Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007434.1 Hibiscus syriacus cultivar Beakdansim tig00020254_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: 135889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:554 original size:54 final size:54
Alignment explanation
Indices: 404--773 Score: 507
Period size: 54 Copynumber: 6.9 Consensus size: 54
394 TTATTAGTAC
* *
404 TATCGACACTATGTGTGCAGCCCACAGAATTCATAATGAGTTTGTGAA-TATCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
* *
457 TATCGGCACTA--TGTACAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
*
509 TATCGACACTATGTGTGCAACCCAC-GAAATTCATAATGAGTTTGTGAATTACTG
1 TATCGACACTATGTGTGCAACCCACAG-AATTCATAATGAGTTTGTGAATTACCG
** * * *
563 TATCGACACTACATGTGCAACCCACAAAATTCATATTGAGTTTGTGAATTATCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
* * * *
617 TATTGGCACTATGTGTGCAACCCACAGAATTGATAATGAGTTTGTGAATTACCA
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
* *
671 TATCGACACTATGTTTGCAACCCACATAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
** ** *
725 TATCGACACTATGTGTGC-AGTCATGGAATTCATAATGAGTTTTTGAATT
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATT
774 TTCATATCGC
Statistics
Matches: 277, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
51 33 0.12
52 14 0.05
53 36 0.13
54 194 0.70
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
Found at i:4223 original size:21 final size:21
Alignment explanation
Indices: 4197--4241 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4187 TTGACCATTC
4197 ATCTAGGTGGAAATAAGATGT
1 ATCTAGGTGGAAATAAGATGT
4218 ATCTAGGTGGAAATAAGATGT
1 ATCTAGGTGGAAATAAGATGT
4239 ATC
1 ATC
4242 AGGATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.29
Consensus pattern (21 bp):
ATCTAGGTGGAAATAAGATGT
Found at i:7090 original size:54 final size:54
Alignment explanation
Indices: 7006--7392 Score: 523
Period size: 54 Copynumber: 7.2 Consensus size: 54
6996 CTATGTGTAC
* ** *
7006 TATCGACACTATGTGTGTAACCCATTGAATTCAAAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
7060 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
*
7114 TATC-AGCACTATGTGTGCAACCCACAAAATTCATAATGAGTTTGTGAATTACCG
1 TATCGA-CACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
*
7168 TATCAGA-ACTATGTGTGCAACCCAC-GAAATTCATAATGAGTTTATGAATTACCG
1 TATC-GACACTATGTGTGCAACCCACAG-AATTCATAATGAGTTTGTGAATTACCG
** *
7222 TATCGACACTATGTGTAAAACCCAC-GAAATTCATAATGAGTTTGTAAATTACCG
1 TATCGACACTATGTGTGCAACCCACAG-AATTCATAATGAGTTTGTGAATTACCG
* * * * *
7276 TATCAACATTATGTGTGCAATCCACATAA-TCATAATGAGTTTATGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
* ** * * *
7329 TATCGGCACTATGTGTGCAACCCATGGAATTCGTAATGAGTTTGTGAATTTCCA
1 TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
7383 TATCGACACT
1 TATCGACACT
7393 TAGGTGCAAT
Statistics
Matches: 295, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
53 47 0.16
54 247 0.84
56 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
Found at i:8051 original size:4 final size:5
Alignment explanation
Indices: 8020--8151 Score: 66
Period size: 5 Copynumber: 26.2 Consensus size: 5
8010 ATGTGTGTTA
*
8020 TATAT TATA- TAGTAT ATATATT TATAT T-TAT TATAT TATTAT TATAG
1 TATAT TATAT TA-TAT -TATA-T TATAT TATAT TATAT TA-TAT TATAT
* * *
8067 CATA- TAT-T TATTAT TATA- GA-AT GTATAT TATA- TACTAT TAT-G
1 TATAT TATAT TA-TAT TATAT TATAT -TATAT TATAT TA-TAT TATAT
*
8109 TATAT TATAG TATTAT TATAT TATAT TATTAT TA-AGT TATAT T
1 TATAT TATAT TA-TAT TATAT TATAT TA-TAT TATA-T TATAT T
8152 TACTAATATG
Statistics
Matches: 99, Mismatches: 9, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
3 1 0.01
4 17 0.17
5 50 0.51
6 28 0.28
7 3 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:8053 original size:9 final size:8
Alignment explanation
Indices: 8017--8142 Score: 68
Period size: 8 Copynumber: 15.4 Consensus size: 8
8007 GAAATGTGTG
8017 TTATA-TA
1 TTATATTA
8024 TTATA-TA
1 TTATATTA
*
8031 GTATATATA
1 TTATAT-TA
8040 TTTATATTTA
1 -TTATA-TTA
8050 TTATATTA
1 TTATATTA
8058 TTAT-TATA
1 TTATAT-TA
**
8066 GCATA-TA
1 TTATATTA
8073 TT-TATTA
1 TTATATTA
**
8080 TTATAGAA
1 TTATATTA
8088 TGTATATTA
1 T-TATATTA
8097 TATACTATTA
1 T-TA-TATTA
8107 TGTATATTA
1 T-TATATTA
8116 -TAGTATTA
1 TTA-TATTA
8124 TTATATTA
1 TTATATTA
8132 -TATTATTA
1 TTA-TATTA
8140 TTA
1 TTA
8143 AGTTATATTT
Statistics
Matches: 93, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
6 2 0.02
7 22 0.24
8 30 0.32
9 24 0.26
10 14 0.15
11 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (8 bp):
TTATATTA
Found at i:8111 original size:19 final size:19
Alignment explanation
Indices: 8087--8134 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
8077 TTATTATAGA
8087 ATGTATATTATATACTATT
1 ATGTATATTATATACTATT
*
8106 ATGTATA-T-TATAGTATT
1 ATGTATATTATATACTATT
8123 AT-TATATTATAT
1 ATGTATATTATAT
