Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006661.1 Hibiscus syriacus cultivar Beakdansim tig00016484_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: 95402
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:115 original size:18 final size:18
Alignment explanation
Indices: 89--133 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
79 GTCGATCAGA
*
89 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
107 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
125 TGATGGCTC
1 TGATGGCTC
134 CGAAGTGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1465 original size:20 final size:20
Alignment explanation
Indices: 1442--1486 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1432 AATGAAAATT
1442 GCAACACGAAAATGACTATC
1 GCAACACGAAAATGACTATC
* **
1462 GCAACGCGAATTTGACTATC
1 GCAACACGAAAATGACTATC
1482 GCAAC
1 GCAAC
1487 GAGAGAATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
GCAACACGAAAATGACTATC
Found at i:1766 original size:20 final size:21
Alignment explanation
Indices: 1741--1788 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
1731 TCTGAGAGAT
1741 GGAGATA-GACGGATTTCGCC
1 GGAGATAGGACGGATTTCGCC
*
1761 GGAGATAGGGACGGATTTCGTC
1 GGAGATA-GGACGGATTTCGCC
1783 GGAGAT
1 GGAGAT
1789 GGGTGAGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.21
Consensus pattern (21 bp):
GGAGATAGGACGGATTTCGCC
Found at i:2056 original size:20 final size:20
Alignment explanation
Indices: 1951--2084 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
1941 CGCTTTGAAA
*
1951 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
1972 ATCGCGTTGCGA-AGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1991 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
2011 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
2032 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
2052 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2072 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2085 TTTCCCAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.02
19 17 0.18
20 51 0.54
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2082 original size:61 final size:60
Alignment explanation
Indices: 1951--2087 Score: 193
Period size: 61 Copynumber: 2.3 Consensus size: 60
1941 CGCTTTGAAA
* * * *
1951 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * *
2011 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGA-AGTAAGAATCGCATTGCGAAAGTCAGT
2072 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
2088 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 29 0.44
61 37 0.56
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (60 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:2103 original size:61 final size:61
Alignment explanation
Indices: 1951--2105 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
1941 CGCTTTGAAA
* ** * * *
1951 ATCGCATTGCGATTATGTATTATCGCGTTGCGA-AGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
2011 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
2072 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
2106 TTACTTATTC
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
60 29 0.37
61 48 0.61
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:2180 original size:21 final size:21
Alignment explanation
Indices: 2154--2207 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
2144 ACTGTAGACC
2154 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
2175 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
2196 ATCGCAACGCGA
1 ATCGCAACGCGA
2208 ATTTGCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:7682 original size:24 final size:23
Alignment explanation
Indices: 7636--7682 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7626 AGATAATATC
*
7636 ATATCATCATTGAATTTTTTTTA
1 ATATCATCATTGAATTTTGTTTA
7659 ATATCAT-ATTAGCAATTTTGTTTA
1 ATATCATCATT-G-AATTTTGTTTA
7683 TTTTTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 8 0.38
24 10 0.48
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (23 bp):
ATATCATCATTGAATTTTGTTTA
Found at i:8481 original size:21 final size:20
Alignment explanation
Indices: 8443--8481 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8433 TTCGTAGTAT
* *
8443 TTTTTAATTATTTTTTGTAG
1 TTTTTAATTATATATTGTAG
8463 TTTTTAGATTATATATTGT
1 TTTTTA-ATTATATATTGT
8482 TGACTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTTAATTATATATTGTAG
Found at i:8821 original size:2 final size:2
Alignment explanation
Indices: 8814--8839 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8804 GCACAAAAAT
8814 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
8840 ATACTCCATA
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):
TA
Found at i:10638 original size:16 final size:16
Alignment explanation
Indices: 10617--10665 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
10607 TGAAAAACCA
10617 ACTGTACTGTTTTAAG
1 ACTGTACTGTTTTAAG
10633 ACTGTACTGTTTTAAG
1 ACTGTACTGTTTTAAG
10649 ACTGTACTGTTTTAAG
