCGGTTCTG
46605 ACC
1 ACC
46608 CGACCCGACC
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
8 2 0.04
9 17 0.35
10 28 0.58
11 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:46554 original size:30 final size:29
Alignment explanation
Indices: 46518--46582 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
46508 GCTGCTGGAA
46518 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTT-TG
46548 ACCGGTTTCAACCGGTTCGAACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTTG
46577 ACCGGT
1 ACCGGT
46583 CTGAATCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.33
30 16 0.48
31 6 0.18
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTTG
Found at i:46582 original size:19 final size:20
Alignment explanation
Indices: 46538--46605 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
46528 CCGGTTTTCA
*
46538 ACCGGTTCTG-ACCGGTTTCA
1 ACCGGTTCTGAACCGGTTT-G
46558 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
*
46577 ACCGG-TCTGAATCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
46596 ACCGG-TCTGA
1 ACCGGTTCTGA
46606 CCCGACCCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 2 0.05
19 26 0.59
20 16 0.36
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:46614 original size:5 final size:5
Alignment explanation
Indices: 46604--46661 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
46594 TGACCGGTCT
* *
46604 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
46653 GACCC GACC
1 GACCC GACC
46662 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:46630 original size:22 final size:22
Alignment explanation
Indices: 46604--46668 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
46594 TGACCGGTCT
46604 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
46626 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
46648 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
46669 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:46670 original size:7 final size:7
Alignment explanation
Indices: 46658--46695 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
46648 GACCCGACCC
46658 GACCGTT
1 GACCGTT
46665 GACCGTT
1 GACCGTT
46672 GACCGTT
1 GACCGTT
46679 GACCGTT
1 GACCGTT
*
46686 GACCATT
1 GACCGTT
46693 GAC
1 GAC
46696 TTTCTTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:53879 original size:10 final size:9
Alignment explanation
Indices: 53844--53942 Score: 72
Period size: 10 Copynumber: 10.3 Consensus size: 9
53834 GCTGCTGGAA
*
53844 ACCGGTTTA
1 ACCGGTTTG
*
53853 ACCGGTTTTCA
1 ACCGG-TTT-G
53864 ACCGGTTCTG
1 ACCGGTT-TG
53874 ACCGGTTTG
1 ACCGGTTTG
*
53883 ACCGGTTTCA
1 ACCGGTTT-G
*
53893 ACCGGTTCG
1 ACCGGTTTG
53902 AACCGGTTTG
1 -ACCGGTTTG
*
53912 ACCGGTCTG
1 ACCGGTTTG
* *
53921 AATCGATTTG
1 -ACCGGTTTG
*
53931 ACCGGTCTG
1 ACCGGTTTG
53940 ACC
1 ACC
53943 CGACCCGACC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 32 0.44
10 33 0.46
11 7 0.10
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:53888 original size:19 final size:19
Alignment explanation
Indices: 53845--53942 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
53835 CTGCTGGAAA
* * *
53845 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
53865 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
53884 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
53904 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
* *
53923 TCGATTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
53941 CC
1 CC
53943 CGACCCGACC
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.08
19 38 0.58
20 15 0.23
21 8 0.12
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:53906 original size:29 final size:30
Alignment explanation
Indices: 53843--53917 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
53833 GGCTGCTGGA
*
53843 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
53874 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
53902 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
53918 CTGAATCGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:53949 original size:5 final size:5
Alignment explanation
Indices: 53939--53991 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
53929 TGACCGGTCT
* *
53939 GACCC GACCC GACCGTT GACCC GACCC GACCGTT GACCC GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACC--C GACCC GACCC GACCC
53988 GACC
1 GACC
53992 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:53965 original size:22 final size:22
Alignment explanation
Indices: 53956--53998 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53946 CCCGACCGTT
53956 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
53978 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
53999 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:53998 original size:17 final size:17
Alignment explanation
Indices: 53938--53986 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
53928 TTGACCGGTC
53938 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
53955 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
53972 TGACCCGACCCGACC
1 TGACCCGACCCGACC
53987 CGACCGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:54000 original size:7 final size:7
Alignment explanation
Indices: 53988--54025 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
53978 GACCCGACCC
53988 GACCGTT
1 GACCGTT
53995 GACCGTT
1 GACCGTT
54002 GACCGTT
1 GACCGTT
54009 GACCGTT
1 GACCGTT
*
54016 GACCATT
1 GACCGTT
54023 GAC
1 GAC
54026 TTTCTTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:55651 original size:3 final size:3
Alignment explanation
Indices: 55645--55697 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
55635 CACCCCCAGG
55645 TCT TCT TCT TCT TCCT TCAT TCT T-T AT-T TCTT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT T-CT TC-T TCT TCT -TCT TC-T TCT TCT TCT TCT TCT
55692 TCT TCT
1 TCT TCT
55698 AAGTTTTAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:56465 original size:18 final size:17
Alignment explanation
Indices: 56438--56472 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56428 GAGGAAGAAG
56438 AAGAAGGAAGAAGAAAGA
1 AAGAAGGAAGAA-AAAGA
*
56456 AAGAATGAAGAAAAAGA
1 AAGAAGGAAGAAAAAGA
56473 CCTGGGGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (17 bp):
AAGAAGGAAGAAAAAGA
Found at i:57350 original size:3 final size:3
Alignment explanation
Indices: 57344--57430 Score: 167
Period size: 3 Copynumber: 29.3 Consensus size: 3
