Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002620.1 Hibiscus syriacus cultivar Beakdansim tig00005328_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: 94799
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:10204 original size:41 final size:41
Alignment explanation
Indices: 10159--10278 Score: 116
Period size: 41 Copynumber: 2.9 Consensus size: 41
10149 CAGTTTCCAG
* *
10159 ATTCGCAACGCGA-ACTTCGACTATCGCATTGTGATTTACAT
1 ATTCGCAACGCGATACTCCAACT-TCGCATTGTGATTTACAT
** * * *
10200 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGTGATTTACAT
1 ATTCGCAACGCGATACTCCAACTTCGCATTGTGATTTACAT
** * * *
10241 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGTGATTTA
1 ATTCGCAACGCGATACTCCAACTTCGCATTGTGATTTA
10279 TTCCAAGTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 66 0.93
42 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (41 bp):
ATTCGCAACGCGATACTCCAACTTCGCATTGTGATTTACAT
Found at i:10207 original size:20 final size:20
Alignment explanation
Indices: 10182--10250 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
10172 ACTTCGACTA
10182 TCGCATTGTGATTTACATAT
1 TCGCATTGTGATTTACATAT
* * *
10202 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGTGAT-TTACATA-T
*
10223 TCGCGTTGTGATTTACATAT
1 TCGCATTGTGATTTACATAT
10243 TCGCATTG
1 TCGCATTG
10251 CGATAGTCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TCGCATTGTGATTTACATAT
Found at i:10307 original size:42 final size:41
Alignment explanation
Indices: 10207--10333 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 41
10197 CATATTCGCA
10207 TTGCGATAGTCCAAGTTCGCGTTGTGATTTA---CATATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCA-ATTCG
10246 CATTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCAAGTTCG
1 --TTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCAA-TTCG
* *
10290 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCC-AATTCG
10332 TT
1 TT
10334 CGCAACGACG
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
41 31 0.39
42 39 0.49
43 3 0.04
44 6 0.08
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCCAAGTTCGCGTTGTGATTTATTCCAATTCG
Found at i:10312 original size:21 final size:21
Alignment explanation
Indices: 10201--10317 Score: 107
Period size: 21 Copynumber: 5.6 Consensus size: 21
10191 GATTTACATA
*
10201 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
10222 TTCGCGTTGTGAT-TTACATA-
1 TTCGCGTTGCGATAGTCCA-AG
*
10242 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10263 TTCGCGTTGTGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
10286 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
10305 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
10318 TTATTCCAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
19 9 0.12
20 15 0.20
21 41 0.55
23 10 0.13
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:10333 original size:21 final size:21
Alignment explanation
Indices: 10257--10333 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
10247 ATTGCGATAG
*
10257 TCCAAGTTCGCGTTGTGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
*
10280 TCCAAGTTCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATTTAT
*
10299 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
*
10322 TCCAAATTCGTT
1 TCCAAGTTCGTT
10334 CGCAACGACG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 9 0.20
21 19 0.43
23 16 0.36
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (21 bp):
TCCAAGTTCGTTGCGATTTAT
Found at i:10406 original size:6 final size:6
Alignment explanation
Indices: 10395--10428 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
10385 TATTCGCGCG
10395 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
10429 CGAGACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:10439 original size:5 final size:5
Alignment explanation
Indices: 10429--10464 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
10419 GACCACGACC
10429 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
10465 GCGGCGGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.36, C:0.22, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:11085 original size:21 final size:19
Alignment explanation
Indices: 11069--11105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11059 AATCGCAACG
11069 CGAACTTCGACTATCGCAA
1 CGAACTTCGACTATCGCAA
* *
11088 CGAATTTGGACTATCGCA
1 CGAACTTCGACTATCGCA
11106 TTGCGATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (19 bp):
CGAACTTCGACTATCGCAA
Found at i:11127 original size:21 final size:21
Alignment explanation
Indices: 11101--11319 Score: 209
Period size: 21 Copynumber: 10.5 Consensus size: 21
11091 ATTTGGACTA
11101 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* **
11122 TCGCATTGCGAT-TTACGTA-T
1 TCGCATTGCGATAGT-CCAAGT
*
11142 TCGCATTGCGATAGTCGATTA-T
1 TCGCATTGCGATAGTCCA--AGT
*
11164 T-GCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
11184 TCGCATTACGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
**
11205 TCGCATTGCGATAGTTTAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
11226 TTGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
11246 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
11267 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
11288 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
11309 TCGCGTTGCGA
1 TCGCATTGCGA
11320 ATCTGGAAAC
Statistics
Matches: 166, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
19 1 0.01
20 34 0.20
21 127 0.77
22 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:11309 original size:83 final size:84
Alignment explanation
Indices: 11101--11319 Score: 286
Period size: 83 Copynumber: 2.6 Consensus size: 84
11091 ATTTGGACTA
* * *
11101 TCGCATTGCGATAGTCCAAGTTCGCATTGCGAT-TTACGTA-TTCGCATTGCGATAGTCGATTAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGAAGTTCGCATTGCGATAGTCGACTAT
*
11164 TGCATTGCGATAGTCGAAGT
65 CGCATTGCGATAGTCGAAGT
* ** *
11184 TCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTTTAAGTTTGCATTGCGATAGTCGACTATC
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTATC
*
11249 GCATTGCGAT-TTAC-ATA-T
66 GCATTGCGATAGT-CGA-AGT
*
11267 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGA
11320 ATCTGGAAAC
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
83 84 0.71
84 34 0.29
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (84 bp):
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTATC
GCATTGCGATAGTCGAAGT
Found at i:11744 original size:21 final size:22
Alignment explanation
Indices: 11720--11761 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11710 AAACATGAGA
11720 TTCA-TCAACTTTTTAAATAAC
1 TTCATTCAACTTTTTAAATAAC
* *
11741 TTCATTTAATTTTTTAAATAA
1 TTCATTCAACTTTTTAAATAA