1 ACTGTACTGTTTTAAG
10665 A
1 A
10666 TAAGGCAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (16 bp):
ACTGTACTGTTTTAAG
Found at i:13985 original size:21 final size:23
Alignment explanation
Indices: 13940--13989 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
13930 ACATATAATT
*
13940 GTAAATTAATTAAAAATTTAAAG
1 GTAAATTAATTAAAAATTAAAAG
*
13963 GTAAATT-ATTTAAAA-TAAAAG
1 GTAAATTAATTAAAAATTAAAAG
13984 GTAAAT
1 GTAAAT
13990 ATACCAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.44
22 7 0.28
23 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
GTAAATTAATTAAAAATTAAAAG
Found at i:16872 original size:20 final size:20
Alignment explanation
Indices: 16849--16896 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
16839 AAGCCCTCAT
*
16849 TATCGATACTAG-TCTTTGGG
1 TATCGATACCAGCT-TTTGGG
*
16869 TATCAATACCAGCTTTTGGG
1 TATCGATACCAGCTTTTGGG
16889 TATCGATA
1 TATCGATA
16897 TTGATGACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (20 bp):
TATCGATACCAGCTTTTGGG
Found at i:18171 original size:16 final size:15
Alignment explanation
Indices: 18142--18179 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18132 TGTTTCCAAA
18142 TTTCTCTCATTTCTT
1 TTTCTCTCATTTCTT
18157 CTTTCT-TCATCTTCTT
1 -TTTCTCTCAT-TTCTT
18173 TTTCTCT
1 TTTCTCT
18180 TAAACGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCTCTCATTTCTT
Found at i:19351 original size:22 final size:21
Alignment explanation
Indices: 19297--19360 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
19287 AGTCGAGGGT
19297 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
19318 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
19340 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
19361 AATTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:23758 original size:2 final size:2
Alignment explanation
Indices: 23751--23780 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23741 TTGATGCTTT
23751 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
23781 ATGATGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25440 original size:11 final size:11
Alignment explanation
Indices: 25424--25448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25414 GAGACCCAAT
25424 CCATTTAAAAC
1 CCATTTAAAAC
25435 CCATTTAAAAC
1 CCATTTAAAAC
25446 CCA
1 CCA
25449 AATCAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (11 bp):
CCATTTAAAAC
Found at i:25530 original size:17 final size:17
Alignment explanation
Indices: 25508--25546 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
25498 TGAATCAAAT
25508 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
25525 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
25542 -AATTA
1 TAATTA
25547 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:29948 original size:12 final size:12
Alignment explanation
Indices: 29933--29958 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29923 AATATATCCA
29933 TTAATACTATTC
1 TTAATACTATTC
29945 TTAATACTATTC
1 TTAATACTATTC
29957 TT
1 TT
29959 GTAACTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAATACTATTC
Found at i:41040 original size:9 final size:9
Alignment explanation
Indices: 41025--41155 Score: 75
Period size: 11 Copynumber: 13.1 Consensus size: 9
41015 TATATATACC
41025 AAAAATAAA
1 AAAAATAAA
*
41034 GAAAATAAA
1 AAAAATAAA
41043 AACAAATGAAA
1 AA-AAAT-AAA
*
41054 CAAAGATAAA
1 -AAAAATAAA
41064 AAAGAGAT-AA
1 AAA-A-ATAAA
*
41074 AAACATAAA
1 AAAAATAAA
41083 TAGAAAATAAGA
1 -A-AAAATAA-A
41095 TAAAAATAAA
1 -AAAAATAAA
41105 TAGAAAATAAA
1 -A-AAAATAAA
*
41116 TAAAATAAA
1 AAAAATAAA
41125 TAAAAATAAA
1 -AAAAATAAA
* *
41135 ATAAAGGTAAT
1 A-AAA-ATAAA
41146 AAAAATAAA
1 AAAAATAAA
41155 A
1 A
41156 GAAAGGTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.02
9 27 0.28
10 30 0.31
11 33 0.34
12 5 0.05
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:41092 original size:11 final size:10
Alignment explanation
Indices: 41073--41154 Score: 87
Period size: 11 Copynumber: 7.9 Consensus size: 10
41063 AAAAGAGATA
41073 AAAACATAAAT
1 AAAA-ATAAAT
41084 AGAAAATAAGAT
1 A-AAAATAA-AT
41096 AAAAATAAAT
1 AAAAATAAAT
41106 AGAAAATAAAT
1 A-AAAATAAAT
41117 -AAAATAAAT
1 AAAAATAAAT
41126 AAAAATAAAAT
1 AAAAAT-AAAT
**
41137 AAAGGT-AAT
1 AAAAATAAAT
41146 AAAAATAAA
1 AAAAATAAA
41155 AGAAAGGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
9 16 0.26
10 10 0.16
11 29 0.48
12 6 0.10
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:41095 original size:24 final size:22
Alignment explanation
Indices: 41068--41139 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
41058 GATAAAAAAG
41068 AGATAAAAACATAAATAGAAAATA
1 AGAT-AAAA-ATAAATAGAAAATA
41092 AGATAAAAATAAATAGAAAATA
1 AGATAAAAATAAATAGAAAATA
41114 A-AT-AAAATAAATA-AAAATA
1 AGATAAAAATAAATAGAAAATA
*
41133 AAATAAA
1 AGATAAA
41140 GGTAATAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.15
20 12 0.26
21 4 0.09
22 15 0.33
23 4 0.09
24 4 0.09
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (22 bp):