57334 GTTGTTGTGC
57344 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
57391 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
57431 GGAGGAGGAG
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59478 original size:20 final size:19
Alignment explanation
Indices: 59438--59481 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
59428 TTACAAGCGT
*
59438 AAATA-AATTTTTTTAAGA
1 AAATATAATTTTTGTAAGA
*
59456 AAATATAATTTTTAGTAATA
1 AAATATAATTTTT-GTAAGA
59476 AAATAT
1 AAATAT
59482 TCATCATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
AAATATAATTTTTGTAAGA
Found at i:67012 original size:37 final size:37
Alignment explanation
Indices: 66960--67083 Score: 187
Period size: 37 Copynumber: 3.2 Consensus size: 37
66950 TTTAGGTGTT
66960 CAAAC-TTTTTTTGAATGATCTAGGTGTCTAACGTTA
1 CAAACGTTTTTTTGAATGATCTAGGTGTCTAACGTTA
66996 CAAACGTTTTTTTGAATGATCTAGGTGTCTAACGTTA
1 CAAACGTTTTTTTGAATGATCTAGGTGTCTAACGTTA
67033 CAAACGTTATCACTTTTTTGAATGATCTAGGTGTCTAACGTTA
1 CAAACG---T---TTTTTTGAATGATCTAGGTGTCTAACGTTA
67076 CAAACGTT
1 CAAACGTT
67084 ATCACTTTAG
Statistics
Matches: 81, Mismatches: 0, Indels: 13
0.86 0.00 0.14
Matches are distributed among these distances:
36 5 0.06
37 38 0.47
40 2 0.02
43 36 0.44
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (37 bp):
CAAACGTTTTTTTGAATGATCTAGGTGTCTAACGTTA
Found at i:67053 original size:43 final size:43
Alignment explanation
Indices: 66966--67091 Score: 210
Period size: 43 Copynumber: 3.1 Consensus size: 43
66956 TGTTCAAACT
66966 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACG---T---
1 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
67003 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
1 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
67046 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
1 TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
67089 TTT
1 TTT
67092 AGGTGTCTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
37 36 0.43
40 1 0.01
43 46 0.55
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (43 bp):
TTTTTTGAATGATCTAGGTGTCTAACGTTACAAACGTTATCAC
Found at i:74551 original size:13 final size:13
Alignment explanation
Indices: 74533--74568 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
74523 AATGATACAC
74533 GTTAAAATTAATG
1 GTTAAAATTAATG
74546 GTTAAAATTAATG
1 GTTAAAATTAATG
*
74559 GTCAAAATTA
1 GTTAAAATTA
74569 TCTAAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (13 bp):
GTTAAAATTAATG
Found at i:77083 original size:44 final size:44
Alignment explanation
Indices: 77035--77180 Score: 219
Period size: 44 Copynumber: 3.4 Consensus size: 44
77025 GCGATAGTCG
77035 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCC
* * *
77079 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGTGA--TAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCC
77121 AAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCC
77167 AAGTT--CGTTGCGAT
1 AAGTTCGCGTTGCGAT
77181 AGTCCAAAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
42 32 0.35
44 51 0.55
46 9 0.10
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (44 bp):
AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCC
Found at i:77093 original size:23 final size:23
Alignment explanation
Indices: 77035--77180 Score: 182
Period size: 23 Copynumber: 6.7 Consensus size: 23
77025 GCGATAGTCG
77035 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
*
77058 AAATT--CGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
77079 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
* * * *
77102 AAATT--CGTTGTGA--TAGTCG
1 AAGTTCGCGTTGCGATTTATTCC
77121 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
*
77144 AAATTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
77167 AAGTT--CGTTGCGAT
1 AAGTTCGCGTTGCGAT
77181 AGTCCAAAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.08
21 43 0.41
23 54 0.51
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (23 bp):
AAGTTCGCGTTGCGATTTATTCC
Found at i:77111 original size:65 final size:65
Alignment explanation
Indices: 77042--77188 Score: 201
Period size: 65 Copynumber: 2.3 Consensus size: 65
77032 TCGAAGTTCG
* *
77042 CGTTGCGATTTATTCCAAATT-CGTTGCGATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAAT
1 CGTTGCGA-TTAGTCCAAATTCCGTTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCCAAAT
77106 T
65 T
* * * *
77107 CGTTGTGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCCAAGT
1 CGTTGCGATTAGTCCAAATTC-CGTTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCCAAAT
77171 T
65 T
77172 CGTTGCGA-TAGTCCAAA
1 CGTTGCGATTAGTCCAAA
77189 ATCGCAACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
63 8 0.11
65 63 0.89
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (65 bp):
CGTTGCGATTAGTCCAAATTCCGTTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCCAAATT
Found at i:77945 original size:21 final size:21
Alignment explanation
Indices: 77919--78063 Score: 91
Period size: 21 Copynumber: 6.6 Consensus size: 21
77909 AATTTGGAAA
77919 ATCGCAATGCGATAGTCGACT
1 ATCGCAATGCGATAGTCGACT
* *
77940 ATCGCAATGCGA-ACTTGGACT
1 ATCGCAATGCGATA-GTCGACT
*
77961 ATCGCAATGCGA-ACTTCGACT
1 ATCGCAATGCGATA-GTCGACT
* * *
77982 ATCGCATTGCGAT-TTGCGAATATGT
1 ATCGCAATGCGATAGT-CG---A-CT
*
78007 AAATCGCAATGCGATAGTCGAAGT
1 --ATCGCAATGCGATAGTCG-ACT
*
78031 -TCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCGACT
*
78051 ATCGCATTGCGAT
1 ATCGCAATGCGAT
78064 TTACATATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
20 5 0.05
21 78 0.76
24 3 0.03
25 2 0.02
27 14 0.14
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (21 bp):
ATCGCAATGCGATAGTCGACT
Found at i:77971 original size:42 final size:42
Alignment explanation
Indices: 77896--77993 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
77886 TGCGATTTTA
*
77896 GACTATCGCAA--CGAATTTGGAAAATCGCAATGCGATA-GTC
1 GACTATCGCAATGCGAACTTGGAAAATCGCAATGCGA-ACGTC
** *
77936 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACGTC
*
77978 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
77994 TTTGCGAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 11 0.22
41 1 0.02
42 38 0.76
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (42 bp):
GACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACGTC
Found at i:78101 original size:21 final size:21
Alignment explanation
Indices: 78010--78103 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