8135 TATTATTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 4 0.15
19 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
ATGTATATTATATACTATT
Found at i:8877 original size:21 final size:22
Alignment explanation
Indices: 8851--8891 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8841 GAGAATAGAT
8851 ATAAAC-TTTAAAAAAGGGTAG
1 ATAAACTTTTAAAAAAGGGTAG
8872 ATAAACTTTTAAAAAAGGGT
1 ATAAACTTTTAAAAAAGGGT
8892 TTTGGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (22 bp):
ATAAACTTTTAAAAAAGGGTAG
Found at i:11583 original size:19 final size:19
Alignment explanation
Indices: 11559--11607 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
11549 ATTAGATTCA
*
11559 ATTTTTTGTGATAAATTTT
1 ATTTTTAGTGATAAATTTT
*
11578 ATTTTTAGTTATAAATTTT
1 ATTTTTAGTGATAAATTTT
* *
11597 AATTATAGTGA
1 ATTTTTAGTGA
11608 CAAAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTTTAGTGATAAATTTT
Found at i:13319 original size:19 final size:19
Alignment explanation
Indices: 13295--13338 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13285 GAGAAAGTTA
*
13295 CTGTTTTAGCTTGTTTCCT
1 CTGTTTTAGCTTGTTTCAT
*
13314 CTGTTTTAGTTTGTTTCAT
1 CTGTTTTAGCTTGTTTCAT
13333 CTGTTT
1 CTGTTT
13339 CATACATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.16, T:0.61
Consensus pattern (19 bp):
CTGTTTTAGCTTGTTTCAT
Found at i:15535 original size:201 final size:191
Alignment explanation
Indices: 15180--15538 Score: 422
Period size: 201 Copynumber: 1.8 Consensus size: 191
15170 ATTATTTATG
* *
15180 GTGATGTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
* *
15245 GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATTTGTGACAATATAAATTATA
66 GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATCTGTGACAATATAAATCATA
* *
15310 AGTAATGAAAAATTATTCAATTTAGTGATGTAACTAACAGTCATAGAATATAAATTATAAA
131 AGTAAAGAAAAATTAATCAATTTAGTGATGTAACTAACAGTCATAGAATATAAATTATAAA
* * * *
15371 GTGACGTTATGCATAAACGTCATTCATAATATTATTCGGTAA-TATTTATATTATGTCATTAAAA
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGA--TATATTATGTCACTAAAA
* **
15435 ATGTGACAATATCTCTTTCTTCATAGTTCACATAT-AGCTTGATTTTAATGTATTATCTGTGATG
64 ATGTGAC--TATCTC---ATT--T-G-TCACATATAAG-TTGATTTTAATGTATTATCTGTGACA
*
15499 ATATAAATCATCAA-TAACAG-AAATTTACAT-AATTTAGTGA
119 ATATAAATCAT-AAGTAA-AGAAAAATTA-ATCAATTTAGTGA
15539 CAAAATTAGT
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
190 1 0.01
191 38 0.27
192 24 0.17
194 6 0.04
197 2 0.01
199 1 0.01
200 3 0.02
201 60 0.43
202 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (191 bp):
GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATCTGTGACAATATAAATCATA
AGTAAAGAAAAATTAATCAATTTAGTGATGTAACTAACAGTCATAGAATATAAATTATAAA
Found at i:15569 original size:201 final size:191
Alignment explanation
Indices: 15180--15581 Score: 420
Period size: 201 Copynumber: 2.1 Consensus size: 191
15170 ATTATTTATG
* *
15180 GTGATGTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
* *
15245 GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATTTGTGACAATATAAATTATA
66 GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATCTGTGACAATATAAATCATA
* * ***
15310 AGTAATGAAAAATTATTCAATTTAGTGATGTAACTAACAGTCATAGAATATAAATTATAAA
131 AGTAAAGAAAAATTAATCAATTTAGTGACAAAACTAACAGTCATAGAATATAAATTATAAA
* * * *
15371 GTGACGTTATGCATAAACGTCATTCATAATATTATTCGGTAA-TATTTATATTATGTCATTAAAA
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGA--TATATTATGTCACTAAAA
* **
15435 ATGTGACAATATCTCTTTCTTCATAGTTCACATAT-AGCTTGATTTTAATGTATTATCTGTGATG
64 ATGTGAC--TATCTC---ATT--T-G-TCACATATAAG-TTGATTTTAATGTATTATCTGTGACA
* * * *
15499 ATATAAATCATCAA-TAACAG-AAATTTACAT-AATTTAGTGACAAAATTAGTC-GTCATTGAAT
119 ATATAAATCAT-AAGTAA-AGAAAAATTA-ATCAATTTAGTGACAAAACTA-ACAGTCATAGAAT
* *
15560 ATCAATTATATA
180 ATAAATTATAAA
15572 GTGACGTTAT
1 GTGACGTTAT
15582 ATATAAATGT
Statistics
Matches: 173, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
190 1 0.01
191 38 0.22
192 24 0.14
194 6 0.03
197 2 0.01
199 1 0.01
200 3 0.02
201 93 0.54
202 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.39
Consensus pattern (191 bp):
GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
GTGACTATCTCATTTGTCACATATAAGTTGATTTTAATGTATTATCTGTGACAATATAAATCATA
AGTAAAGAAAAATTAATCAATTTAGTGACAAAACTAACAGTCATAGAATATAAATTATAAA
Found at i:26384 original size:20 final size:21
Alignment explanation
Indices: 26346--26384 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26336 CATCAAGGTC
*
26346 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
26367 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
26385 TCCTAGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:30131 original size:23 final size:23
Alignment explanation
Indices: 30101--30146 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30091 AATCATATCA
30101 TTGCAAGGTTGTCTGTATTGAAT
1 TTGCAAGGTTGTCTGTATTGAAT