11762 AAATCTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (22 bp):
TTCATTCAACTTTTTAAATAAC
Found at i:17883 original size:17 final size:17
Alignment explanation
Indices: 17861--17908 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
17851 TCCACTTGAT
17861 GGATTCCTATATATATA
1 GGATTCCTATATATATA
17878 GGATTCCTATATATATA
1 GGATTCCTATATATATA
* *
17895 -GATACATATATATA
1 GGATTCCTATATATA
17909 CACATATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (17 bp):
GGATTCCTATATATATA
Found at i:18446 original size:23 final size:24
Alignment explanation
Indices: 18413--18473 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
18403 ATAGGAATAA
*
18413 TTATGTATTTGTGATACA-TTTAT
1 TTATGTCTTTGTGATACAGTTTAT
18436 TTATGTCTTTGTG-T-CATGTTTAT
1 TTATGTCTTTGTGATACA-GTTTAT
*
18459 CTATGTCTTT-TGATA
1 TTATGTCTTTGTGATA
18474 GTTTCTGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 3 0.09
23 27 0.84
ACGTcount: A:0.20, C:0.08, G:0.15, T:0.57
Consensus pattern (24 bp):
TTATGTCTTTGTGATACAGTTTAT
Found at i:19788 original size:23 final size:24
Alignment explanation
Indices: 19758--19820 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
19748 AATAAAAATC
19758 TTTGTTCTTGTGACACAC-TTTTA
1 TTTGTTCTTGTGACACACTTTTTA
* *
19781 TTTGTTCTTGTGGCACGCTTTTTA
1 TTTGTTCTTGTGACACACTTTTTA
*
19805 TCTGCTT-TTGTGACAC
1 TTTG-TTCTTGTGACAC
19821 GTTCCTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.47
24 16 0.47
25 2 0.06
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (24 bp):
TTTGTTCTTGTGACACACTTTTTA
Found at i:20849 original size:22 final size:22
Alignment explanation
Indices: 20821--20880 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
20811 CCGTAAGCTA
*
20821 TCAAAAGCTAGAGAAAAACGTG
1 TCAAAAGATAGAGAAAAACGTG
*
20843 TCAAAAGATAGAGATAAACGTG
1 TCAAAAGATAGAGAAAAACGTG
* *
20865 CCATAAAGGTAGAGAA
1 TCA-AAAGATAGAGAA
20881 TATGTCACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (22 bp):
TCAAAAGATAGAGAAAAACGTG
Found at i:21094 original size:2 final size:2
Alignment explanation
Indices: 21087--21130 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
21077 TAAATATTTA
*
21087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21129 AT
1 AT
21131 TTTAAGTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25996 original size:2 final size:2
Alignment explanation
Indices: 25989--26014 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25979 CAACAGATCA
25989 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
26015 GGCGAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26329 original size:21 final size:21
Alignment explanation
Indices: 26285--26329 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
26275 TAAATTCACA
* *
26285 TTTAGTACCTAGACTATTAGT
1 TTTAGTACCTAAACTATTAAT
* *
26306 TTTAGTACTTAAACTTTTAAT
1 TTTAGTACCTAAACTATTAAT
26327 TTT
1 TTT
26330 TTTTTAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTAGTACCTAAACTATTAAT
Found at i:29999 original size:42 final size:41
Alignment explanation
Indices: 29949--30178 Score: 203
Period size: 42 Copynumber: 5.5 Consensus size: 41
29939 TGGATTTTAT
*
29949 TTTTTATCTTTATAATTGAAGTACATAATTTTTTAATCTCAC
1 TTTTTATCTTTATAATTGAAGT-CCTAATTTTTTAATCTCAC
* * * *
29991 TTTTTATCTTTATAATTGATGCCCTTAATTTTTTAATCCCAT
1 TTTTTATCTTTATAATTGAAGTCC-TAATTTTTTAATCTCAC
* * ** * *
30033 TTTTTTTACATTTATAATTGATGATTTTAAATTTTTCAATCACAC
1 TTTTTAT-C-TTTATAATTGAAG-TCCT-AATTTTTTAATCTCAC
* * * * *
30078 TTTGTACCTGTATAATTGAACTCCTATTTTTTTCAA--TCAC
1 TTTTTATCTTTATAATTGAAGTCCTAATTTTTT-AATCTCAC
* * *
30118 TTTTTACCTTTATAACTGAGACTCCTAATTTTTTAATCTCAC
1 TTTTTATCTTTATAATTGA-AGTCCTAATTTTTTAATCTCAC
30160 TTTTTATCTTTATAATTGA
1 TTTTTATCTTTATAATTGA
30179 GGGTCTAATT
Statistics
Matches: 150, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
40 21 0.14
41 20 0.13
42 66 0.44
43 11 0.07
44 15 0.10
45 17 0.11
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTTATCTTTATAATTGAAGTCCTAATTTTTTAATCTCAC
Found at i:30119 original size:40 final size:41
Alignment explanation
Indices: 29949--30315 Score: 160
Period size: 42 Copynumber: 8.8 Consensus size: 41
29939 TGGATTTTAT
* * *
29949 TTTTTATCTTTATAATTGA-AGTACATAATTTTTT-AATCTCAC
1 TTTTTACCTTTATAATTGAGACT-CCTAATTTTTTCAA--TCAC
* *
29991 TTTTTATCTTTATAATTGATG-C-CCTTAATTTTTT-AATCCCATTT
1 TTTTTACCTTTATAATTGA-GACTCC-TAATTTTTTCAAT--CA--C
* ** *
30035 TTTTTACATTTATAATTGATGA-TTTTAAATTTTTCAATCACAC
1 TTTTTACCTTTATAATTGA-GACTCCTAATTTTTTCAAT--CAC
* * *
30078 TTTGTACCTGTATAATTGA-ACTCCTATTTTTTTCAATCAC
1 TTTTTACCTTTATAATTGAGACTCCTAATTTTTTCAATCAC
*
30118 TTTTTACCTTTATAACTGAGACTCCTAATTTTTT-AATCTCAC
1 TTTTTACCTTTATAATTGAGACTCCTAATTTTTTCAA--TCAC
* ** * *
30160 TTTTTATCTTTATAATTGAGGGT-CTAATTTTGTCCAATCCAT
1 TTTTTACCTTTATAATTGAGACTCCTAATTTT-TTCAAT-CAC
* *
30202 TTTTTA-CTTATATAATTTAGGC-CCTTAATTTTTTTTCAATCTAAC
1 TTTTTACCTT-TATAATTGAGACTCC-TAA--TTTTTTCAATC--AC
* * * *
30247 ATTTTACATTTAAAATTGAGGGC-CCTAA----TTC--TCAC
1 TTTTTACCTTTATAATTGA-GACTCCTAATTTTTTCAATCAC
*
30282 TTTTTACCTTTATAAGTGAG-CTCCCTAATTTTTT
1 TTTTTACCTTTATAATTGAGACT-CCTAATTTTTT
30316 TAAAGAAAAA
Statistics
Matches: 254, Mismatches: 39, Indels: 67
0.71 0.11 0.19
Matches are distributed among these distances:
33 1 0.00
34 1 0.00
35 22 0.09
37 2 0.01
39 5 0.02
40 22 0.09
41 27 0.11
42 87 0.34
43 22 0.09
44 32 0.13
45 26 0.10
46 7 0.03
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (41 bp):
TTTTTACCTTTATAATTGAGACTCCTAATTTTTTCAATCAC
Found at i:30509 original size:20 final size:21
Alignment explanation
Indices: 30473--30517 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
30463 AAATCGCATT
30473 GCGATTTTCCAAATTCGCAAC
1 GCGATTTTCCAAATTCGCAAC
*
30494 GCGATTTTCC-AATTCGTAAC
1 GCGATTTTCCAAATTCGCAAC
30514 GCGA
1 GCGA
30518 ATCTGTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (21 bp):
GCGATTTTCCAAATTCGCAAC
Found at i:30533 original size:40 final size:40
Alignment explanation
Indices: 30487--30581 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
30477 TTTTCCAAAT
* * * *
30487 TCGCAACGCGATTTTCCAATTCGTAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAA
**
30527 TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAA
30567 TCGCAACGCGAATCT
1 TCGCAACGCGAATCT
30582 GTAATTCGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
TCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAA
Found at i:30534 original size:20 final size:20
Alignment explanation
Indices: 30511--30593 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
30501 TCCAATTCGT
30511 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
30531 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
30551 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
*
