Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008884.1 Hibiscus syriacus cultivar Beakdansim tig00112130_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: 397847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:547 original size:12 final size:12
Alignment explanation
Indices: 530--554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
520 TCTTCGGGGA
530 CTTTTTCTTCTT
1 CTTTTTCTTCTT
542 CTTTTTCTTCTT
1 CTTTTTCTTCTT
554 C
1 C
555 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:758 original size:23 final size:23
Alignment explanation
Indices: 725--769 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
715 CTGAAACATC
725 ATCAAAATCCGTG-TATTGACCAT
1 ATCAAAATCCG-GATATTGACCAT
*
748 ATCAAAGTCCGGATATTGACCA
1 ATCAAAATCCGGATATTGACCA
770 AGACCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (23 bp):
ATCAAAATCCGGATATTGACCAT
Found at i:1675 original size:20 final size:20
Alignment explanation
Indices: 1457--1685 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
1447 AAATTTCAGT
* * *
1457 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
1477 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCGC
* *
1497 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1517 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1537 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1557 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1577 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1597 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1617 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1637 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1657 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
*
1677 GTTGTGATT
1 GTTGCGATT
1686 CTGGAAAATC
Statistics
Matches: 186, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 185 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:6296 original size:35 final size:34
Alignment explanation
Indices: 6211--6297 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
6201 ATTTGGTATT
*
6211 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
*
6245 TAAATGATAATC-AAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAA-CAAAATTACAATAA--GA-ATTAAATGG
6283 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
6298 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:6818 original size:27 final size:27
Alignment explanation
Indices: 6780--6841 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
6770 GCCTCCAGGA
6780 GGGGTCATCTGTGATGGTGGCGGCGGC
1 GGGGTCATCTGTGATGGTGGCGGCGGC
6807 GGGGTCATCTGTGATGGTGGCGGCGGC
1 GGGGTCATCTGTGATGGTGGCGGCGGC
*
6834 AGGGTCAT
1 GGGGTCAT
6842 AAAACCAGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.18, G:0.50, T:0.23
Consensus pattern (27 bp):
GGGGTCATCTGTGATGGTGGCGGCGGC
Found at i:8642 original size:17 final size:18
Alignment explanation
Indices: 8599--8639 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8589 GAATTATATT
8599 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
8616 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
8634 ATTAAA
1 AGTAAA
8640 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:10425 original size:20 final size:21
Alignment explanation
Indices: 10380--10426 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
10370 CTCTCGATAT
*
10380 TCTTTATGTCTTTTTATTTTC
1 TCTTTATGTCTTTTTATATTC
10401 T-TTTAT-T-TTTTTATAATTC
1 TCTTTATGTCTTTTTAT-ATTC
10420 TCTTTAT
1 TCTTTAT
10427 AATGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 5 0.22
20 10 0.43
21 1 0.04
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (21 bp):
TCTTTATGTCTTTTTATATTC
Found at i:13135 original size:2 final size:2
Alignment explanation
Indices: 13128--13157 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13118 TGATTTCTCT
13128 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
13158 CATAAAAACT
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:19307 original size:23 final size:23
Alignment explanation
Indices: 19280--19334 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
19270 ATATATGATA
*
19280 AATTATATGCTAAAGATTTATGG
1 AATTATATGCTAAAGATCTATGG
19303 AATTATATGCTAAAGATCTATGG
1 AATTATATGCTAAAGATCTATGG
**
19326 GGTTATATG
1 AATTATATG
19335 AAAAGGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
AATTATATGCTAAAGATCTATGG
Found at i:20203 original size:23 final size:23
Alignment explanation
Indices: 20173--20240 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
20163 ATTATTATAT
20173 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
20196 GGCACTCCGGTGCAAGTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
20219 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
20241 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:20292 original size:16 final size:17
Alignment explanation
Indices: 20271--20303 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20261 TGCACAACCT
20271 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