30124 TTGCAAGGTTGTCTGTATTGAAT
1 TTGCAAGGTTGTCTGTATTGAAT
30147 CAAATGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
TTGCAAGGTTGTCTGTATTGAAT
Found at i:38642 original size:27 final size:29
Alignment explanation
Indices: 38611--38668 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
38601 TTTAGTAACT
* *
38611 TTTTAATTTTTG-A-TTTAGTTACTATTA
1 TTTTAATTGTTGCATTTTAGTCACTATTA
*
38638 TTTTAATTGTTGCATTTTAGTCACTGTTA
1 TTTTAATTGTTGCATTTTAGTCACTATTA
38667 TT
1 TT
38669 AGATTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 1 0.04
29 14 0.54
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.60
Consensus pattern (29 bp):
TTTTAATTGTTGCATTTTAGTCACTATTA
Found at i:38730 original size:15 final size:15
Alignment explanation
Indices: 38699--38742 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38689 CTTGTACTTA
*
38699 TTTTATTTTTATTTGT
1 TTTTATTGTT-TTTGT
38715 TATTTA-TGTTTTTGT
1 T-TTTATTGTTTTTGT
38730 TTTTATTGTTTTT
1 TTTTATTGTTTTT
38743 TATTATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.16
15 13 0.52
16 4 0.16
17 4 0.16
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (15 bp):
TTTTATTGTTTTTGT
Found at i:38733 original size:25 final size:24
Alignment explanation
Indices: 38699--38745 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
38689 CTTGTACTTA
38699 TTTTATTTTTATTTGTTATTTATGT
1 TTTTATTTTTA-TTGTTATTTATGT
* *
38724 TTTTGTTTTTATTGTTTTTTAT
1 TTTTATTTTTATTGTTATTTAT
38746 TATTACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTATTTTTATTGTTATTTATGT
Found at i:41931 original size:183 final size:183
Alignment explanation
Indices: 41614--42150 Score: 977
Period size: 183 Copynumber: 2.9 Consensus size: 183
41604 ATTAAATCCG
*
41614 TAAAGTTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
41679 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCTACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
41744 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
41797 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
**
41862 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTAATT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
41927 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
41980 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
42045 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
42109 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
42151 TAAACCTGAT
Statistics
Matches: 341, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 1 0.00
183 340 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:43381 original size:72 final size:75
Alignment explanation
Indices: 43290--43464 Score: 200
Period size: 72 Copynumber: 2.4 Consensus size: 75
43280 ATGCAGATGA
* * * *
43290 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCCCACTTGAGACTGTTTT-TCTA
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCCCACTTGAGACCGTTTTCACTA
43352 GAAAGAA-G-AT
64 GAAAGAAGGCAT
* * *
43362 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCCCACTTGAGACCGTTTTCACTAGA
43427 AAGAAGGCAT
66 AAGAAGGCAT
**
43437 TTCATTTCACTCAAGGCTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
43465 GAAAATTTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
71 1 0.01
72 49 0.56
73 10 0.11
74 1 0.01
75 8 0.09
76 19 0.22
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCCCACTTGAGACCGTTTTCACTAGA
AAGAAGGCAT
Found at i:43419 original size:36 final size:36
Alignment explanation
Indices: 43306--43419 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
43296 CACTCAAATT
* *
43306 TGTTTTTCTTAAAACATA-CTTTGTCCCACTTGAGAC
1 TGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGAC
* * * ** *
43342 TGTTTTTC-TAGAAAGAAGATTTATTTCACTCAAGAT
1 TGTTTTTCTTA-AAACAAGATTTGTCTCACTTGAGAC
*
43378 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
*
43414 CGTTTT
1 TGTTTT
43420 CACTCGAAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
35 3 0.05
36 54 0.92
37 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (36 bp):
TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
Found at i:43541 original size:39 final size:39
Alignment explanation
Indices: 43466--43542 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
43456 TTTTTTTAAG
** * *
43466 AAAATTTTATCTTGCTTGAGATAGTTTCCCTCGAAACAA
1 AAAATTTTATCTCCCTTGAGACAATTTCCCTCGAAACAA
* * *
43505 AAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA
1 AAAATTTTATCTCCCTTGAGACAATTTCCCTCGAAACA
43543 TAAACATTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (39 bp):
AAAATTTTATCTCCCTTGAGACAATTTCCCTCGAAACAA
Found at i:43601 original size:106 final size:103
Alignment explanation
Indices: 43468--43764 Score: 454
Period size: 106 Copynumber: 2.9 Consensus size: 103
43458 TTTTTAAGAA
* *
43468 AATTTTATCTTGCTTGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAATTTC
1 AATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC-AAAAATTTTGTCTCCCTTGAGACAGTTTC
43533 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
65 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* * *
43572 ATTTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTT
1 A--ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACA-AAAATTTTGTCTCCCTTGAGACAGTT
43637 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
63 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* *
43678 AATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC--GAATTTTGTCTCCCTTGAGACAGTTTCT
1 AATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAATTTTGTCTCCCTTGAGACAGTTTCT
** *
43741 CTCCAAACATAAACTTTGAAAACA
66 CTTGAAACATAAACATTGAAAACA
43765 ATTTAACGAA
Statistics
Matches: 177, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
101 48 0.27
104 31 0.18
105 1 0.01
106 97 0.55
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (103 bp):
AATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAATTTTGTCTCCCTTGAGACAGTTTCT
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:43711 original size:36 final size:36
Alignment explanation
Indices: 43664--43739 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
43654 ATTGAAAACA
* * *
43664 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
43700 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
43736 TTTC
1 TTTC
43740 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:44041 original size:105 final size:104
Alignment explanation
Indices: 43859--44306 Score: 643
Period size: 105 Copynumber: 4.3 Consensus size: 104
43849 TCGAGAATAG
* * *
43859 ATTTCAACTTCACAACGAATGATATTGGACTTCAGACAACGCAAGTTCAACTTCATAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
43924 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
43964 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
44029 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
* * * * *
44069 ATTTGAACTTCACAACGAATGATATTGGACTCCAGATAACGCAAGTTCAACTCCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
* *
44134 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
44169 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
* * * **
44234 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
44275 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
44307 GGAACAATGC
Statistics
Matches: 311, Mismatches: 26, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
100 79 0.25
101 4 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 182 0.59
106 36 0.12
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:44248 original size:205 final size:211
Alignment explanation
Indices: 43859--44306 Score: 658
Period size: 205 Copynumber: 2.2 Consensus size: 211
43849 TCGAGAATAG
* * *
43859 ATTTCAACTTCACAACGAATGATATTGGACTTCAGACAACGCAAGTTCAACTTCATAACGAAGGG
1 ATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTCCACAACGAAGGG
43924 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* *
43989 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTT
131 TGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTT
44053 CCCAA-TCTCAGAGCCA
196 CCCAATTC-CAGAGCCA
* * *
44069 ATTTGAACTTCACAACGAATGATATTGGACTCCAGATAACGCAAGTTCAACTCCACGACGAAGGG
1 ATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTCCACAACGAAGGG
* * *
44134 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* * * *
44194 TGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT
131 TGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTT
**
44259 CCCGGTTCCAGAGCCA
196 CCCAATTCCAGAGCCA
* * *
44275 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAATGATATTGGACTC
44307 GGAACAATGC
Statistics
Matches: 215, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
205 83 0.39
206 48 0.22
207 3 0.01
208 2 0.01
209 2 0.01
210 77 0.36
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (211 bp):
ATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTCCACAACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTT
CCCAATTCCAGAGCCA
Found at i:44902 original size:37 final size:37
Alignment explanation
Indices: 44849--44953 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
44839 CATTTTCGTC
44849 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * *
44886 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
44923 CTACTAAGATTTAAATTCCTAAATATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
44954 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:45350 original size:18 final size:17
Alignment explanation
Indices: 45311--45353 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
45301 ATTATATGAA
45311 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
45327 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
45345 TATTATTAT
1 TATTATTAT
45354 ATGTATATAT