30571 AACGCGAATCTGTAATTCGC
1 AACGCGAATCTGTAAATCGC
30591 AAC
1 AAC
30594 ACAGAAGTCA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AACGCGAATCTGTAAATCGC
Found at i:30611 original size:40 final size:38
Alignment explanation
Indices: 30523--30612 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 38
30513 CGCGAATCTG
*
30523 TAAATCGCAACGCGAATCTGTAAATCGCAACGCGAATC
1 TAAATCGCAACGCGAATCTGTAAATCGCAACACGAATC
*
30561 TGTAAATCGCAACGCGAATCTGTAATTCGCAACACAGAAGTC
1 --TAAATCGCAACGCGAATCTGTAAATCGCAACAC-GAA-TC
30603 -AAATTCGCAA
1 TAAA-TCGCAA
30613 AGCGCGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
39 3 0.07
40 37 0.82
41 3 0.07
42 2 0.04
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (38 bp):
TAAATCGCAACGCGAATCTGTAAATCGCAACACGAATC
Found at i:30611 original size:60 final size:58
Alignment explanation
Indices: 30482--30612 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 58
30472 TGCGATTTTC
* * * * *
30482 CAAATTCGCAACGCGATTTTCCAATTCGTAACGCGAATCTGTAAATCGCAACGCGAAT
1 CAAATTCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAATCGCAACACGAAT
** *
30540 CTGTAAA-TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTGTAATTCGCAACACAGAAGT
1 C---AAATTCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAATCGCAACAC-GAA-T
30602 CAAATTCGCAA
1 CAAATTCGCAA
30613 AGCGCGTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
58 1 0.02
59 3 0.05
60 47 0.80
61 6 0.10
62 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (58 bp):
CAAATTCGCAACGCGAATCTCCAAATCGCAACGCGAATCTGTAAATCGCAACACGAAT
Found at i:30810 original size:22 final size:22
Alignment explanation
Indices: 30771--30812 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30761 GATGACATCC
*
30771 GTCCCCATCTCTGACGAAATTT
1 GTCCCCATCTCAGACGAAATTT
30793 GTCCCCATCTCCAG-CGAAAT
1 GTCCCCATCT-CAGACGAAAT
30813 CCGTCTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.26
Consensus pattern (22 bp):
GTCCCCATCTCAGACGAAATTT
Found at i:34101 original size:2 final size:2
Alignment explanation
Indices: 34094--34119 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34084 ACATATGTTC
34094 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
34120 CACATAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36267 original size:21 final size:21
Alignment explanation
Indices: 36226--36275 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36216 TGGTGCATGG
*
36226 CGTGATGAGGTACGGTCTTTA
1 CGTGATGAGGTAAGGTCTTTA
*
36247 CGTGGTGAGGTAGAGGT-TTTA
1 CGTGATGAGGTA-AGGTCTTTA
*
36268 CGCGATGA
1 CGTGATGA
36276 CAATGGTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAAGGTCTTTA
Found at i:36670 original size:42 final size:42
Alignment explanation
Indices: 36618--36736 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
36608 GAAGCACCTG
* * * *
36618 TCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCTCTA
1 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCTCTA
*
36660 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC-CATG
1 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCTC-TA
** * *
36702 TCATAGTTCAAGAGGTCCCTCCCACCGTTCGAGAG
1 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAG
36737 CCTGATTCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (42 bp):
TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCTCTA
Found at i:36698 original size:21 final size:21
Alignment explanation
Indices: 36622--36736 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 21
36612 CACCTGTCAT
* * *
36622 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
* **
36643 CGTTCAAGAGGCCTCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
36665 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
36685 CGTTCAAGAGGCCCATGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
36706 AGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
36727 CGTTCGAGAG
1 CGTTCAAGAG
36737 CCTGATTCAC
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 2 0.03
21 70 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:38187 original size:64 final size:64
Alignment explanation
Indices: 38086--38231 Score: 204
Period size: 64 Copynumber: 2.3 Consensus size: 64
38076 AATTGATGAT
* *
38086 TTTTGTAAAAGTTGATTTGTTTAATTAATGAGGAAATAAGAATTATTTTTTTCTTGTTTAATTGA
1 TTTTGTAAAAGTTGATTTATTTAATTAATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATT-A
* * * ***
38151 -TTTGTAAAAGTTGATTTATTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTA
1 TTTTGTAAAAGTTGATTTATTTAATTAATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTA
38214 TTTTGTAAAAGTTGATTT
1 TTTTGTAAAAGTTGATTT
38232 GTTGTTTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
63 1 0.01
64 71 0.99
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (64 bp):
TTTTGTAAAAGTTGATTTATTTAATTAATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTA
Found at i:38364 original size:20 final size:20
Alignment explanation
Indices: 38303--38364 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
38293 TTCGCAACGC
* * *
38303 GAAAGTTAAATTCACGTTGC
1 GAAAGTCAAATTCGCGTTGT
* ***
38323 GATAGTCAAATTCGCAACGT
1 GAAAGTCAAATTCGCGTTGT
38343 GAAAGTCAAATTCGCGTTGT
1 GAAAGTCAAATTCGCGTTGT
38363 GA
1 GA
38365 TTTTCACGTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (20 bp):
GAAAGTCAAATTCGCGTTGT
Found at i:38599 original size:18 final size:18
Alignment explanation
Indices: 38576--38611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38566 AAGTCGGTTG
*
38576 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
38594 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
38612 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:38841 original size:16 final size:17
Alignment explanation
Indices: 38820--38851 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38810 AAATCATTGA
38820 AAAATTATAT-AGAAAT
1 AAAATTATATAAGAAAT
38836 AAAATTATATAAGAAA
1 AAAATTATATAAGAAA
38852 AATGCCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATTATATAAGAAAT
Found at i:41774 original size:24 final size:24
Alignment explanation
Indices: 41735--41812 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
41725 CTGAAACATC
* *
41735 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
*
41759 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
41783 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
41807 ATCAAA
1 ATCAAA
41813 TTTCGAATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (24 bp):
ATCAAAGTCCGGGTATTGACCAAG
Found at i:41826 original size:24 final size:24
Alignment explanation
Indices: 41735--41826 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
41725 CTGAAACATC
* * *
41735 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* ** *
41759 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