AGATAAAAATAAATAGAAAATA
Found at i:41131 original size:15 final size:15
Alignment explanation
Indices: 41086--41139 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
41076 ACATAAATAG
41086 AAAATAAGATAAAAAT
1 AAAATAA-ATAAAAAT
41102 -AAATAGAA-AATAAAT
1 AAAATA-AATAA-AAAT
41117 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
41132 AAAATAAA
1 AAAATAAA
41140 GGTAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.06
15 24 0.71
16 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:41173 original size:20 final size:20
Alignment explanation
Indices: 41123--41164 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
41113 AAATAAAATA
*
41123 AATAAAAATAAAATAAAGGT
1 AATAAAAATAAAAGAAAGGT
41143 AATAAAAATAAAAGAAAGGT
1 AATAAAAATAAAAGAAAGGT
41163 AA
1 AA
41165 ACAAGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAAAGAAAGGT
Found at i:41207 original size:14 final size:14
Alignment explanation
Indices: 41190--41216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41180 TATAAATAAA
41190 AAAATAAGTAAAAT
1 AAAATAAGTAAAAT
41204 AAAATAAGTAAAA
1 AAAATAAGTAAAA
41217 CAAACAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAATAAGTAAAAT
Found at i:41341 original size:18 final size:19
Alignment explanation
Indices: 41315--41350 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41305 AAGAAAAAAA
41315 TAATAAAATAT-ATATTTG
1 TAATAAAATATAATATTTG
*
41333 TAATTAAATATAATATTT
1 TAATAAAATATAATATTT
41351 ACATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAATAAAATATAATATTTG
Found at i:43439 original size:32 final size:32
Alignment explanation
Indices: 43403--43506 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
43393 TCCGTCGTGG
43403 AGTTGAAATCATGGATGGCCCCTTCGTTGTGA
1 AGTTGAAATCATGGATGGCCCCTTCGTTGTGA
** * * ** * *
43435 AGTTG-AGCCTTGAATTGGATATCCTTCATCGTGA
1 AGTTGAAATCATGGA-TGG--CCCCTTCGTTGTGA
**
43469 AGTTGAAATTGTGGATGGCCCCTTCGTTGTGA
1 AGTTGAAATCATGGATGGCCCCTTCGTTGTGA
43501 AGTTGA
1 AGTTGA
43507 GCCTTGAATT
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
31 5 0.10
32 24 0.47
34 18 0.35
35 4 0.08
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (32 bp):
AGTTGAAATCATGGATGGCCCCTTCGTTGTGA
Found at i:43469 original size:34 final size:34
Alignment explanation
Indices: 43431--43540 Score: 111
Period size: 34 Copynumber: 3.3 Consensus size: 34
43421 CCCCTTCGTT
43431 GTGAAGTTGAGCCTTGAATTGGATATCCTTCATC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCATC
** ** * *
43465 GTGAAGTTGA-AATTG---TGGATGGCCCCTTCGTT
1 GTGAAGTTGAGCCTTGAATTGGAT--ATCCTTCATC
*
43497 GTGAAGTTGAGCCTTGAATTAGATATCCTTCATC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCATC
43531 GTGAAGTTGA
1 GTGAAGTTGA
43541 AATCCATGTA
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
30 5 0.09
32 16 0.28
33 6 0.11
34 26 0.46
36 4 0.07
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (34 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTCATC
Found at i:43492 original size:66 final size:66
Alignment explanation
Indices: 43386--43544 Score: 255
Period size: 66 Copynumber: 2.4 Consensus size: 66
43376 TTGTGGGCAC
* *
43386 GATATCCTCCGTCGTGGAGTTGAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
43451 G
66 G
* **
43452 GATATCCTTCATCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
*
43517 A
66 G
*
43518 GATATCCTTCATCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
43545 CATGTATTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (66 bp):
GATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
G
Found at i:43664 original size:66 final size:66
Alignment explanation
Indices: 43582--43850 Score: 217
Period size: 66 Copynumber: 4.3 Consensus size: 66
43572 AATATTTTTT
43582 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATATCATT
1 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATATCATT
*
43647 A
66 C
* * * * * * * * *
43648 ATCGTGAAGTTGAAATC---CA-AG------CATTGT-ATGTTACTG-GTGGACA--CGATATCA
1 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTA-AGCCTTGA-ATTGGATATCA
43699 TTC
64 TTC
* ** * * *
43702 GTCGTGAAGTTAAAATTATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATCGGATATCATT
1 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATATCATT
43767 C
66 C
* * * *
43768 GTCATGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATTC-T
1 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATA-TCAT
*
43832 TT
65 TC
43834 GTCGTGAAGTTGAAATC
1 GTCGTGAAGTTGAAATC
43851 CAAGTATTGT
Statistics
Matches: 154, Mismatches: 32, Indels: 34
0.70 0.15 0.15
Matches are distributed among these distances:
54 23 0.15
55 8 0.05
56 7 0.05
57 1 0.01
58 1 0.01
62 1 0.01
63 1 0.01
64 7 0.05
65 7 0.05
66 96 0.62
67 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (66 bp):
GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATATCATT
C
Found at i:43676 original size:120 final size:120
Alignment explanation
Indices: 43453--43784 Score: 493
Period size: 120 Copynumber: 2.8 Consensus size: 120
43443 CTTGAATTGG