78000 AATATGTAAA
* *
78010 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
78031 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
78051 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
78072 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
78093 TCGCGTTGCGA
1 TCGCATTGCGA
78104 ATCTGGAAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
20 16 0.27
21 42 0.71
22 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:88844 original size:16 final size:16
Alignment explanation
Indices: 88823--88861 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
88813 GCTATGACTT
88823 GAACCACCCTACTATG
1 GAACCACCCTACTATG
88839 GAACCACCCTACTATG
1 GAACCACCCTACTATG
88855 GAACCAC
1 GAACCAC
88862 TCCAGCAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.38, G:0.13, T:0.15
Consensus pattern (16 bp):
GAACCACCCTACTATG
Found at i:90277 original size:38 final size:38
Alignment explanation
Indices: 90226--90317 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
90216 CTGTAACCAG
90226 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
1 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
*
90264 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATCAA
1 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
*
90302 AAATGCTGTTCTTAAG
1 AAATGCAGTTCTTAAG
90318 GGGTCATGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (38 bp):
AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
Found at i:92973 original size:20 final size:20
Alignment explanation
Indices: 92948--92990 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
92938 TCTGCGCGGC
92948 GCAGACGTGACCTTATGTCT
1 GCAGACGTGACCTTATGTCT
92968 GCAGACGTGACCTTATGTCT
1 GCAGACGTGACCTTATGTCT
92988 GCA
1 GCA
92991 AACTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (20 bp):
GCAGACGTGACCTTATGTCT
Found at i:93181 original size:19 final size:20
Alignment explanation
Indices: 93157--93205 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
93147 GATAAATTTA
*
93157 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
93176 TTAATAATTTAATAAGTATT
1 TTAATAATTTTATAAGTATT
93196 TT-ATAATTTT
1 TTAATAATTTT
93206 TAAACTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:95522 original size:21 final size:21
Alignment explanation
Indices: 95496--95542 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
95486 ATCCAGGCGA
95496 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGAGC
*
95517 CATACGGGGTGGCATACGAGC
1 CATACGGGGTGACATACGAGC
95538 CATAC
1 CATAC
95543 AAGCCATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.32, T:0.15
Consensus pattern (21 bp):
CATACGGGGTGACATACGAGC
Found at i:95541 original size:9 final size:9
Alignment explanation
Indices: 95529--95568 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
95519 TACGGGGTGG
95529 CATACGAGC
1 CATACGAGC
*
95538 CATACAAGC
1 CATACGAGC
95547 CATATACGAGC
1 C--ATACGAGC
95558 CATACGAGC
1 CATACGAGC
95567 CA
1 CA
95569 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:95555 original size:20 final size:20
Alignment explanation
Indices: 95530--95568 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
95520 ACGGGGTGGC
95530 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
95550 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
95569 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:95731 original size:29 final size:29
Alignment explanation
Indices: 95681--95780 Score: 157
Period size: 29 Copynumber: 3.4 Consensus size: 29
95671 GCCAATGGAG
* *
95681 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
95710 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
95739 AGGTCGCCATGTAGTCCCAGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
95768 AGGTCGCCATGTA
1 AGGTCGCCATGTA
95781 ATCCTAGCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
29 65 0.97
30 2 0.03
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:95910 original size:46 final size:46
Alignment explanation
Indices: 95853--95942 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
95843 TGCACAGTTC
* *
95853 CCACGTCCCATGCACAGCATGCATCCCACAACTCCTCCATGCATTT
1 CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCATTT
*
95899 CCACGTCCCATGCACAACATGCATCCTACAACTCCCCCATGCAT
1 CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCAT
95943 GCTCCAATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.44, G:0.10, T:0.20
Consensus pattern (46 bp):
CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCATTT
Found at i:96038 original size:29 final size:29
Alignment explanation
Indices: 95996--96057 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
95986 AATACCACAC
* *
95996 AGGTCGCTCGGATGCCATGGCGACCTCTA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
96025 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
96054 AGGT
1 AGGT
96058 TACTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:98565 original size:38 final size:38
Alignment explanation
Indices: 98514--98591 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
98504 GAATACATAG
98514 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
1 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
98552 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
1 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
98590 TT
1 TT
98592 CTATTACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (38 bp):
TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
Found at i:109173 original size:23 final size:23
Alignment explanation
Indices: 109147--109222 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
109137 ACTTCTGTGC
109147 TGAATCATTCAACACTGTTTTGT
1 TGAATCATTCAACACTGTTTTGT
* *
109170 TGAATCATTTACCACTGTTTTGT
1 TGAATCATTCAACACTGTTTTGT
* *
109193 TGAATCATTCAACATTGTTTTGC
1 TGAATCATTCAACACTGTTTTGT
109216 TGAATCA
1 TGAATCA
109223 GTCAGTACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
TGAATCATTCAACACTGTTTTGT
Found at i:109309 original size:20 final size:21
Alignment explanation
Indices: 109267--109309 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
109257 CGCGCTGAAT
*
109267 GCTGAACGGTTCAACATTCAGA
1 GCTGAACGGTTC-ACATTAAGA
*
109289 GCTGAATGGTTC-CATTAAGA
1 GCTGAACGGTTCACATTAAGA
109309 G
1 G
109310 GCAAACAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
GCTGAACGGTTCACATTAAGA
Found at i:114798 original size:15 final size:15