41783 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
41807 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
41827 TAGTACTCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:42763 original size:40 final size:41
Alignment explanation
Indices: 42707--42868 Score: 161
Period size: 40 Copynumber: 4.0 Consensus size: 41
42697 ATGAGTTTGT
* * *
42707 GTTGCGAAATTAAAATTC-GTGTTGCGAATTCGAAAATCGG
1 GTTGCGAATTTGAAATTCAGTGTTGCGAATTCGAAAATCGC
* *
42747 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGAAATTCAGTGTTGCGAATTCGAAAATCGC
* * * * * *
42788 GTTGTGAATTT-AACTTCTGTGTTGCGATTTAC-AGATTCGC
1 GTTGCGAATTTGAAATTCAGTGTTGCGAATT-CGAAAATCGC
* *
42828 GTTGCGAATTTGAAAATC-GTGTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTTGAAATTCAGTGTTGCGAA-TTCGAAAATCGC
42869 AACGCGAATT
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
40 56 0.58
41 41 0.42
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (41 bp):
GTTGCGAATTTGAAATTCAGTGTTGCGAATTCGAAAATCGC
Found at i:42859 original size:20 final size:20
Alignment explanation
Indices: 42705--42867 Score: 145
Period size: 20 Copynumber: 8.1 Consensus size: 20
42695 TTATGAGTTT
*
42705 GTGTTGCGAAATT-AAAATTC
1 GTGTTGCGAATTTGAAAA-TC
*
42725 GTGTTGCGAATTCGAAAATC
1 GTGTTGCGAATTTGAAAATC
* *
42745 GGGTTGCGAATTTGAAATTC
1 GTGTTGCGAATTTGAAAATC
*
42765 AGTGTTGCGAATTTGGAAATC
1 -GTGTTGCGAATTTGAAAATC
* * **
42786 GCGTTGTGAATTT-AACTTC
1 GTGTTGCGAATTTGAAAATC
*
42805 TGTGTTGCG-ATTT-ACAGATTC
1 -GTGTTGCGAATTTGA-A-AATC
*
42826 GCGTTGCGAATTTGAAAATC
1 GTGTTGCGAATTTGAAAATC
42846 GTGTTGCGAATTTGGAAAATC
1 GTGTTGCGAATTT-GAAAATC
42867 G
1 G
42868 CAACGCGAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.07
20 70 0.60
21 37 0.32
22 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (20 bp):
GTGTTGCGAATTTGAAAATC
Found at i:42875 original size:21 final size:21
Alignment explanation
Indices: 42851--42896 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
42841 AAATCGTGTT
**
42851 GCGAATTTGGAAAATCGCAAC
1 GCGAATTCAGAAAATCGCAAC
* *
42872 GCGAATTCATAAAATCGCAAT
1 GCGAATTCAGAAAATCGCAAC
42893 GCGA
1 GCGA
42897 TTTACATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
GCGAATTCAGAAAATCGCAAC
Found at i:42968 original size:19 final size:19
Alignment explanation
Indices: 42931--42980 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
42921 GGAAACTGAG
* *
42931 TTGCGAAATTGGAGTTCGCA
1 TTGCG-AATTTGAGATCGCA
*
42951 TTGCGAATTTGAGATCGCG
1 TTGCGAATTTGAGATCGCA
*
42970 TTGTGAATTTG
1 TTGCGAATTTG
42981 TTGGTCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (19 bp):
TTGCGAATTTGAGATCGCA
Found at i:43525 original size:24 final size:24
Alignment explanation
Indices: 43498--43550 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
43488 ATCTCATATT
43498 GTTTATATACGAAGTTTTTAAAGC
1 GTTTATATACGAAGTTTTTAAAGC
* * *
43522 GTTTATGTATGAATTTTTTAAAGC
1 GTTTATATACGAAGTTTTTAAAGC
43546 GTTTA
1 GTTTA
43551 AATATAGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (24 bp):
GTTTATATACGAAGTTTTTAAAGC
Found at i:50697 original size:21 final size:20
Alignment explanation
Indices: 50671--50788 Score: 103
Period size: 20 Copynumber: 5.8 Consensus size: 20
50661 ATCAGTTTCC
50671 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
50692 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
50711 ACAAATTCGCATTGCGATTTTCC
1 A-AAA-TCGCAACGCGATTTT-G
* *
50734 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
* *
50754 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
50774 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
50789 ACACATAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.01
20 39 0.48
21 38 0.46
22 3 0.04
23 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:50817 original size:20 final size:20
Alignment explanation
Indices: 50735--50948 Score: 225
Period size: 20 Copynumber: 10.7 Consensus size: 20
50725 CGATTTTCCA
* ** *
50735 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* ** *
50755 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
50775 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
50795 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50815 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
50835 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
50855 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50875 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
50895 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
50915 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
50936 AAATCGCAACGCG
1 AAATCGCAACGCG
50949 ATATTTAAAG
Statistics
Matches: 166, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 146 0.88
21 17 0.10
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:50819 original size:60 final size:60
Alignment explanation
Indices: 50735--50949 Score: 250
Period size: 60 Copynumber: 3.6 Consensus size: 60
50725 CGATTTTCCA
* ** * ** * *
50735 AAATCGCAACGCGAATATGAAAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
* * * ***
50795 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
* * * **
50855 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
50915 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
50950 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 26, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
60 97 0.76
61 31 0.24
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
Found at i:51373 original size:33 final size:33
Alignment explanation
Indices: 51331--51401 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
51321 TTCACTTAGA
*
51331 TTTCATTTCGCGTTACGATTATGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
* *
51364 TTTCATTTCGCGTTGCTATTATCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
51397 TTTCA
1 TTTCA
51402 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
Found at i:51525 original size:20 final size:20
Alignment explanation
Indices: 51481--51590 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
51471 TGCAGAAGAG
*
51481 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
51502 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
51522 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
51543 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
51557 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
51576 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
51591 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:51538 original size:41 final size:38
Alignment explanation
Indices: 51474--51623 Score: 149
Period size: 33 Copynumber: 4.1 Consensus size: 38
51464 TTCAATTTGC
* *
51474 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