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:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:45858 original size:2 final size:2
Alignment explanation
Indices: 45851--45886 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
45841 TAATACTTTG
* *
45851 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45887 TTTTTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:48631 original size:21 final size:21
Alignment explanation
Indices: 48605--48644 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48595 TCTTCTTCAT
48605 CTTGCATGTGAGATGTCTCGG
1 CTTGCATGTGAGATGTCTCGG
48626 CTTGCATGTGAGATGTCTC
1 CTTGCATGTGAGATGTCTC
48645 TGCGTCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (21 bp):
CTTGCATGTGAGATGTCTCGG
Found at i:50390 original size:43 final size:43
Alignment explanation
Indices: 50343--50432 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
50333 ACGTCGAGCA
*
50343 ATCCAAGTTTGCATGGAAAATTTTTTAATGAAGACACCGAGAG
1 ATCCAAGTTTGCATGGAAAATTTTTTAATGAAAACACCGAGAG
* * ** *
50386 ATCCAAGTTTGTATGGAAATTTTTTTGTTGAAAACGCCGAGAG
1 ATCCAAGTTTGCATGGAAAATTTTTTAATGAAAACACCGAGAG
50429 ATCC
1 ATCC
50433 TTTGAACCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (43 bp):
ATCCAAGTTTGCATGGAAAATTTTTTAATGAAAACACCGAGAG
Found at i:50497 original size:32 final size:32
Alignment explanation
Indices: 50452--50521 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
50442 ATAAAAGCTG
* *
50452 AAGATGTTGAGAAACCCTATACCCTTTCCCTA
1 AAGATGTTAAGAAACCCTAAACCCTTTCCCTA
50484 AAGATGTTAAGAAACCCTAAACCCTTTCCCTA
1 AAGATGTTAAGAAACCCTAAACCCTTTCCCTA
50516 AAGATG
1 AAGATG
50522 CCGAGACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (32 bp):
AAGATGTTAAGAAACCCTAAACCCTTTCCCTA
Found at i:51369 original size:23 final size:23
Alignment explanation
Indices: 51342--51408 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
51332 CACCACAGCT
51342 CGTATAAATGCACTGAAGTGCCA
1 CGTATAAATGCACTGAAGTGCCA
* * *
51365 CGTATAATTGCACTGTAGTGCCG
1 CGTATAAATGCACTGAAGTGCCA
* * *
51388 TGTAGAAATGCACCGAAGTGC
1 CGTATAAATGCACTGAAGTGC
51409 TATATAAGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (23 bp):
CGTATAAATGCACTGAAGTGCCA
Found at i:52662 original size:9 final size:10
Alignment explanation
Indices: 52637--52670 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
52627 ACAATTAATG
52637 TAAT-ACATA
1 TAATCACATA
52646 TAATCACATA
1 TAATCACATA
52656 TAA-CACATA
1 TAATCACATA
52665 TAATCA
1 TAATCA
52671 TAACAACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 10 0.43
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (10 bp):
TAATCACATA
Found at i:52681 original size:19 final size:19
Alignment explanation
Indices: 52641--52687 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
52631 TTAATGTAAT
*
52641 ACATATAATCACATATAAC
1 ACATATAATCACATACAAC
*
52660 ACATATAATCATA-ACAAC
1 ACATATAATCACATACAAC
*
52678 -CACATAATCA
1 ACATATAATCA
52688 TGTTCATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.36
18 4 0.16
19 12 0.48
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (19 bp):
ACATATAATCACATACAAC
Found at i:53166 original size:29 final size:29
Alignment explanation
Indices: 53124--53185 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
53114 TATTTGAGAG
53124 TGCATCGATACACCTTGAAGATGCATCGA
1 TGCATCGATACACCTTGAAGATGCATCGA
*
53153 TGCATCGATGCACCTTGAAGATGCATCGA
1 TGCATCGATACACCTTGAAGATGCATCGA
53182 TGCA
1 TGCA
53186 CACAACCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (29 bp):
TGCATCGATACACCTTGAAGATGCATCGA
Found at i:57127 original size:2 final size:2
Alignment explanation
Indices: 57122--57161 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
57112 CATCTTTTAC
57122 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
57162 CATGCTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57210 original size:48 final size:48
Alignment explanation
Indices: 57149--57247 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
57139 TATATATATA
57149 TATATATATATATCATGCTATATCTAAATTTTATATGATATTGACAGT
1 TATATATATATATCATGCTATATCTAAATTTTATATGATATTGACAGT
*
57197 TATATATATATATCATGCTATATTTAAATTTTATATGATATTGACAGT
1 TATATATATATATCATGCTATATCTAAATTTTATATGATATTGACAGT
57245 TAT
1 TAT
57248 GTGGATATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (48 bp):
TATATATATATATCATGCTATATCTAAATTTTATATGATATTGACAGT
Found at i:60782 original size:15 final size:15
Alignment explanation
Indices: 60737--60775 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
60727 ATATAAAATA
60737 TATTTATATTTATAT
1 TATTTATATTTATAT
*
60752 T-TTT-TATTTGTAT
1 TATTTATATTTATAT
60765 TATTTATATTT
1 TATTTATATTT
60776 TTGTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 9 0.43
14 6 0.29
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTATATTTATAT
Found at i:61372 original size:17 final size:17
Alignment explanation