Alignment explanation
Indices: 114778--114811 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
114768 CTTCTTGTGG
114778 GTGGACATTAATGCT
1 GTGGACATTAATGCT
114793 GTGGACATTAATGCT
1 GTGGACATTAATGCT
114808 GTGG
1 GTGG
114812 CGGTGTGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (15 bp):
GTGGACATTAATGCT
Found at i:116846 original size:14 final size:15
Alignment explanation
Indices: 116827--116855 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116817 TATGGTGTCT
116827 CTCTCG-TTATCTAA
1 CTCTCGTTTATCTAA
116841 CTCTCGTTTATCTAA
1 CTCTCGTTTATCTAA
116856 TCCAAATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
CTCTCGTTTATCTAA
Found at i:125343 original size:26 final size:26
Alignment explanation
Indices: 125314--125374 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
125304 ATGCTAGGGA
*
125314 GTCGGCAGCGGAGCTTCTAAAAGAAT
1 GTCGGAAGCGGAGCTTCTAAAAGAAT
125340 GTCGGAAGCGGAGCTTCTAAAAGAAT
1 GTCGGAAGCGGAGCTTCTAAAAGAAT
125366 GTCGGAAGC
1 GTCGGAAGC
125375 AAAACAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (26 bp):
GTCGGAAGCGGAGCTTCTAAAAGAAT
Found at i:127914 original size:229 final size:228
Alignment explanation
Indices: 127512--127992 Score: 856
Period size: 229 Copynumber: 2.1 Consensus size: 228
127502 GTTATATTGT
*
127512 AAAGTATATATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
*
127577 TCTTTGGTTAATATTGATAAATTTAAATTCTAAATAATTTTTATAAAATATCAAAACAATCAAAT
66 TATTTGGTTAATATTGATAAATTTAAATTCTAAATAATTTTTATAAAATATCAAAACAATCAAAT
* * *
127642 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTTTTTAA
131 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAA
127707 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
127740 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGTAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTG-AAAACATATTTATTATT
*
127805 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
65 ATATTTGGTTAATATTGATAAATTTAAATTCTAAATAAT-TTTTATAAAATATCAAAACAATCAA
*
127870 ATAATTTTTT-TGTATATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTA
129 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTA
127934 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
**
127969 AAAGTATCGATCATTTTTATAAAA
1 AAAGTATATATCATTTTTATAAAA
127993 AGTATGGACA
Statistics
Matches: 242, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
228 46 0.19
229 161 0.67
230 35 0.14
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGATAAATTTAAATTCTAAATAATTTTTATAAAATATCAAAACAATCAAAT
AATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:128055 original size:23 final size:23
Alignment explanation
Indices: 128024--128096 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
128014 ATAGGTAAAA
*
128024 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
128047 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
128070 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
128093 ATAT
1 ATAT
128097 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:128545 original size:23 final size:23
Alignment explanation
Indices: 128514--128586 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
128504 ATAGGTAAAA
*
128514 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
128537 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
128560 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
128583 ATAT
1 ATAT
128587 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:128562 original size:490 final size:490
Alignment explanation
Indices: 127791--129676 Score: 3521
Period size: 490 Copynumber: 3.9 Consensus size: 490
127781 ACTGTGTAAA
*
127791 ACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
* *
127856 ATCAAAACAATCAAATAATTTTTT-TGTATATGAAATTATTAAATTAATATTATAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
*
127920 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
131 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
127985 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
128050 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
261 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
* *
128115 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGGAAATATTAATTTAAGGTTATCTTTTGAGTGA
326 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
*
128180 GTTTTAAGATATCAATTTAGTAATTGTACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
391 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
128245 TTATTATTAAATTAAAAACAATAAACATATATATT
456 TTATTATTAAATTAAAAACAATAAACATATATATT
128280 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
128345 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
* *
128410 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCCTTT
131 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
128475 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
128540 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
261 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
*
128605 TTTATAAAAGTGTTCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
326 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
128670 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
391 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
128735 TTATTATTAAATTAAAAACAATAAAC--ATATATT
456 TTATTATTAAATTAAAAACAATAAACATATATATT
128768 ACATA-TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
*
128832 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTAGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
* *
128897 ATGAAATACTATTAGAAAAAATTGAAATATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
131 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
128962 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
129027 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
261 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
129092 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
326 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
129157 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
391 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
129222 TTATTATTAAATTAAAAACAATAAACATATATATT
456 TTATTATTAAATTAAAAACAATAAACATATATATT
*
129257 ACATATTTATTATTATCTTTGGTTAATATTGTTAAACTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
*
129322 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
*
129387 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTT
131 ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
* *
129452 TTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
* *
129517 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATTTGTGCTT
261 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
* * *
129582 TTT-TAAAAAGTGTACATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTG
326 TTTAT-AAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTG
129646 AGTTTTAAGATATCAATTTAGTAATTATACG
390 AGTTTTAAGATATCAATTTAGTAATTATACG
129677 TTGTCGCAAC
Statistics
Matches: 1363, Mismatches: 29, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
487 469 0.34
488 12 0.01
489 101 0.07
490 781 0.57
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (490 bp):
ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTGGAAAAC
ATGAAACACTATTAGAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
TTATTATTAAATTAAAAACAATAAACATATATATT
Found at i:129032 original size:23 final size:23
Alignment explanation
Indices: 129001--129073 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
128991 ATAGGTAAAA
*
129001 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
129024 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
129047 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
129070 ATAT
1 ATAT
129074 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:129171 original size:977 final size:977
Alignment explanation
Indices: 127791--129676 Score: 3560
Period size: 977 Copynumber: 1.9 Consensus size: 977
127781 ACTGTGTAAA
127791 ACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
* *
127856 ATCAAAACAATCAAATAATTTTTTTGTATATGAAATTATTAAATTAATATTATAGGTGGAAAACA
66 ATCAAAACAATCAAATAATTTTTTTGTATATGAAATTATTAAATTAATATTATAAGTAGAAAACA
127921 TGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTT
131 TGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTT
127986 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATAT
196 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATAT
128051 AATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTT
261 AATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTT
* *
128116 TTATAAAAGTGTCCATATTTTTTTCACTGTGGGAAATATTAATTTAAGGTTATCTTTTGAGTGAG
326 TTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAG
*
128181 TTTTAAGATATCAATTTAGTAATTGTACGCGCTTAATGATTTATTTTTTATGTTACGGTATATAT
391 TTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATAT
128246 TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTG
456 TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTG
*
128311 TTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTATA
521 TTAAACTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTATA
128376 TGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAGAAAAAATTGAAACATA
586 TGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAGAAAAAATTGAAACATA
*
128441 AATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
651 AATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
*
128506 AGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATGTAATAGGTAACGTTTATATAATGTAA
716 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAA
* *
128571 TAGGTAGCGCTTATATTGTAAAGTATCTGTCC-TTTTTATAAAAGTGTTCATATTTTTTTCACTG
781 TAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTTTTTA-AAAAGTGTACATACTTTTTTCACTG
*
128635 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATACG
845 TGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATACG
128700 CGCTTAATGATTTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATAT
910 CGCTTAATGATTTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATAT
128765 ATT
975 ATT
*
128768 ACATA-TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
*
128832 ATCAAAACAATCAAATAATTTTTTGTGTATATGAAATTATTAAATTAATATTGTAAGTAGAAAAC
66 ATCAAAACAATCAAATAATTTTTT-TGTATATGAAATTATTAAATTAATATTATAAGTAGAAAAC
* * *
128897 ATGAAATACTATTAGAAAAAATTGAAATATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
130 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
128962 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
195 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATA
129027 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
260 TAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTT
129092 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
325 TTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
129157 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
390 GTTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATA
129222 TTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATT
455 TTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATT
129287 GTTAAACTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAT
520 GTTAAACTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAT
*
129352 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAGAAAAAATTGAAACAT
585 ATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAGAAAAAATTGAAACAT
*
129417 AAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
650 AAATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
129482 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTA
715 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTA
* *
129547 ATAGGTAGCGCTTATATTGTAAAGTATTTGTGCTTTTTTAAAAAGTGTACATACTTTTTTCACTG
780 ATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTTTTTAAAAAGTGTACATACTTTTTTCACTG
129612 TGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATACG
845 TGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATACG
129677 TTGTCGCAAC
Statistics
Matches: 887, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
976 82 0.09
977 799 0.90
978 6 0.01
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (977 bp):
ACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
ATCAAAACAATCAAATAATTTTTTTGTATATGAAATTATTAAATTAATATTATAAGTAGAAAACA
TGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTT
TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATAT
AATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTT
TTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAG
TTTTAAGATATCAATTTAGTAATTATACGCGCTTAATGATTTATTTTTTATGTTACGGTATATAT
TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTG
TTAAACTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTATA
TGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAGAAAAAATTGAAACATA
AATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAA
TAGGTAGCGCTTATATTGTAAAGTATCTGTCCTTTTTTAAAAAGTGTACATACTTTTTTCACTGT
GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATACGC
GCTTAATGATTTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATA
TT
Found at i:129473 original size:22 final size:22
Alignment explanation
Indices: 129429--129473 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
129419 ATTACATAAC
*
129429 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
129451 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
129473 T
1 T
129474 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:129522 original size:23 final size:23
Alignment explanation
Indices: 129491--129563 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
129481 ATAGGTAAAA
*
129491 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
129514 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
129537 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
129560 ATAT
1 ATAT
129564 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:132016 original size:105 final size:103
Alignment explanation
Indices: 131827--132171 Score: 489
Period size: 105 Copynumber: 3.3 Consensus size: 103
131817 GCATTGTTCA
** * *
131827 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCT-GAAT-GAAATT-TTGTTGACAAGCA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGATTGGAAGTTGTTGTTGACAAGCA
*
131889 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
131927 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GATT-GGAAGTTGTTGTTGACAAG
131992 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
132032 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GATTG-GAAGTTGTTGTTGACAAG
*
132097 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
132137 GAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTCCGTCGTGAAGTTGAAAT
132172 CGCGGATGGC
Statistics
Matches: 221, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
100 35 0.16
102 3 0.01
104 6 0.03
105 152 0.69
106 3 0.01
108 22 0.10
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (103 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGATTGGAAGTTGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:132906 original size:67 final size:66
Alignment explanation
Indices: 132775--132932 Score: 201
Period size: 68 Copynumber: 2.4 Consensus size: 66
132765 AAGATATATG
* * * **
132775 TTGTTTCATGAGAAACGGTCTCAAAGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
132840 TT
65 TT
* * * *
132842 TATGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATT-TGTTTTAGGGGAAATAAATTCAAAGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA
132906 TT
65 TT
*
132908 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
132933 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 24 0.30
68 30 0.38
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:132945 original size:65 final size:67
Alignment explanation
Indices: 132776--133229 Score: 250
Period size: 65 Copynumber: 6.7 Consensus size: 67
132766 AGATATATGT
* * * **
132776 TGTTTCATGAGAAACGGTCTCAA-AGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGAT
132840 TTTA
64 TTTA
* * * *
132844 TGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTT
132908 T-
66 TA
* * * * ** *
132909 TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGATAAAT-TATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAAT-TC-A-A-AG
**
132973 ACAAAACTTA
62 ----ATTTTA
* * * * * * * * * *
132983 -GTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTT
133046 T-
66 TA
* * * * *
133047 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACT--GTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAA-TAAAT-TC-A-A-A
*
133110 GACAAAATTT-
61 G----ATTTTA
* * * * * *** *
133120 TGATTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATG--TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTT
133183 TA
66 TA
133185 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAATCTTGTTTTAAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-TTGTTTTAAG
133230 AAAAACAATC
Statistics
Matches: 305, Mismatches: 54, Indels: 57
0.73 0.13 0.14
Matches are distributed among these distances:
64 10 0.03
65 122 0.40
66 6 0.02
67 25 0.08
68 32 0.10
70 2 0.01
71 2 0.01
72 5 0.02
73 97 0.32
74 4 0.01
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTT
TA
Found at i:132966 original size:36 final size:36
Alignment explanation
Indices: 132907--133169 Score: 220
Period size: 36 Copynumber: 7.4 Consensus size: 36
132897 ATTCAAAGAT
* *
132907 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * *
132943 TTTGTTTCAAGATAAATTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * *
132979 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * *
133016 TTTGTTTCAA-AGAAAACATAT-TC---A-A-A--TAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACGAAA
* *
133045 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* *
133081 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * *
133117 TTTTGATTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* *
133154 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
133170 TGTTTTCAAT
Statistics
Matches: 182, Mismatches: 32, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 2 0.01
36 93 0.51
37 62 0.34
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
Found at i:133020 original size:138 final size:137
Alignment explanation
Indices: 132847--133235 Score: 458
Period size: 138 Copynumber: 2.8 Consensus size: 137
132837 GATTTTATGT
* * * * * *
132847 TTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGT
1 TTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGT
* * *
132912 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGATAAATTATCTCAAGAGAGACAA
66 TTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAA
132977 AACTTAG-
130 AACTTAGA
* * * * *
132984 TTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTG
1 TT-CAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTG
* *
133049 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACA
65 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACA
* *
133114 AAATTTTGA
129 AAACTTAGA
** * * * * * *
133123 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATG
1 TTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TG
* * *
133187 TTTCAAGAGAAACTGTCTCAAGAGAGACAAATCTTGTTTTAAGAAAAAC
65 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAT-TTGTTTCAAGAGAAAC