51512 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
51553 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
* **
51586 AG-A-A-TCGCAAC--GCGAAACCAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
51619 AGAAT
1 AGAAT
51624 CGCAACGCGA
Statistics
Matches: 102, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
33 54 0.53
34 1 0.01
35 7 0.07
38 5 0.05
39 1 0.01
40 1 0.01
41 33 0.32
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:51560 original size:14 final size:14
Alignment explanation
Indices: 51541--51630 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
51531 GAGAAATGAA
51541 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
51555 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
51574 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
51588 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-GAG
51607 AATCGCAACGAGAG
1 AATCGCAACGAGAG
51621 AATCGCAACG
1 AATCGCAACG
51631 CGAAACCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.08
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:51573 original size:33 final size:33
Alignment explanation
Indices: 51539--51646 Score: 198
Period size: 33 Copynumber: 3.3 Consensus size: 33
51529 GAGAGAAATG
**
51539 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
51572 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
51605 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
51638 AAAATCGCA
1 AAAATCGCA
51647 TTGCGATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:51645 original size:19 final size:19
Alignment explanation
Indices: 51588--51646 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
51578 GCAACGAGAG
51588 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
* *
51607 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAACCAA
51621 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
51640 AATCGCA
1 AATCGCA
51647 TTGCGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.46, C:0.29, G:0.19, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:51664 original size:19 final size:19
Alignment explanation
Indices: 51642--51842 Score: 163
Period size: 19 Copynumber: 11.6 Consensus size: 19
51632 GAAACCAAAA
*
51642 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51661 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
51675 TCTCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51694 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
51708 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51727 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
51743 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
51760 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
51776 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
51793 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
51812 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
51832 TCGTGTTGCGA
1 TCGCGTTGCGA
51843 AAGTAAACTA
Statistics
Matches: 145, Mismatches: 16, Indels: 41
0.72 0.08 0.20
Matches are distributed among these distances:
14 34 0.23
16 17 0.12
17 17 0.12
19 65 0.45
20 12 0.08
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:51693 original size:33 final size:33
Alignment explanation
Indices: 51647--51805 Score: 282
Period size: 33 Copynumber: 4.8 Consensus size: 33
51637 CAAAATCGCA
51647 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
51680 TTGTGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
51713 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
51746 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
51779 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
51806 TTGGTTTCGC
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 120 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:51716 original size:14 final size:14
Alignment explanation
Indices: 51664--51786 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
51654 TTTCATTTCG
51664 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
51678 CGTTGTGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
51697 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
51711 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
51730 CGTTGCGATTCTTT
1 CGTTGCGATTCTCT
*
51744 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
51761 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
51777 CGTTGCGATT
1 CGTTGCGATT
51787 TTCATTTCGC
Statistics
Matches: 86, Mismatches: 8, Indels: 30
0.69 0.06 0.24
Matches are distributed among these distances:
14 34 0.40
16 13 0.15
17 14 0.16
19 25 0.29
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:53784 original size:14 final size:14
Alignment explanation
Indices: 53765--53800 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
53755 ATTGTTTAAT
53765 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
53779 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
53793 TGATTTGT
1 TGATTTGT
53801 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:53923 original size:19 final size:19
Alignment explanation
Indices: 53907--54023 Score: 172
Period size: 19 Copynumber: 6.4 Consensus size: 19
53897 AAAAATGACT
53907 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
53926 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
53945 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
53964 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
53978 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
53997 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
54017 ATCGCAA
1 ATCGCAA
54024 CGAGAGAATC
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 56 0.64
20 16 0.18
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:53987 original size:33 final size:36
Alignment explanation
Indices: 53907--54023 Score: 150
Period size: 33 Copynumber: 3.2 Consensus size: 36
53897 AAAAATGACT
53907 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
* *
53945 ATCGTAATGCGAAATGAAAATCGCAA-CG-A-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
53978 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GC-G-AATGAAA
54017 ATCGCAA
1 ATCGCAA
54024 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
33 28 0.41
34 1 0.01
35 1 0.01
36 3 0.04
38 26 0.38
39 10 0.14
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:54055 original size:53 final size:53
Alignment explanation
Indices: 53925--54041 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
53915 GCGAAATGAA
*
53925 AATCGCAATGCGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
53977 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
54030 AATCGCAATGCG
1 AATCGCAATGCG
54042 TTTATAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