20287 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
20304 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:24635 original size:23 final size:23
Alignment explanation
Indices: 24608--24662 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
24598 ATATATGATA
*
24608 AATTATATGCTAAAGATTTATGG
1 AATTATATGCTAAAGATCTATGG
24631 AATTATATGCTAAAGATCTATGG
1 AATTATATGCTAAAGATCTATGG
**
24654 GGTTATATG
1 AATTATATG
24663 AAAAGGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
AATTATATGCTAAAGATCTATGG
Found at i:25578 original size:23 final size:23
Alignment explanation
Indices: 25544--25611 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
25534 ATTATTATAT
*
25544 GGCACTCTGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
25567 GGCACTCCGGTGCAAGTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
25590 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
25612 AGCTATGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:25663 original size:16 final size:17
Alignment explanation
Indices: 25642--25674 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25632 TGCACAACCT
25642 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
25658 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
25675 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:30022 original size:23 final size:23
Alignment explanation
Indices: 29995--30049 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
29985 ATATATGATA
29995 AATTATATGCTAAAGATCTATGG
1 AATTATATGCTAAAGATCTATGG
30018 AATTATATGCTAAAGATCTATGG
1 AATTATATGCTAAAGATCTATGG
**
30041 GGTTATATG
1 AATTATATG
30050 AAAAGGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (23 bp):
AATTATATGCTAAAGATCTATGG
Found at i:30880 original size:105 final size:105
Alignment explanation
Indices: 30692--30899 Score: 290
Period size: 105 Copynumber: 2.0 Consensus size: 105
30682 GAGTCGAGGG
* * * * *
30692 TCTATGCGGTCCTTCGGGACATATAGGTATTCTATGGAACATCTATGAGGTCTTTTGCGACACAT
1 TCTACGCGGTCCTTCGGGACATATAGATATTCTATGGAACATCTATGAAGTCTTGTGAGACACAT
* * *
30757 ATTTGGTCCTTAGCATATGTATATGATTCTTAAGGAATTT
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTT
* * * * *
30797 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGTGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATAGATATTCTATGGAACATCTATGAAGTCTTGTGAGACACAT
*
30862 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAAT
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAAT
30900 GATATGTGGT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 89 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (105 bp):
TCTACGCGGTCCTTCGGGACATATAGATATTCTATGGAACATCTATGAAGTCTTGTGAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTT
Found at i:30929 original size:105 final size:104
Alignment explanation
Indices: 30697--30929 Score: 254
Period size: 105 Copynumber: 2.2 Consensus size: 104
30687 GAGGGTCTAT
* ** * * * *
30697 GCGGTCCTTCGGGACATATAGGTATTCTATGGAACATCTATGAGGTCTTTTGCGACACATATTTG
1 GCGGTCCTTAGGGACATATATATATTCTATGGAACATCTATGAAGTCTTGTGAGACACATACTTG
* * **
30762 GTCCTTAGCATATGTATATGATTCTTAAGGAATTTTCTAC
66 ATCCCTAGCATATGTATATGATTCTTAAGGAA-TTGATAC
* * * * *
30802 GCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGTGAGACACATACTTG
1 GCGGTCCTTAGGGACATATATATATTCTATGGAACATCTATGAAGTCTTGTGAGACACATACTTG
* *
30867 ATCCCTAGTATATGTATATGATTCTTAAGGAA-TGATAT
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATTGATAC
* *
30905 GTGGTCCTTATGGACAT-TATTATAT
1 GCGGTCCTTAGGGACATATA-TATAT
30930 GGCACTCCGG
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
102 2 0.02
103 21 0.20
105 84 0.79
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (104 bp):
GCGGTCCTTAGGGACATATATATATTCTATGGAACATCTATGAAGTCTTGTGAGACACATACTTG
ATCCCTAGCATATGTATATGATTCTTAAGGAATTGATAC
Found at i:30960 original size:23 final size:23
Alignment explanation
Indices: 30930--30997 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
30920 ATTATTATAT
30930 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
30953 GGCACTCCGGTGCAAGTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
30976 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
30998 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:41750 original size:31 final size:31
Alignment explanation
Indices: 41715--41776 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
41705 ATGAAATAAT
41715 CAAATAGAATTAAATCCAGATATGAATTCGA
1 CAAATAGAATTAAATCCAGATATGAATTCGA
41746 CAAATAGAATTAAATCCAGATATGAATTCGA
1 CAAATAGAATTAAATCCAGATATGAATTCGA
41777 TATTTCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (31 bp):
CAAATAGAATTAAATCCAGATATGAATTCGA
Found at i:46957 original size:4 final size:4
Alignment explanation
Indices: 46940--47160 Score: 334
Period size: 4 Copynumber: 55.2 Consensus size: 4
46930 ATGAAACGTG
* ** * *
46940 CATA CATA CCTA CATA CATA TGTA CATA CGTA CATA CGTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
46988 TATA CATA CATA AATA AATA CATA CGTA CGTA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