* * *
43453 ATATCCTTCATCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTA
1 ATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTG
* * *
43518 GATATCCTTCATCGTGAAGTTGAAATCCATGTATTGTATGTTACTGGTGGACACA
66 GATATCATTCATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACA
** * * *
43573 ATATTTTTTGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTG
1 ATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTG
* *
43638 GATATCATTAATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACG
66 GATATCATTCATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACA
* * * *
43693 ATATCATTCGTCGTGAAGTTAAAATTATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATCG
1 ATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTG
* *
43758 GATATCATTCGTCATGAAGTTGAAATC
66 GATATCATTCATCGTGAAGTTGAAATC
43785 GTGGATGACC
Statistics
Matches: 188, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 188 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (120 bp):
ATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTG
GATATCATTCATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACA
Found at i:43778 original size:186 final size:186
Alignment explanation
Indices: 43586--43970 Score: 556
Period size: 186 Copynumber: 2.1 Consensus size: 186
43576 TTTTTTGTCG
* *
43586 TGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTGGATA-TCATTAAT
1 TGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTAAGCCTTGAATTGGATATTC-TTAAT
* *
43650 CGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACGATATCATTCGTCGTGAAGTTAA
65 CGTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACAATATCATTCATCGTGAAGTTAA
* * *
43715 AATTATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATCGGATATCATTCGTCA
130 AATCATGGATGGCCCATTCGTTATGAAGTTGAGCCTCGAATCGGATATCATTCGTCA
* **
43772 TGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATTCTTTGTC
1 TGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTAAGCCTTGAATTGGATATTCTTAATC
* * * * * *
43837 GTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGTGGGCACAATATCCTTTATCGTGAAGTTGAA
66 GTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACAATATCATTCATCGTGAAGTTAAA
* * * * * *
43902 ATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTTGTCG
131 ATCATGGATGGCCCATTCGTTATGAAGTTGAGCCTCGAATCGGATATCATTCGTCA
43958 TGAAGTTGAAATC
1 TGAAGTTGAAATC
43971 CAAGGATTGT
Statistics
Matches: 176, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
186 174 0.99
187 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (186 bp):
TGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTAAGCCTTGAATTGGATATTCTTAATC
GTGAAGTTGAAATCCAAGCATTGTATGTTACTGGTGGACACAATATCATTCATCGTGAAGTTAAA
ATCATGGATGGCCCATTCGTTATGAAGTTGAGCCTCGAATCGGATATCATTCGTCA
Found at i:43938 original size:306 final size:306
Alignment explanation
Indices: 43378--43980 Score: 927
Period size: 306 Copynumber: 2.0 Consensus size: 306
43368 TCCAAGGTTT
* * * *
43378 GTGGGCACGATATCCTCCGTCGTGGAGTTGAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGC
1 GTGGACACGATATCATCCGTCGTGAAGTTAAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGC
* * * * * * *
43443 CTTGAATTGGATATCCTTCATCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAG
66 CTCGAATCGGATATCATTCATCATGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAG
*
43508 CCTTGAATTAGATATCCTTCATCGTGAAGTTGAAATCCATGTATTGTATGTTACTGGTGGACACA
131 CCTTGAATTAGATATCCTTCATCGTGAAGTTGAAATCCAAGTATTGTATGTTACTGGTGGACACA
** * * *
43573 ATATTTTTTGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATTG
196 ATATCCTTTATCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTAAGCCTTGAATTG
43638 GATATCATTAATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTG
261 GATATCATTAATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTG
* *
43684 GTGGACACGATATCATTCGTCGTGAAGTTAAAATTATGGATGGCCCCTTCGTTGTGAAGTTGAGC
1 GTGGACACGATATCATCCGTCGTGAAGTTAAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGC
*
43749 CTCGAATCGGATATCATTCGTCATGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAG
66 CTCGAATCGGATATCATTCATCATGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAG
* * ** * *
43814 CCTTGAATTGGATATTCTTTGTCGTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGTGGGCACA
131 CCTTGAATTAGATATCCTTCATCGTGAAGTTGAAATCCAAGTATTGTATGTTACTGGTGGACACA
*
43879 ATATCCTTTATCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTG
196 ATATCCTTTATCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTAAGCCTTGAATTG
* ** *
43944 GATATCCTTTGTCGTGAAGTTGAAATCCAAGGATTGT
261 GATATCATTAATCGTGAAGTTGAAATCCAAGCATTGT
43981 TGGCATGATA
Statistics
Matches: 266, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
306 266 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (306 bp):
GTGGACACGATATCATCCGTCGTGAAGTTAAAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGC
CTCGAATCGGATATCATTCATCATGAAGTTGAAATCGTGGATGACCCCTTCGTTATGAAGTTGAG
CCTTGAATTAGATATCCTTCATCGTGAAGTTGAAATCCAAGTATTGTATGTTACTGGTGGACACA
ATATCCTTTATCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTAAGCCTTGAATTG
GATATCATTAATCGTGAAGTTGAAATCCAAGCATTGTATGTTACTG
Found at i:44070 original size:109 final size:109
Alignment explanation
Indices: 43879--44082 Score: 302
Period size: 109 Copynumber: 1.9 Consensus size: 109
43869 GGTGGGCACA
* * * *
43879 ATATCCTTTATCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTG
1 ATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCATTCATTATGAAGTTGAGACTTGAAGTG
* *
43944 GATATCCTTTGTCGTGAAGTTGAAATCCAAGGATTGTTGGCATG
66 GATATCATTCGTCGTGAAGTTGAAATCCAAGGATTGTTGGCATG
* * *
43988 ATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCC-TTCATTGTGAAGTTGAGATTTGAAGT
1 ATATCCTTCATCGTGAAGTTGAAATCGTGGATGGC-CCATTCATTATGAAGTTGAGACTTGAAGT
*
44052 GGATGTCATTCGTCGTGAAGTTGAAATCCAA
65 GGATATCATTCGTCGTGAAGTTGAAATCCAA
44083 TCTAGAGTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 82 0.98
110 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (109 bp):
ATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCATTCATTATGAAGTTGAGACTTGAAGTG
GATATCATTCGTCGTGAAGTTGAAATCCAAGGATTGTTGGCATG
Found at i:44195 original size:64 final size:64
Alignment explanation
Indices: 44114--44268 Score: 233
Period size: 64 Copynumber: 2.4 Consensus size: 64
44104 GTTCAATATC
*
44114 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAG-CTGTTTGTTGAGTCCAACA-T
1 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTC-ATTTGTTGAGTCCAACATT
* *
44177 CTTTCGCTGTGAAATTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTGAGTCCAATATT
1 C-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTGAGTCCAACATT
**
44242 CTTCTTTGTGAAGTTGAAATTGACTCT
1 CTTCGCTGTGAAGTTGAAATTGACTCT
44269 AAAAGCTGCA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
63 1 0.01
64 79 0.95
65 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (64 bp):
CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTGAGTCCAACATT
Found at i:45352 original size:99 final size:99
Alignment explanation
Indices: 45173--45370 Score: 288
Period size: 99 Copynumber: 2.0 Consensus size: 99
45163 CAACTCAATA
* * * * * *
45173 TATAAACATCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCT
1 TATAAACACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATTGCCT
* *
45238 TAGAGAGACAGCTCAAGTTTTATTGTATAGATAT
66 TAGAGAGACAACTCAAGCTTTATTGTATAGATAT
* *
45272 TATAATCACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATTGCTT
1 TATAAACACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATTGCCT
* *
45337 TAGAGGGACAACTCAAGCTTTATTGTATATATAT
66 TAGAGAGACAACTCAAGCTTTATTGTATAGATAT
45371 GATATTATAA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (99 bp):
TATAAACACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATTGCCT
TAGAGAGACAACTCAAGCTTTATTGTATAGATAT
Found at i:48247 original size:16 final size:15
Alignment explanation
Indices: 48217--48254 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
48207 GATGCAAATG
*
48217 ATGAAAAAAATAAAA
1 ATGAAAAAAACAAAA
48232 ATGAAAGAAAACAAAA
1 ATGAAA-AAAACAAAA
48248 ATGAAAA
1 ATGAAAA
48255 GAGTTAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (15 bp):
ATGAAAAAAACAAAA
Found at i:49480 original size:24 final size:22
Alignment explanation
Indices: 49453--49506 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
49443 AGATAAAAAG
49453 AGATAAAACATAAATAAAAAAATA
1 AGATAAAA-ATAAA-AAAAAAATA
* *
49477 AGATAATAAATAAAGAGAAAATA
1 AGATAA-AAATAAAAAAAAAATA
49500 A-ATAAAA
1 AGATAAAA
49507 TATAGGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.07
22 4 0.15
23 8 0.30
24 11 0.41
25 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (22 bp):
AGATAAAAATAAAAAAAAAATA
Found at i:49530 original size:17 final size:17
Alignment explanation
Indices: 49499--49552 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
49489 AAGAGAAAAT
*
49499 AAATAAAATATAGGTAA
1 AAATAAAATAAAGGTAA
49516 AAATAAAATAAAGGTAATA
1 AAATAAAATAAAGGT-A-A
* *
49535 AAATAAAAGAAAGTTAA
1 AAATAAAATAAAGGTAA
49552 A
1 A
49553 CAAGATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 16 0.50
18 2 0.06
19 14 0.44
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
AAATAAAATAAAGGTAA
Found at i:49597 original size:36 final size:35
Alignment explanation
Indices: 49497--49601 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 35
49487 TAAAGAGAAA
*
49497 ATAAATAAAATATAGGTAAAAATAAAATAAAGGT-AAT
1 ATAAATAAAATATAAGT-AAAATAAAAT-AA-GTAAAT
* * * *
49534 A-AAATAAAAGA-AAGTTAAACAAGATAAGTACAAT
1 ATAAATAAAATATAAGTAAAATAAAATAAGTA-AAT
49568 ATAAATAAAATATAAGTAAAATAAAATAAGTAAA
1 ATAAATAAAATATAAGTAAAATAAAATAAGTAAA
49602 ACAAACAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
32 2 0.04
33 2 0.04
34 11 0.20
35 14 0.25
36 25 0.45
37 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (35 bp):
ATAAATAAAATATAAGTAAAATAAAATAAGTAAAT
Found at i:49730 original size:18 final size:19
Alignment explanation
Indices: 49704--49739 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49694 AAGAAAAAAA