Found at i:54094 original size:19 final size:19
Alignment explanation
Indices: 54070--54201 Score: 167
Period size: 19 Copynumber: 7.4 Consensus size: 19
54060 GATTCTCTCG
54070 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
54089 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
54108 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
54127 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
54141 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
54161 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
54175 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
54194 TTGCGATT
1 TTGCGATT
54202 CTCTCGTTGC
Statistics
Matches: 98, Mismatches: 4, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
14 17 0.17
16 9 0.09
17 6 0.06
18 3 0.03
19 51 0.52
20 12 0.12
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:54223 original size:33 final size:33
Alignment explanation
Indices: 54048--54215 Score: 239
Period size: 33 Copynumber: 4.9 Consensus size: 33
54038 TGCGTTTATA
54048 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
54081 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
54119 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
54152 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
54186 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
54216 GTAATTTCCG
Statistics
Matches: 121, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
32 1 0.01
33 51 0.42
34 29 0.24
35 8 0.07
36 7 0.06
38 25 0.21
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:54223 original size:67 final size:70
Alignment explanation
Indices: 54048--54234 Score: 283
Period size: 67 Copynumber: 2.7 Consensus size: 70
54038 TGCGTTTATA
54048 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA-TTCG-ATTGC
54112 GATTTTC
64 GATTTTC
*
54119 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA-T-G-TTGGGA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTCGATTGCGA
54181 TTTTC
66 TTTTC
* * **
54186 ATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTGTTGCGAT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGAT
54235 AGTCAAATGC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 55 0.50
69 1 0.01
70 1 0.01
71 37 0.34
72 16 0.15
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (70 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTCGATTGCGA
TTTTC
Found at i:56510 original size:12 final size:12
Alignment explanation
Indices: 56493--56517 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56483 TCTTCGGGGA
56493 CTTTTTCTTCTT
1 CTTTTTCTTCTT
56505 CTTTTTCTTCTT
1 CTTTTTCTTCTT
56517 C
1 C
56518 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:56731 original size:24 final size:23
Alignment explanation
Indices: 56692--56737 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
56682 CTGAAACATC
56692 ATCAAATCCGTGTATTGACCAAT
1 ATCAAATCCGTGTATTGACCAAT
56715 ATCAAAGTCCG-GATATTGACCAA
1 ATCAAA-TCCGTG-TATTGACCAA
56738 GACCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (23 bp):
ATCAAATCCGTGTATTGACCAAT
Found at i:57447 original size:20 final size:20
Alignment explanation
Indices: 57419--57688 Score: 274
Period size: 20 Copynumber: 13.5 Consensus size: 20
57409 AAATTTCAGT
* * *
57419 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
57439 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
57459 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
57479 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
57499 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
57519 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
57539 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
57559 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
57579 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
57599 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
57619 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
57639 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
57659 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
57679 GTTGCGATTT
1 GTTGCGATTT
57689 TGGAAAATCG
Statistics
Matches: 219, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
19 3 0.01
20 211 0.96
21 5 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:57479 original size:40 final size:40
Alignment explanation
Indices: 57419--57688 Score: 307
Period size: 40 Copynumber: 6.8 Consensus size: 40
57409 AAATTTCAGT
* *
57419 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
57459 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
57499 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * *
57539 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
** * *
57577 GCATTGCGATTTACCCATACGCGTTGCGATTTACGGA-TACAC
1 G--TTGCGATTTACAGATTCGCGTTGCGATTTACGGATTA-TC
* * * **
57619 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
*
57659 GTTGCGATTTTA-ATATTCGCGTTGCGATTT
1 GTTGCGA-TTTACAGATTCGCGTTGCGATTT
57689 TGGAAAATCG
Statistics
Matches: 207, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 195 0.94
41 6 0.03
42 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:57689 original size:20 final size:20
Alignment explanation
Indices: 57655--57752 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
57645 ATTTATGTGT
*
57655 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
57675 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
57696 TCGCAATGCGAATTTGT-ATTA
1 TCGCGTTGCG-ATTT-TAATAA
* *
57717 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
57738 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
57753 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:57748 original size:42 final size:43
Alignment explanation
Indices: 57655--57753 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
57645 ATTTATGTGT
* *
57655 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
57696 TCGCAATGCGAATTTGTATTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
57738 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
57754 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:58397 original size:18 final size:18
Alignment explanation
Indices: 58374--58421 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
58364 ATATCTTTAA
58374 AAATATTTTTTATTTATT
1 AAATATTTTTTATTTATT
58392 AAATATTTTTTATTTATT
1 AAATATTTTTTATTTATT
58410 AAATATATTTTT
1 AAATAT-TTTTT
58422 CTTAACTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AAATATTTTTTATTTATT
Found at i:58431 original size:20 final size:18
Alignment explanation
Indices: 58374--58431 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
58364 ATATCTTTAA
*
58374 AAATATTTTTTATTTATT
1 AAATATTTTTTATTAATT
*
58392 AAATATTTTTTATTTATT
1 AAATATTTTTTATTAATT
*