Indices: 61328--61381 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
61318 ATATTAATAT
* *
61328 AATAATATTTTTTTATA
1 AATAATATTATTTTAAA
*
61345 AAT-ATA-AATTTTAAA
1 AATAATATTATTTTAAA
*
61360 AATAATATTATTTAAAA
1 AATAATATTATTTTAAA
61377 AATAA
1 AATAA
61382 AATAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 9 0.30
16 6 0.20
17 15 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATATTATTTTAAA
Found at i:62834 original size:18 final size:18
Alignment explanation
Indices: 62799--62834 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62789 ATAGTTAGTC
*
62799 ACTTTGGTGGTTCCGTGT
1 ACTTTGGTGATTCCGTGT
*
62817 ACTTTGGTGATTCTGTGT
1 ACTTTGGTGATTCCGTGT
62835 GACACTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.14, G:0.31, T:0.47
Consensus pattern (18 bp):
ACTTTGGTGATTCCGTGT
Found at i:65931 original size:54 final size:54
Alignment explanation
Indices: 65861--66081 Score: 320
Period size: 54 Copynumber: 4.1 Consensus size: 54
65851 ATTGCACCTA
*
65861 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGAATTGCACACAT
1 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGATTGCACACAT
* * *
65915 AGTGTCGAAATGGTAATT-AACAAACTCATTATGAATTCCATGGATTACACACAC
1 AGTGCCGAAATGGTAATTCAA-AAACTCATTATGAATTCCATGGATTGCACACAT
* * * * *
65969 AATACTGAACA-GGTAATTCACAAACTCATTGTGAATTCCATGGATTGCACACAT
1 AGTGCCGAA-ATGGTAATTCAAAAACTCATTATGAATTCCATGGATTGCACACAT
*
66023 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
1 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGATTGCACACAT
66077 AGTGC
1 AGTGC
66082 TGATAGTACA
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 3 0.02
54 142 0.97
55 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGATTGCACACAT
Found at i:66061 original size:108 final size:108
Alignment explanation
Indices: 65872--66075 Score: 354
Period size: 108 Copynumber: 1.9 Consensus size: 108
65862 GTGCCGAAAT
*
65872 GGTAATTCAAAAACTCATTATGAATTCCATGAATTGCACACATAGTGTCGAAATGGTAATTAACA
1 GGTAATTCAAAAACTCATTATGAATTCCATGAATTGCACACATAGTGCCGAAATGGTAATTAACA
65937 AACTCATTATGAATTCCATGGATTACACACACAATACTGAACA
66 AACTCATTATGAATTCCATGGATTACACACACAATACTGAACA
* * * *
65980 GGTAATTCACAAACTCATTGTGAATTCCATGGATTGCACACATAGTGCCGAAATGGTAATTCACA
1 GGTAATTCAAAAACTCATTATGAATTCCATGAATTGCACACATAGTGCCGAAATGGTAATTAACA
*
66045 AACTCATTATGAATTCCATGGATTGCACACA
66 AACTCATTATGAATTCCATGGATTACACACA
66076 TAGTGCTGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 90 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (108 bp):
GGTAATTCAAAAACTCATTATGAATTCCATGAATTGCACACATAGTGCCGAAATGGTAATTAACA
AACTCATTATGAATTCCATGGATTACACACACAATACTGAACA
Found at i:66374 original size:13 final size:13
Alignment explanation
Indices: 66356--66403 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
66346 TGCATCATAA
66356 ATTTATGACGCGC
1 ATTTATGACGCGC
*
66369 ATTTATGACACGC
1 ATTTATGACGCGC
66382 ATTTATGACGCGC
1 ATTTATGACGCGC
66395 ATTTATGAC
1 ATTTATGAC
66404 TTACATTGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:66486 original size:85 final size:85
Alignment explanation
Indices: 66382--66547 Score: 287
Period size: 85 Copynumber: 2.0 Consensus size: 85
66372 TATGACACGC
* * *
66382 ATTTATGACGCGCATTTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATGAAAATGA
*
66447 CACACATTTGTGTGTCATAA
66 CACACATTCGTGTGTCATAA
*
66467 ATTTATGACACGCATTTATGACTTACATTACGTGTCATTGAAGCCCCCGTCATAAATGAAAATGA
1 ATTTATGACACGCATTTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATGAAAATGA
66532 CACACATTCGTGTGTC
66 CACACATTCGTGTGTC
66548 GTGATTGTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATGAAAATGA
CACACATTCGTGTGTCATAA
Found at i:77030 original size:24 final size:24
Alignment explanation
Indices: 76996--77049 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
76986 GGTATGCCTC
76996 ACTATTATGCCTTAATGATGTCCA
1 ACTATTATGCCTTAATGATGTCCA
* *
77020 ACTATTTTGCCTTATTGATGTCCA
1 ACTATTATGCCTTAATGATGTCCA
77044 ACTATT
1 ACTATT
77050 CTGCTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
ACTATTATGCCTTAATGATGTCCA
Found at i:83784 original size:54 final size:54
Alignment explanation
Indices: 83563--83784 Score: 336
Period size: 54 Copynumber: 4.1 Consensus size: 54
83553 ATTGCACCTA
* * *
83563 AGTGTCGACATGGTAATTAACAAACTCATTATGAATTCCATGGATTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
** * * *
83617 AGTGCTAAAATGATAATTCACAAACACATTATGAATTCCGTGGATTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
** *
83671 AGTATCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCATACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
*
83725 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTTCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
83779 AGTGCC
1 AGTGCC
83785 TATAATACAC
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 148 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (54 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATTGCACACAT
Found at i:88942 original size:29 final size:30
Alignment explanation
Indices: 88871--88930 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
88861 CAATTTAAGG
88871 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
88902 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
88931 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:89046 original size:21 final size:21
Alignment explanation
Indices: 89021--89097 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
89011 TTCAAGATTG
* *
89021 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
89042 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
*
89060 CCC---GGGTATAGATA-C-C
1 CCCAGGGGGTACAGATACCCC
89076 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
89097 C
1 C
89098 TGCAGGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
15 10 0.22
16 4 0.09
18 4 0.09
19 10 0.22
20 1 0.02
21 17 0.37
ACGTcount: A:0.23, C:0.34, G:0.29, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:89072 original size:15 final size:15
Alignment explanation
Indices: 89048--89096 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
89038 CCCCCCCAGG
89048 GGGTACAGATACCCC
1 GGGTACAGATACCCC
*
89063 GGGTATAGATACCCCC
1 GGGTACAGATA-CCCC
89079 AGGGGGTACAGATACCCC
1 ---GGGTACAGATACCCC
89097 CTGCAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
18 4 0.14
19 10 0.36
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.14
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:89091 original size:19 final size:19
Alignment explanation
Indices: 89021--89097 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
89011 TTCAAGATTG
* *
89021 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGA-T-ACC
89042 CCCAGGGGGTACAGATA-C
1 CCCAGGGGGTACAGATACC
*
89060 CCC---GGGTATAGATACC
1 CCCAGGGGGTACAGATACC
89076 CCCAGGGGGTACAGATACC
1 CCCAGGGGGTACAGATACC
89095 CCC
1 CCC
89098 TGCAGGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
15 10 0.21
16 4 0.08
18 4 0.08
19 15 0.31
20 1 0.02
21 14 0.29
ACGTcount: A:0.23, C:0.34, G:0.29, T:0.14
Consensus pattern (19 bp):
CCCAGGGGGTACAGATACC
Found at i:89173 original size:20 final size:21
Alignment explanation
Indices: 89131--89174 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
89121 AACAGAATGT
*
89131 CCAGGGGGTACCGATTCCCCC
1 CCAGGGCGTACCGATTCCCCC
89152 CCAGGGCGTACCGATTCCCCC
1 CCAGGGCGTACCGATTCCCCC
89173 CC
1 CC
89175 TGTTTAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.48, G:0.25, T:0.14
Consensus pattern (21 bp):
CCAGGGCGTACCGATTCCCCC
Found at i:89236 original size:21 final size:21
Alignment explanation
Indices: 89210--89249 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89200 ATTAGAATAT
*
89210 TATGAAGGGGTATCGATTCTC
1 TATGAAGGGGTACCGATTCTC
89231 TATGAAGGGGTACCGATTC
1 TATGAAGGGGTACCGATTC
89250 CCTCTATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCTC
Found at i:89318 original size:20 final size:22
Alignment explanation
Indices: 89280--89319 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
89270 TTTTAGTATA
89280 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
89302 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
89320 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:89573 original size:34 final size:32
Alignment explanation
Indices: 89534--89603 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
89524 TTTTGTAAAG
*
89534 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
89568 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
89600 GGGA
1 GGGA
89604 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:91426 original size:26 final size:26
Alignment explanation
Indices: 91397--91450 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
91387 ACCACAAAAC
91397 CTTAGTGAGATGTTTACAAATTATTT
1 CTTAGTGAGATGTTTACAAATTATTT
*
91423 CTTAGTGAGATGTTTATAAATTATTT
1 CTTAGTGAGATGTTTACAAATTATTT
91449 CT
1 CT
91451 CATACCGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (26 bp):
CTTAGTGAGATGTTTACAAATTATTT
Found at i:91483 original size:2 final size:2
Alignment explanation
Indices: 91464--91503 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
91454 ACCGAAGGAA
*
91464 AT AT -T AT AG AT A- 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
91504 TATTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:95397 original size:20 final size:21
Alignment explanation
Indices: 95349--95398 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
95339 AAGATAAACT
*
95349 GTATCGATACTGATTTAAGAA
1 GTATCGATACTGATATAAGAA
* *
95370 GTAT-GATACTGATAT-GGAG
1 GTATCGATACTGATATAAGAA
95389 GTATCGATAC
1 GTATCGATAC
95399 CAAGAGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (21 bp):
GTATCGATACTGATATAAGAA
Found at i:96152 original size:24 final size:24