47036 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
47084 CATA CATA CATA CATA CATA TATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
47132 CATA CATA CATA CATA CATA CGTA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
47161 GTACGTACGT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 197 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:49043 original size:3 final size:3
Alignment explanation
Indices: 49035--49080 Score: 74
Period size: 3 Copynumber: 14.7 Consensus size: 3
49025 TTTTTATCCA
49035 TAT TAT TAT TAT CCTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
49081 AATATATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 38 0.93
5 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49092 original size:11 final size:11
Alignment explanation
Indices: 49076--49107 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
49066 TTATTATTAT
49076 TATTAAATATA
1 TATTAAATATA
49087 TATTAAATATA
1 TATTAAATATA
49098 TATATAAATA
1 TAT-TAAATA
49108 ATAATTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:61905 original size:19 final size:20
Alignment explanation
Indices: 61881--61918 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
61871 TTATGCTTGA
61881 AGAAAAAAAGAAA-AAAAAT
1 AGAAAAAAAGAAAGAAAAAT
61900 AGAAAAAAAGAAAGAAAAA
1 AGAAAAAAAGAAAGAAAAA
61919 AAATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AGAAAAAAAGAAAGAAAAAT
Found at i:61915 original size:23 final size:24
Alignment explanation
Indices: 61883--61936 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
61873 ATGCTTGAAG
*
61883 AAAA-AAAGAAAAAAAATAGAA-A
1 AAAAGAAAGAAAAAAAATAAAATA
61905 AAAAGAAAGAAAAAAAATAAAATA
1 AAAAGAAAGAAAAAAAATAAAATA
61929 AAAAGAAA
1 AAAAGAAA
61937 AAGAAAGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAATAAAATA
Found at i:63266 original size:105 final size:105
Alignment explanation
Indices: 63084--63276 Score: 377
Period size: 105 Copynumber: 1.8 Consensus size: 105
63074 TGAATTTGCC
63084 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
*
63149 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTT
66 TTGGAAGATGAATTTGCTAATAGTAGAAATAAGGAGACTT
63189 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
63254 TTGGAAGATGAATTTGCTAATAG
66 TTGGAAGATGAATTTGCTAATAG
63277 CATCTTCTGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (105 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
TTGGAAGATGAATTTGCTAATAGTAGAAATAAGGAGACTT
Found at i:63327 original size:83 final size:83
Alignment explanation
Indices: 63188--63359 Score: 319
Period size: 83 Copynumber: 2.1 Consensus size: 83
63178 TAAGGAGACT
63188 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
63253 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
63271 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
63335 ATTTGGAAGATGAATTTGC
65 ATTTGGAAGATGAATTTGC
*
63354 TCATAG
1 TAATAG
63360 TAGAAATAAG
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
83 83 0.95
84 4 0.05
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTGGAAGATGAATTTGC
Found at i:63384 original size:188 final size:188
Alignment explanation
Indices: 63067--63547 Score: 919
Period size: 188 Copynumber: 2.6 Consensus size: 188
63057 AAACATTAAC
*
63067 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
63132 AGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGCAT
66 AGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGCAT
63197 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
131 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
63255 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGA
63319 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGCA
65 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGCA
63384 TCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
130 TCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
63443 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
63508 AGAACCAATAATTGAATTTGGAAGATGAATTTGCTAATAG
66 AGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAG
63548 CATCTTCTGG
Statistics
Matches: 288, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
187 4 0.01
188 280 0.97
189 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (188 bp):
TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGCAT
CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
Found at i:63453 original size:105 final size:105
Alignment explanation
Indices: 63271--63464 Score: 363
Period size: 105 Copynumber: 1.8 Consensus size: 105
63261 ATGAATTTGC
63271 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
*
63336 TTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACT
66 TTTGGAAGATGAATTTGCTAATAGTAGAAATAAGGAGACT
63376 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGA
63440 ATTTGGAAGATGAATTTGCTAATAG
65 ATTTGGAAGATGAATTTGCTAATAG
63465 CATCTTCTGG
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
104 4 0.05
105 83 0.95
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (105 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