49704 TAATAAAATAT-ATATTTG
1 TAATAAAATATAATATTTG
*
49722 TAATTAAATATAATATTT
1 TAATAAAATATAATATTT
49740 ACATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAATAAAATATAATATTTG
Found at i:55711 original size:21 final size:21
Alignment explanation
Indices: 55682--55726 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
55672 ATTCTGACTA
55682 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
55703 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
55724 TCG
1 TCG
55727 GTGATTACGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:55795 original size:20 final size:20
Alignment explanation
Indices: 55735--55787 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
55725 CGGTGATTAC
*
55735 GTAAATCGCAACGCGAATAT
1 GTAAATCGCAACGCGAATCT
*
55755 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGCGAATCT
55775 GTAAATCGCAACG
1 GTAAATCGCAACG
55788 AGATTCTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
GTAAATCGCAACGCGAATCT
Found at i:59171 original size:20 final size:20
Alignment explanation
Indices: 59148--59201 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
59138 TAACGCGAAT
59148 ATGACTATCGCAACACGGAA
1 ATGACTATCGCAACACGGAA
**
59168 ATGACTATCGCAATGCGGAA
1 ATGACTATCGCAACACGGAA
* *
59188 TTGACTAGCGCAAC
1 ATGACTATCGCAAC
59202 GCGTTGCGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
ATGACTATCGCAACACGGAA
Found at i:59266 original size:33 final size:33
Alignment explanation
Indices: 59204--59298 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
59194 AGCGCAACGC
*
59204 GTTGCGATTTTCATTTTTGCATTGCGATTCACTA
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCACTA
* * *
59238 GTTGCGATTTTCATTTCGCATTGTGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCACTA
** *
59271 GTTGCGATAGTCATTTCCGCGTTGCGAT
1 GTTGCGATTTTCATTT-CGCATTGCGAT
59299 AGTCTGTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 30 0.58
34 22 0.42
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCACTA
Found at i:59419 original size:14 final size:14
Alignment explanation
Indices: 59400--59436 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
59390 CATCAATTAA
59400 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
59414 ACAAATCATCTTTT
1 ACAAATCAACATTT
59428 ACAAATCAA
1 ACAAATCAA
59437 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:60888 original size:42 final size:42
Alignment explanation
Indices: 60809--60901 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
60799 CCTCTTCAAC
* * *
60809 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
60851 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
60893 GATGACAGG
1 GATGACAGG
60902 TGAGCCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:61404 original size:20 final size:20
Alignment explanation
Indices: 61381--61593 Score: 204
Period size: 20 Copynumber: 11.3 Consensus size: 20
61371 GAAACTTAAA
*
61381 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
61401 ATCGCAATGCGAAAATGAC-
1 ATCGCAATGCGAAAATGACT
61420 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
61440 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
61460 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
**
61480 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
*
61500 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
**
61514 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACT
61533 ATCGCAA--C-AACAA--A--
1 ATCGCAATGCGAA-AATGACT
61547 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
61567 ATCACAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
*
61587 ATTGCAA
1 ATCGCAA
61594 CGAGAGAATC
Statistics
Matches: 167, Mismatches: 11, Indels: 30
0.80 0.05 0.14
Matches are distributed among these distances:
14 14 0.08
16 10 0.06
17 7 0.04
18 5 0.03
19 26 0.16
20 105 0.63
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:61550 original size:33 final size:33
Alignment explanation
Indices: 61480--61560 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
61470 GAATTTGACT
* ** * * *
61480 ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 ATCGCAATGCGAA-ATGAAAATCGCAACAACAAA
61514 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
61547 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
61561 ATGACTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACAACAAA
Found at i:61702 original size:54 final size:53
Alignment explanation
Indices: 61602--61723 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 53
61592 AACGAGAGAA
* ** * *
61602 TCGCAATGCGATTTTCATTTCGCATTACGATTCTTTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTTCGCATTACGATTCTCTCATTGCGATAGTCAAAT
* * **
61655 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGTGATAGTCATTT
1 TCGCATTGCGATAGTCA-TTTCGCATTACGATTCTCTCATTGCGATAGTCAAAT
61709 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
61724 AAACTATTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 14 0.24
54 45 0.76
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (53 bp):