Alignment explanation
Indices: 96076--96154 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 24
96066 GAGTCGAGGG
96076 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* * * *
96100 -TCTATGTGATCATTTGGGAC-AA
1 TTCTACGTGGTCCTTCGGGACAAA
*
96122 TTATACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
96146 TTCTACGTG
1 TTCTACGTG
96155 ACACTTCGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.05
23 31 0.72
24 10 0.23
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:96161 original size:24 final size:24
Alignment explanation
Indices: 96088--96171 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 24
96078 CTACGTGGTC
*
96088 CTTCGGGACAAA-TCTATGTGATCA
1 CTTCGGGACAAATTCTACGTGA-CA
* * *
96112 -TTTGGGAC-AATTATACGTGGTC-
1 CTTCGGGACAAATTCTACGT-GACA
96134 CTTCGGGACAAATTCTACGTGACA
1 CTTCGGGACAAATTCTACGTGACA
96158 CTTCGGTG-CAAATT
1 CTTCGG-GACAAATT
96172 ATATGAGCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.04
23 22 0.47
24 22 0.47
25 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (24 bp):
CTTCGGGACAAATTCTACGTGACA
Found at i:108415 original size:2 final size:2
Alignment explanation
Indices: 108408--108442 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108398 AACTTCAGAT
108408 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108443 GTATGTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108447 original size:4 final size:4
Alignment explanation
Indices: 108440--108486 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
108430 TATATATATA
108440 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
108487 TGTGTTTCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:110833 original size:2 final size:2
Alignment explanation
Indices: 110826--110878 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
110816 GCAGATCTTT
110826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110868 TA TA TA TA TA T
1 TA TA TA TA TA T
110879 TGTAATTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115149 original size:55 final size:55
Alignment explanation
Indices: 115065--115176 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
115055 TACTTGTATC
115065 GAAGAGGTCCCTAAGCACAAAAATCAAATCATTCATTCCAAATCATTATATTTGA
1 GAAGAGGTCCCTAAGCACAAAAATCAAATCATTCATTCCAAATCATTATATTTGA
115120 GAAGAGGTCCCTAAGCACAAAAATCAAATCATTCATTCCAAATCATTATATTTGA
1 GAAGAGGTCCCTAAGCACAAAAATCAAATCATTCATTCCAAATCATTATATTTGA
115175 GA
1 GA
115177 GCATTTGGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (55 bp):
GAAGAGGTCCCTAAGCACAAAAATCAAATCATTCATTCCAAATCATTATATTTGA
Found at i:117063 original size:26 final size:24
Alignment explanation
Indices: 117002--117071 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
116992 ACGTGATCCT
* *
117002 TTTTCCAATCTCGCTTTAGATAAA
1 TTTTACAATCTCTCTTTAGATAAA
117026 TTTTACAATCTCTCTTTAGATAAA
1 TTTTACAATCTCTCTTTAGATAAA
*
117050 TTTTACAATCTCTCTTGAGATA
1 TTTTACAATCTCTCTTTAGATA
117072 TTTTTCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (24 bp):
TTTTACAATCTCTCTTTAGATAAA
Found at i:118526 original size:17 final size:15
Alignment explanation
Indices: 118499--118538 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
118489 TACATATTTA
*
118499 TATAATATTAAAAAT
1 TATATTATTAAAAAT
118514 ATAATATTATTAAAAAT
1 -T-ATATTATTAAAAAT
118531 TATATTAT
1 TATATTAT
118539 AGGTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 2 0.09
17 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATTATTAAAAAT
Found at i:129667 original size:15 final size:15
Alignment explanation
Indices: 129636--129665 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
129626 CATATAAAAA
129636 TAAAGAAAATATTTT
1 TAAAGAAAATATTTT
129651 TAAA-AAAATATTTT
1 TAAAGAAAATATTTT
129665 T
1 T
129666 TAGTTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
TAAAGAAAATATTTT
Found at i:131842 original size:22 final size:22
Alignment explanation
Indices: 131771--131842 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
131761 CACCATTGCT
*
131771 CACATAATTTG-CACCGAAGTG-C
1 CACATAGTTTGTC-CCGAAG-GAC
*
131793 CACATA-TTTGTCCCGAATGAC
1 CACATAGTTTGTCCCGAAGGAC
*
131814 CACATAGTTTGTCTCGAAGGAC
1 CACATAGTTTGTCCCGAAGGAC
131836 CACATAG
1 CACATAG
131843 GTTTATCCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 27 0.61
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (22 bp):
CACATAGTTTGTCCCGAAGGAC
Found at i:135671 original size:15 final size:14
Alignment explanation
Indices: 135636--135677 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
135626 TACTGAATGG
135636 TGGTATCGGTACCA
1 TGGTATCGGTACCA
135650 T-GTATCGGTACCA
1 TGGTATCGGTACCA
*
135663 TGGGTATCGATACCA
1 T-GGTATCGGTACCA
135678 ATAGGGAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 13 0.52
14 1 0.04
15 11 0.44
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (14 bp):
TGGTATCGGTACCA
Done.