133236 AATCATGAGT
Statistics
Matches: 212, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
137 9 0.04
138 201 0.95
139 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (137 bp):
TTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGT
TTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
ACTTAGA
Found at i:133127 original size:102 final size:102
Alignment explanation
Indices: 132943--133127 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 102
132933 ATAGACGAAA
* * *
132943 TTTGTTTCAAGATAAATTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
* *
133008 AGACGAAATTTGTTTCAAAGAAAACATATTCAAATAT
66 AGACAAAATTTGATTCAAAGAAAACATATTCAAATAT
* * * * *
133045 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGAGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
133109 AGACAAAATTTTGATTCAA
66 AGACAAAA-TTTGATTCAA
133128 GGGAAACTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 28 0.39
102 44 0.61
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
AGACAAAATTTGATTCAAAGAAAACATATTCAAATAT
Found at i:134142 original size:22 final size:22
Alignment explanation
Indices: 134117--134160 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
134107 CATTTTTGTT
134117 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
134139 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
134161 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:134791 original size:11 final size:11
Alignment explanation
Indices: 134770--134814 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
134760 CCTTTTTCTT
134770 TTTTCTTTTTG-
1 TTTT-TTTTTGC
134781 TTCTTTTTTTGC
1 TT-TTTTTTTGC
134793 TTTTTTTTTGC
1 TTTTTTTTTGC
134804 TTTTTTTTTGC
1 TTTTTTTTTGC
134815 CCTTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 28 0.88
12 4 0.12
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTGC
Found at i:134810 original size:9 final size:8
Alignment explanation
Indices: 134762--134799 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
134752 TTTTTGTCCC
134762 TTTTTC-T
1 TTTTTCTT
134769 TTTTTCTT
1 TTTTTCTT
134777 TTTGTTCTT
1 TTT-TTCTT
134786 TTTTTGCTT
1 TTTTT-CTT
134795 TTTTT
1 TTTTT
134800 TTGCTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 6 0.21
9 16 0.57
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:134820 original size:11 final size:11
Alignment explanation
Indices: 134775--134821 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
134765 TTCTTTTTTC
*
134775 TTTTTGTTCTT
1 TTTTTGCTCTT
*
134786 TTTTTGCTTTT
1 TTTTTGCTCTT
*
134797 TTTTTGCTTTT
1 TTTTTGCTCTT
*
134808 TTTTTGCCCTT
1 TTTTTGCTCTT
134819 TTT
1 TTT
134822 ATTCTGATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.79
Consensus pattern (11 bp):
TTTTTGCTCTT
Found at i:136026 original size:17 final size:17
Alignment explanation
Indices: 135988--136035 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
135978 ATTGTAGATG
* *
135988 AAAATGCA-AAAAGGCA
1 AAAATGCATGAAATGCA
136004 AAAATGCATGAAATGCA
1 AAAATGCATGAAATGCA
*
136021 AGAATGCATGAAATG
1 AAAATGCATGAAATG
136036 TTCGAGGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.54, C:0.10, G:0.21, T:0.15
Consensus pattern (17 bp):
AAAATGCATGAAATGCA
Found at i:137423 original size:5 final size:5
Alignment explanation
Indices: 137413--137440 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
137403 GCAAGTGATG
137413 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
137441 GATGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:139148 original size:18 final size:17
Alignment explanation
Indices: 139127--139169 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
139117 ATATATACAT
139127 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
139145 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
139162 ATAA-AATA
1 ATAATAATA
139170 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:139981 original size:23 final size:23
Alignment explanation
Indices: 139950--140022 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
139940 ATAGGTAAAA
*
139950 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
139973 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
139996 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
140019 ATAT
1 ATAT
140023 TATAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:139986 original size:43 final size:44
Alignment explanation
Indices: 139938--140022 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
139928 ACTTTCAATA
*
139938 TAATAGGTAA-AAATATGATGTAATAGGTAGCGCTTATATAATG
1 TAATAGGTAACAAATATAATGTAATAGGTAGCGCTTATATAATG
**
139981 TAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATAT
1 TAATAGGTAAC--AAATATAATGTAATAGGTAGCGCTTATAT
140023 TATAAAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 10 0.28
46 26 0.72
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (44 bp):
TAATAGGTAACAAATATAATGTAATAGGTAGCGCTTATATAATG
Found at i:140496 original size:135 final size:135
Alignment explanation
Indices: 140350--140611 Score: 506
Period size: 135 Copynumber: 1.9 Consensus size: 135
140340 ACACTATTAG
140350 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
1 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
* *
140415 GACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
66 AACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
140480 CTATT
131 CTATT
140485 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
1 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
140550 AACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAG
66 AACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAG
140612 ATAACGTTTA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 125 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (135 bp):
AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
AACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
CTATT
Found at i:140557 original size:22 final size:22
Alignment explanation
Indices: 140513--140557 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
140503 ATTACATAAC
*
140513 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
140535 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
140557 T
1 T
140558 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:140605 original size:23 final size:23
Alignment explanation
Indices: 140575--140645 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