TCGCATTGCGATAGTCATTTCGCATTACGATTCTCTCATTGCGATAGTCAAAT
Found at i:61721 original size:20 final size:20
Alignment explanation
Indices: 61640--61723 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
61630 GATTCTTTCG
**
61640 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
61660 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
61680 TTGCGAT--TC----TCTCA
1 TTGCGATAGTCATTTTCGCA
*
61694 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
61714 TTGCGATAGT
1 TTGCGATAGT
61724 AAACTATTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 10 0.19
16 2 0.04
18 2 0.04
20 38 0.73
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:63716 original size:20 final size:20
Alignment explanation
Indices: 63691--63739 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
63681 GCGATTCTCT
63691 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
**
63711 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAAATTCG
*
63731 CGTTGCGAT
1 CATTGCGAT
63740 TCACTCGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:64111 original size:18 final size:18
Alignment explanation
Indices: 64088--64123 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
64078 TCGTCGAAGA
64088 TGGAGACTG-TTATCGTCG
1 TGGAGACTGATT-TCGTCG
64106 TGGAGACTGATTTCGTCG
1 TGGAGACTGATTTCGTCG
64124 GAGATGGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (18 bp):
TGGAGACTGATTTCGTCG
Found at i:64339 original size:20 final size:20
Alignment explanation
Indices: 64311--64441 Score: 226
Period size: 20 Copynumber: 6.5 Consensus size: 20
64301 GCTATGTAAA
*
64311 TCGCATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
64331 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
64351 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
* *
64371 TCGCGTTACGATTTACGTAA
1 TCGCGTTGCGATTTACGTAT
64391 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
64411 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
*
64431 TCGCATTGCGA
1 TCGCGTTGCGA
64442 ATTAGGAAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 105 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGTAT
Found at i:64462 original size:21 final size:21
Alignment explanation
Indices: 64438--64483 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
64428 TATTCGCATT
64438 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
64459 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
64480 GCGA
1 GCGA
64484 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:71162 original size:75 final size:76
Alignment explanation
Indices: 70961--71164 Score: 256
Period size: 75 Copynumber: 2.7 Consensus size: 76
70951 CCGTTGTACA
* * * *
70961 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGA
** *
71024 ACAAAACTGTTT
65 ACAAAACCATTC
* *
71036 AGGGGGGAATCGGTTCCTCCTAT--GGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
*
71099 CCAAACCATTC
66 CAAAACCATTC
* *
71110 A-GGGGGAATCAGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
71165 TTTTTGGCTT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
73 20 0.18
74 42 0.38
75 49 0.44
76 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:71793 original size:17 final size:17
Alignment explanation
Indices: 71771--71814 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
71761 TTCATAAATC
71771 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
71788 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
71805 -AAATATCCAA
1 CAAA-ATCCAA
71815 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:71806 original size:9 final size:8
Alignment explanation
Indices: 71766--71816 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
71756 CACCATTCAT
71766 AAATCC-A
1 AAATCCAA
71773 AAATCCAA
1 AAATCCAA
*
71781 CAATCCACA
1 AAATCCA-A
71790 AAAT-CAA
1 AAATCCAA
71797 ACAATCCAA
1 A-AATCCAA
71806 AATATCCAA
1 AA-ATCCAA
71815 AA
1 AA
71817 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:73784 original size:20 final size:20
Alignment explanation
Indices: 73755--73792 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73745 AGAACCCCAG
*
73755 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
73775 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
73793 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:79707 original size:75 final size:75
Alignment explanation
Indices: 79603--79800 Score: 272
Period size: 75 Copynumber: 2.6 Consensus size: 75
79593 CCGTTGTACA
* * * *
79603 AGGGGGGAATCGGTACCCCCT-TGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAAT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
** *
79667 AAAACTGTTT
66 AAAACCATTC
* *
79677 AGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
1 AGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
*
79742 CAAACCATTC
66 AAAACCATTC
*
79752 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTAT--GGGGGAATCGGTTCCCTCCGAGCA
79801 ATCTCGAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
74 19 0.17
75 68 0.62
77 23 0.21