58410 AAATATATTTTTCTTAACTT
1 AAATAT-TTTTTATTAA-TT
58430 AA
1 AA
58432 TTTAAGATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 24 0.67
19 8 0.22
20 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATATTTTTTATTAATT
Found at i:58522 original size:29 final size:28
Alignment explanation
Indices: 58459--58587 Score: 131
Period size: 28 Copynumber: 4.6 Consensus size: 28
58449 TTTTAAAAAT
58459 ATTTAAAA-ATATTTTATTCTTATCTTA
1 ATTTAAAATATATTTTATTCTTATCTTA
** * *
58486 GCTT-AAATTTATATTTATTCTTATTTTA
1 ATTTAAAATATAT-TTTATTCTTATCTTA
* *
58514 ATTTAAAATATATTTTATTTTTATTATTA
1 ATTTAAAATATATTTTATTCTTA-TCTTA
58543 ATTTTAAAAATATATTTTATT-TTATCTTA
1 A-TTT-AAAATATATTTTATTCTTATCTTA
*
58572 ATTTATAA-ATATTTTA
1 ATTTAAAATATATTTTA
58588 AAATGTAAAG
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
26 11 0.13
27 8 0.09
28 28 0.33
29 17 0.20
30 6 0.07
31 15 0.18
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (28 bp):
ATTTAAAATATATTTTATTCTTATCTTA
Found at i:58564 original size:18 final size:17
Alignment explanation
Indices: 58507--58566 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
58497 TATTTATTCT
*
58507 TATTTTAATTTAAAATA
1 TATTTTATTTTAAAATA
*
58524 TATTTTATTTT--TAT-
1 TATTTTATTTTAAAATA
*
58538 TA-TTAATTTTAAAAATA
1 TATTTTATTTT-AAAATA
58555 TATTTTATTTTA
1 TATTTTATTTTA
58567 TCTTAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
13 7 0.21
14 2 0.06
15 2 0.06
16 2 0.06
17 13 0.39
18 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTATTTTAAAATA
Found at i:58724 original size:30 final size:29
Alignment explanation
Indices: 58675--58834 Score: 104
Period size: 30 Copynumber: 5.6 Consensus size: 29
58665 ACATAAAGTT
58675 TAAAA-ATATTTTT-AAATTAAGATAAAAA
1 TAAAATATATTTTTAAAATTAA-ATAAAAA
*
58703 TAAAATATATTTTTAAAATTAAAAAAAAGAA
1 TAAAATATATTTTTAAAATT-AAATAAA-AA
* *
58734 TAAAATATATATTTTTAAATT-AA-AAAAT
1 TAAAATATAT-TTTTAAAATTAAATAAAAA
** * *
58762 TAAAA-A-A-AATT-AAGTTAAATTAATAA
1 TAAAATATATTTTTAAAATTAAA-TAAAAA
* * *
58788 TAAAATGTATTTAATAAGA-TAAGATAAAAA
1 TAAAATATATTT-TTAAAATTAA-ATAAAAA
58818 TAAAATATATTTTTAAA
1 TAAAATATATTTTTAAA
58835 GATATATAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
26 9 0.09
27 1 0.01
28 12 0.12
29 14 0.14
30 31 0.31
31 16 0.16
32 9 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (29 bp):
TAAAATATATTTTTAAAATTAAATAAAAA
Found at i:58739 original size:31 final size:29
Alignment explanation
Indices: 58675--58760 Score: 111
Period size: 32 Copynumber: 2.9 Consensus size: 29
58665 ACATAAAGTT
* *
58675 TAAAA-ATATTTTTAAATTAAGATAAAAA
1 TAAAATATATTTTTAAATTAAAAAAAAAA
58703 TAAAATATATTTTTAAAATTAAAAAAAAGAA
1 TAAAATATATTTTT-AAATTAAAAAAAA-AA
58734 TAAAATATATATTTTTAAATTAAAAAA
1 T-AAA-ATATATTTTTAAATTAAAAAA
58761 TTAAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.10
29 8 0.16
30 11 0.22
31 3 0.06
32 14 0.27
33 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
TAAAATATATTTTTAAATTAAAAAAAAAA
Found at i:67921 original size:15 final size:15
Alignment explanation
Indices: 67901--67936 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
67891 CGCCCCGCAT
*
67901 CCGCCCCGCATCCGC
1 CCGCCCCACATCCGC
67916 CCGCCCCACATCCGC
1 CCGCCCCACATCCGC
67931 CCGCCC
1 CCGCCC
67937 AGCTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.69, G:0.17, T:0.06
Consensus pattern (15 bp):
CCGCCCCACATCCGC
Found at i:67932 original size:11 final size:11
Alignment explanation
Indices: 67890--67917 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
67880 GAGACATTAC
67890 CCGCCCCGCAT
1 CCGCCCCGCAT
67901 CCGCCCCGCAT
1 CCGCCCCGCAT
67912 CCGCCC
1 CCGCCC
67918 GCCCCACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.68, G:0.18, T:0.07
Consensus pattern (11 bp):
CCGCCCCGCAT
Found at i:69714 original size:21 final size:20
Alignment explanation
Indices: 69686--69735 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
69676 ACTTATTGAA
*
69686 AATAAAGAAAATAAAAATAC
1 AATAAAGAAAAGAAAAATAC
*
69706 AATATAAGAAAAGAAAAATAT
1 AATA-AAGAAAAGAAAAATAC
69727 AATAAAGAA
1 AATAAAGAA
69736 TACAAACGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (20 bp):
AATAAAGAAAAGAAAAATAC
Found at i:74182 original size:2 final size:2
Alignment explanation
Indices: 74175--74218 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
74165 GAAAAGAAAG
74175 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
74217 AT
1 AT
74219 CATGGTGTCA
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:76867 original size:18 final size:18
Alignment explanation
Indices: 76846--76944 Score: 180
Period size: 18 Copynumber: 5.5 Consensus size: 18
76836 TTTGTCCTGT
76846 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
76864 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
76882 AGGACCACTGTGTCCCGA
1 AGGACCACTATGTCCCGA
76900 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
76918 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
76936 AAGACCACT
1 AGGACCACT
76945 GATAATCCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 78 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.16
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:78633 original size:20 final size:20
Alignment explanation
Indices: 78608--78661 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
78598 GACCAACAAA
78608 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
78628 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
78648 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
78662 GCGAATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:78714 original size:20 final size:20
Alignment explanation
Indices: 78691--78742 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
78681 TGCGATTTTC
*
78691 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
78711 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
78731 CAAATTCGCAAC
1 CAAATTCGCAAC
78743 TGGATTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:78756 original size:19 final size:19
Alignment explanation
Indices: 78730--78780 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
78720 AACGCGAAAG
*
78730 TCAAATTCGCAACTGGATT
1 TCAAATTCGCAACTGAATT
*
78749 TGAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
78768 TCAAATTCTCAAC
1 TCAAATTCGCAAC
78781 ACAAATGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:81979 original size:18 final size:18
Alignment explanation
Indices: 81956--81991 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
81946 AAGCAAAAGG
*
81956 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
81974 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
81992 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:83925 original size:21 final size:21
Alignment explanation