140565 ATAGGTAAAA
140575 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
140598 ATATAATGTAATAGATAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
140621 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
140644 AT
1 AT
140646 TTAACCGCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:140994 original size:32 final size:34
Alignment explanation
Indices: 140957--141022 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
140947 TACAAAAATA
*
140957 TCTAATA-TATTTTCGTTTTTA-TTAAT-TTAATG
1 TCTAATATTATTTT-GTTTTAATTTAATATTAATG
140989 TCTAATATTTATTTTGTTTTAATTTAATATTAAT
1 TCTAATA-TTATTTTGTTTTAATTTAATATTAAT
141023 ATTTTATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.24
33 6 0.21
34 11 0.38
35 5 0.17
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (34 bp):
TCTAATATTATTTTGTTTTAATTTAATATTAATG
Found at i:141190 original size:15 final size:14
Alignment explanation
Indices: 141144--141190 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
141134 AAAATAAGAG
141144 ATTAATTAAAATGAA
1 ATTAA-TAAAATGAA
*
141159 A-AAATAAAATGAA
1 ATTAATAAAATGAA
*
141172 ATTAATAAGAATGAC
1 ATTAATAA-AATGAA
141187 ATTA
1 ATTA
141191 TTTAGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 10 0.37
14 7 0.26
15 10 0.37
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (14 bp):
ATTAATAAAATGAA
Found at i:146734 original size:84 final size:84
Alignment explanation
Indices: 146591--146748 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 84
146581 GGAGGAGGAG
*
146591 GGCCAAGGGACTTAAACCAAACGGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACGTAAG
1 GGCCAAGGGACTTAAACCAAACGGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
*
146656 GGACAAGGAGAAGAAGACA
66 GGAAAAGGAGAAGAAGACA
** * * * *
146675 GGCCAAGGGACTTAAACCGGACGGTCCGATAACATAAGGGACAAGGAGCAGACCGATAACATAAG
1 GGCCAAGGGACTTAAACCAAACGGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
146740 GGAAAAGGA
66 GGAAAAGGA
146749 ACAGACCGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.44, C:0.20, G:0.29, T:0.08
Consensus pattern (84 bp):
GGCCAAGGGACTTAAACCAAACGGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
GGAAAAGGAGAAGAAGACA
Found at i:146738 original size:27 final size:27
Alignment explanation
Indices: 146703--146857 Score: 166
Period size: 27 Copynumber: 5.7 Consensus size: 27
146693 GGACGGTCCG
* *
146703 ATAACATAAGGGACAAGGAGCAGACCG
1 ATAACATAAGGGACAAGGAACAGACCA
* *
146730 ATAACATAAGGGAAAAGGAACAGACCG
1 ATAACATAAGGGACAAGGAACAGACCA
* *
146757 ATAACTTAAGGGACAAGGAACGGACCA
1 ATAACATAAGGGACAAGGAACAGACCA
* **
146784 ATAACATAAGGGGGCAAGGAATGGACCA
1 ATAACATAA-GGGACAAGGAACAGACCA
* * * *
146812 ATAAAATAGGGGATAAGGAACGGACCA
1 ATAACATAAGGGACAAGGAACAGACCA
* *
146839 ACAACAAAAGGGACAAGGA
1 ATAACATAAGGGACAAGGA
146858 GAAGAAGAAG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.08
Consensus pattern (27 bp):
ATAACATAAGGGACAAGGAACAGACCA
Found at i:146831 original size:82 final size:81
Alignment explanation
Indices: 146703--146857 Score: 184
Period size: 82 Copynumber: 1.9 Consensus size: 81
146693 GGACGGTCCG
* * * * * **
146703 ATAACATAAGGGACAAGGAGCAGACCGATAACATAAGGGAAAAGGAACAGACCGATAACTTAAGG
1 ATAACATAAGGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAGG
146768 GACAAGGAACGGACCA
66 GACAAGGAACGGACCA
* ** * * *
146784 ATAACATAAGGGGGCAAGGAATGGACCAATAAAATAGGGGATAAGGAACGGACCAACAACAAAAG
1 ATAACATAA-GGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAG
146849 GGACAAGGA
65 GGACAAGGA
146858 GAAGAAGAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
81 9 0.15
82 51 0.85
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.08
Consensus pattern (81 bp):
ATAACATAAGGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAGG
GACAAGGAACGGACCA
Found at i:151493 original size:16 final size:14
Alignment explanation
Indices: 151464--151506 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
151454 TAAAATTTCT
151464 TAATATTATTTTAA
1 TAATATTATTTTAA
*
151478 TAATATTATTTT-T
1 TAATATTATTTTAA
*
151491 TAATATTATATTAA
1 TAATATTATTTTAA
151505 TA
1 TA
151507 TAATTCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATATTATTTTAA
Found at i:154130 original size:25 final size:25
Alignment explanation
Indices: 154096--154148 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
154086 TTTTAACGTC
154096 TAATAATTG-ATTGACCAAAAAAAT
1 TAATAATTGAATTGACCAAAAAAAT
* **
154120 TAATATATTGAATTTAGTAAAAAAAT
1 TAATA-ATTGAATTGACCAAAAAAAT
154146 TAA
1 TAA
154149 AGCAACAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 4 0.17
26 15 0.62
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.34
Consensus pattern (25 bp):
TAATAATTGAATTGACCAAAAAAAT
Found at i:154686 original size:12 final size:13
Alignment explanation
Indices: 154656--154695 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
154646 CTCGTGCTAC
154656 ATATATATACTTTT
1 ATATATATA-TTTT
154670 ATATATATATTTT
1 ATATATATATTTT
154683 -TATAATATATTTT
1 ATAT-ATATATTTT
154696 CATTTAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 13 0.52
14 9 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATATATTTT
Found at i:156750 original size:13 final size:14
Alignment explanation
Indices: 156721--156751 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
156711 AAACATGCAA
156721 GTGATATGAACTAT
1 GTGATATGAACTAT
156735 GTGATATGAA-TAT
1 GTGATATGAACTAT
156748 GTGA
1 GTGA
156752 AATATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:158082 original size:24 final size:24
Alignment explanation
Indices: 158055--158135 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
158045 ATTGGGATGT
158055 TTGTGTAGTTGAAGGAAATTGTAG
1 TTGTGTAGTTGAAGGAAATTGTAG
* *
158079 TTGT-TA-TGTGCAATTTGATATTTAGATAG
1 TTGTGTAGT-TG-AA--GGA-AATT-G-TAG
*
158108 TGGTGTAGTTGAAGGAAATTGTAG
1 TTGTGTAGTTGAAGGAAATTGTAG
158132 TTGT
1 TTGT
158136 TGTAATGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
22 1 0.02
23 4 0.10
24 12 0.29
25 1 0.02
26 5 0.12
27 5 0.12
28 1 0.02
29 8 0.19
30 4 0.10
31 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (24 bp):
TTGTGTAGTTGAAGGAAATTGTAG
Found at i:161435 original size:3 final size:3
Alignment explanation
Indices: 161427--161451 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
161417 TGATGGAGTT
161427 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
161452 GATAAGGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Done.