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (75 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
AAAACCATTC
Found at i:80936 original size:18 final size:18
Alignment explanation
Indices: 80912--80955 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
80902 CTGAGTCAAC
*
80912 TCGTTGACCTTTGATCAGG
1 TCGTTGACCGTTGATC-GG
80931 -CGTTGACCGTTGATCGG
1 TCGTTGACCGTTGATCGG
80948 TCGTTGAC
1 TCGTTGAC
80956 TTTTTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.34
Consensus pattern (18 bp):
TCGTTGACCGTTGATCGG
Found at i:82735 original size:31 final size:31
Alignment explanation
Indices: 82699--82823 Score: 110
Period size: 31 Copynumber: 3.9 Consensus size: 31
82689 AAGACTCTGG
82699 TAGGTTCAGTCCCTACTGGTAATTCCTTGTA
1 TAGGTTCAGTCCCTACTGGTAATTCCTTGTA
* * * * *
82730 TAGGTTCA-ACACTGACTGATAATTCCTATCTT
1 TAGGTTCAGTCCCT-ACTGGTAATTCCT-TGTA
* *
82762 TGGCAGGTTCAGTCGCTGCTGGTAATTCCTTGTA
1 T---AGGTTCAGTCCCTACTGGTAATTCCTTGTA
*
82796 TAGGTTCAG-CACCGACTGGTAATTCCTT
1 TAGGTTCAGTC-CCTACTGGTAATTCCTT
82824 ATGAACCTAA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
30 4 0.05
31 42 0.58
32 3 0.04
34 3 0.04
35 18 0.25
36 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (31 bp):
TAGGTTCAGTCCCTACTGGTAATTCCTTGTA
Found at i:84179 original size:34 final size:32
Alignment explanation
Indices: 84113--84182 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
84103 CCTTACAAAC
* * *
84113 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGACTAAACTAAAACCTT
*
84145 TCCCTAGCTTTTACACGGACTAAGCTAAAACCTT
1 TCCCTAG-TTTTAC-CGGACTAAACTAAAACCTT
84179 TCCC
1 TCCC
84183 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGACTAAACTAAAACCTT
Found at i:84555 original size:21 final size:21
Alignment explanation
Indices: 84531--84612 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 21
84521 CGTTAGACAG
* *
84531 GGGGGAACCGGTACCCCCTTA
1 GGGGGAATCGGTACCCCCTGA
*
84552 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGA
84573 GGGGGAATCGGTACCCCCTG-
1 GGGGGAATCGGTACCCCCTGA
* *
84593 GAGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
84613 GACAATATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 18 0.32
21 38 0.68
ACGTcount: A:0.17, C:0.30, G:0.37, T:0.16
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGA
Found at i:84599 original size:41 final size:42
Alignment explanation
Indices: 84530--84613 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 42
84520 CCGTTAGACA
84530 GGGGGGAACCGGTACCCCCTTAGGGGGAATCGGTACCCCCTG
1 GGGGGGAACCGGTACCCCCTTAGGGGGAATCGGTACCCCCTG
* *
84572 GGGGGGAATCGGTACCCCC-T-GGAGGGAATCTGTACCCCCTG
1 GGGGGGAACCGGTACCCCCTTAGG-GGGAATCGGTACCCCCTG
84613 G
1 G
84614 ACAATATGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 2 0.05
41 19 0.49
42 18 0.46
ACGTcount: A:0.17, C:0.30, G:0.38, T:0.15
Consensus pattern (42 bp):
GGGGGGAACCGGTACCCCCTTAGGGGGAATCGGTACCCCCTG
Found at i:86970 original size:34 final size:32
Alignment explanation
Indices: 86917--86986 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
86907 CCTTACAAAC
*
86917 TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
1 TCCCTAGTTTTTACGGGCTAAACTAGAACATT
* * *
86949 TCCCTAGCTTTTATACGGGCTAAGCTATAACCTT
1 TCCCTAG-TTTT-TACGGGCTAAACTAGAACATT
86983 TCCC
1 TCCC
86987 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 4 0.12
34 21 0.66
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTTACGGGCTAAACTAGAACATT
Found at i:87361 original size:20 final size:20
Alignment explanation
Indices: 87336--87394 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
87326 TTAGACAGGG
*
87336 GGGAATCGGTACCCCCTGGA
1 GGGAATCTGTACCCCCTGGA
87356 GGGAATCTGTACCCCCTGTG-
1 GGGAATCTGTACCCCCTG-GA
*
87376 GGGAATATGTA-CCCCTGGA
1 GGGAATCTGTACCCCCTGGA
87395 CAATATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 27 0.77
21 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.20
Consensus pattern (20 bp):
GGGAATCTGTACCCCCTGGA
Found at i:89426 original size:21 final size:20
Alignment explanation
Indices: 89372--89427 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
89362 GTATCTCTTG
*
89372 TACAAAGGGGGTCATAGTCA
1 TACAAAGGGGGTCTTAGTCA
* * *
89392 TGCACAGGGTGGTCTTGGTCA
1 TACAAAGGG-GGTCTTAGTCA
89413 TACATAAGGGGGTCT
1 TACA-AAGGGGGTCT
89428 CGGGCAGCCC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.25
21 17 0.61
22 4 0.14
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (20 bp):
TACAAAGGGGGTCTTAGTCA
Found at i:91239 original size:2 final size:2
Alignment explanation
Indices: 91232--91264 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
91222 AGTATTCTTA
91232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91265 AACTAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94706 original size:2 final size:2
Alignment explanation
Indices: 94699--94732 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94689 TGCCAAAGGT
94699 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
94733 ATGTGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.