Indices: 83901--83956 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
83891 GGCTTCTTCG
83901 ATGATGATATAG-GCCTCTTGA
1 ATGATGATA-AGTGCCTCTTGA
* *
83922 ATGAT-AGGAGGTGCCTCTTGA
1 ATGATGA-TAAGTGCCTCTTGA
*
83943 ATGATGATAGGTGC
1 ATGATGATAAGTGC
83957 ATCGGGCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (21 bp):
ATGATGATAAGTGCCTCTTGA
Found at i:84791 original size:30 final size:30
Alignment explanation
Indices: 84755--84818 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
84745 GAAGGACCTG
* *
84755 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
84785 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
84815 TCCA
1 TCCA
84819 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:85582 original size:64 final size:64
Alignment explanation
Indices: 85494--85763 Score: 236
Period size: 64 Copynumber: 4.2 Consensus size: 64
85484 CAATGAAGGT
* * *
85494 ATGCATCGATGCACTA-CTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TCCTTATTAATGA
1 ATGCATCGATGCACTACCTTATGCATCGATGCAT-AAATGCATTCGATGTTATCATT-TTAATGA
85557 G
64 G
** * * *
85558 ATGCATCGATGCA-TACCTTATGCATCGATGCACTACTTGCATT-TATGTTCT-ATTATTAATGG
1 ATGCATCGATGCACTACCTTATGCATCGATGCA-TAAATGCATTCGATGTTATCATT-TTAATGA
85620 G
64 G
* * * *
85621 ATGCATCGATGCACT-CCTTATGCATCGATGCATTGATTGCATTCGATGTTATTATTTTAA-AAG
1 ATGCATCGATGCACTACCTTATGCATCGATGCA-TAAATGCATTCGATGTTATCATTTTAATGA-
85684 G
64 G
* * * * *
85685 ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTC-TTTTAAAG-
1 ATGCATCGATGCACTACCTTATGCATCGATGCAT-AAATGCATTCGATGTT-ATCATTTTAATGA
85747 G
64 G
85748 AATGCATCGATGCACT
1 -ATGCATCGATGCACT
85764 TATGAATGTG
Statistics
Matches: 171, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
63 57 0.33
64 108 0.63
65 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTTATGCATCGATGCATAAATGCATTCGATGTTATCATTTTAATGAG
Found at i:85727 original size:127 final size:128
Alignment explanation
Indices: 85489--85763 Score: 301
Period size: 127 Copynumber: 2.2 Consensus size: 128
85479 TCTTTCAATG
* * * *
85489 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTCCTTATTAA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATTATTAA
* *** *
85554 TGAGATGCATCGATGCATACCTTATGCATCGATGCACTACTTGCATT-TATGTTCTAT-TATTA
66 AGAGATGCATCGATGCATACCTTATGCATCGATGCACTAAAGGCATTCGATGTTCT-TCTATTA
* * * ** * *
85616 ATGGGATGCATCGATGCACTCCTTATGCATCGATGCATTGATTGCATTCGATGTTATTATT-TTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTT-TCATTATTA
* *
85680 AA-AGGATGCATCGATGCATTAGC-TATGCATCGATGCA-TCAAAGGCATTCGATGTTCTTCTTT
65 AAGA-GATGCATCGATGCA-TACCTTATGCATCGATGCACT-AAAGGCATTCGATGTTCTTCTAT
85742 TA
127 TA
85744 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
85764 TATGAATGTG
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
126 2 0.02
127 86 0.70
128 35 0.28
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (128 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATTATTAA
AGAGATGCATCGATGCATACCTTATGCATCGATGCACTAAAGGCATTCGATGTTCTTCTATTA
Found at i:89767 original size:64 final size:64
Alignment explanation
Indices: 89683--89948 Score: 201
Period size: 64 Copynumber: 4.2 Consensus size: 64
89673 TGAAGGTATG
* * *
89683 ATCGATGCACTA-CTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TCCTTATTAATGAGATG
1 ATCGATGCACTACCTTATGCATCGATGCAT-AAATGCATTCGATGTTATCATT-TTAATGAGATG
89746 C
64 C
** ** * *
89747 ATCGATGCA-TACCTTATGCATCGATGCACTACTTGCATTTTATGTTCT-ATTATTAATGGGATG
1 ATCGATGCACTACCTTATGCATCGATGCA-TAAATGCATTCGATGTTATCATT-TTAATGAGATG
89810 C
64 C
* * * * *
89811 ATCGATGCACT-CCTTATGCATCGATACATTGATTGCATTCG-TGTTATTATTTTAA-AAGGATG
1 ATCGATGCACTACCTTATGCATCGATGCA-TAAATGCATTCGATGTTATCATTTTAATGA-GATG
89873 C
64 C
* * * * * *
89874 ATCGATGCATTAGC-TATGTATCGATGCATCAAAGGCATTCGATGTTCTTC-TTTTAAAG-GAAT
1 ATCGATGCACTACCTTATGCATCGATGCAT-AAATGCATTCGATGTT-ATCATTTTAATGAG-AT
89936 GC
63 GC
89938 ATCGATGCACT
1 ATCGATGCACT
89949 TATGAATGTG
Statistics
Matches: 162, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 47 0.29
64 110 0.68
65 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (64 bp):
ATCGATGCACTACCTTATGCATCGATGCATAAATGCATTCGATGTTATCATTTTAATGAGATGC
Found at i:91053 original size:13 final size:13
Alignment explanation
Indices: 91035--91061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91025 CGTAAAGTAC
91035 CGACCTCATGACG
1 CGACCTCATGACG
91048 CGACCTCATGACG
1 CGACCTCATGACG
91061 C
1 C
91062 AAAGCACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15
Consensus pattern (13 bp):
CGACCTCATGACG
Found at i:92855 original size:13 final size:13
Alignment explanation
Indices: 92837--92862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92827 GGGTTTCTTC
92837 AACAAAAAGACAA
1 AACAAAAAGACAA
92850 AACAAAAAGACAA
1 AACAAAAAGACAA
92863 CAAAGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:93104 original size:22 final size:22
Alignment explanation
Indices: 93079--93125 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
93069 GGAGATAGAC
*
93079 GATTTCGTCAGAAATGGGGATG
1 GATTTCGTCAGAAATGGGGACG
* *
93101 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCAGAAATGGGGACG
93123 GAT
1 GAT
93126 GTCACCGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (22 bp):
GATTTCGTCAGAAATGGGGACG
Found at i:93278 original size:20 final size:20
Alignment explanation
Indices: 93253--93336 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
93243 GCGTAAAAAC
* *
93253 ATTTGACTTTCGCGTTGTGA
1 ATTTGACTATCGCGTTGCGA
93273 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
93293 ATTTGACTTTCGCGTTGAG-
1 ATTTGACTATCGCGTTGCGA
93312 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
93332 ATTTG
1 ATTTG
93337 GAAAATCGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.30
20 40 0.70
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:93327 original size:39 final size:40
Alignment explanation
Indices: 93253--93336 Score: 152
Period size: 39 Copynumber: 2.1 Consensus size: 40
93243 GCGTAAAAAC
*
93253 ATTTGACTTTCGCGTTGTGAATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGAGAATTTGACTATCGCGTTGCGA
93293 ATTTGACTTTCGCGTTGAG-ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGAGAATTTGACTATCGCGTTGCGA
93332 ATTTG
1 ATTTG
93337 GAAAATCGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 25 0.58
40 18 0.42
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (40 bp):
ATTTGACTTTCGCGTTGAGAATTTGACTATCGCGTTGCGA
Found at i:94644 original size:2 final size:2
Alignment explanation
Indices: 94637--94669 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94627 GATCTGACTT
94637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94670 CTTATGCGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.