TTTGGAAGATGAATTTGCTAATAGTAGAAATAAGGAGACT
Found at i:63515 original size:83 final size:83
Alignment explanation
Indices: 63376--63630 Score: 476
Period size: 83 Copynumber: 3.1 Consensus size: 83
63366 TAAGGAGACT
63376 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
63441 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
*
63459 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATAATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
63524 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
63542 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
63606 ATTTGGAAGATGAATTTGC
65 ATTTGGAAGATGAATTTGC
*
63625 TCATAG
1 TAATAG
63631 TAGAAATAAG
Statistics
Matches: 168, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
83 164 0.98
84 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (83 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTGGAAGATGAATTTGC
Found at i:63550 original size:271 final size:271
Alignment explanation
Indices: 63188--63691 Score: 990
Period size: 271 Copynumber: 1.9 Consensus size: 271
63178 TAAGGAGACT
*
63188 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATAATTGAA
63253 TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
66 TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
*
63318 GCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTAATAGC
131 GCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
63383 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAA
196 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAA
63448 GATGAATTTGC
261 GATGAATTTGC
63459 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATAATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATAATTGAA
63524 TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
66 TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
63589 GCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
131 GCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
63654 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
196 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
63692 TGGTAGGAAC
Statistics
Matches: 231, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
271 231 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (271 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATAATTGAA
TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
GCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAA
GATGAATTTGC
Found at i:64816 original size:225 final size:225
Alignment explanation
Indices: 64425--64865 Score: 828
Period size: 225 Copynumber: 2.0 Consensus size: 225
64415 GATTCAAATC
*
64425 CATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
64490 ATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGAGTA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGAGTA
*
64555 GCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
131 GCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
64620 GAAGAACTTGTTCAACCTTTTACCTGAATT
196 GAAGAACTTGTTCAACCTTTTACCTGAATT
*
64650 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
64715 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGAGTA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGAGTA
64780 GCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
131 GCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
*
64845 GAAGAACTTGTTCAACTTTTT
196 GAAGAACTTGTTCAACCTTTT
64866 GCATAATTCT
Statistics
Matches: 210, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
225 210 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (225 bp):
CATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGAGTA
GCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
GAAGAACTTGTTCAACCTTTTACCTGAATT
Found at i:64880 original size:112 final size:113
Alignment explanation
Indices: 64425--64865 Score: 782
Period size: 112 Copynumber: 3.9 Consensus size: 113
64415 GATTCAAATC
* *
64425 CATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
64490 ATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
64538 CATCACTTGATGGAGT-AGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCACTTGATGGA-TCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
64601 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
64650 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
64715 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
64763 CATCACTTGATGGAGT-AGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCACTTGATGGA-TCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* *
64826 AAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
64866 GCATAATTCT
Statistics
Matches: 318, Mismatches: 6, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
111 1 0.00
112 180 0.57
113 135 0.42
114 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATT
Found at i:65193 original size:3 final size:3
Alignment explanation
Indices: 65187--65250 Score: 101
Period size: 3 Copynumber: 20.7 Consensus size: 3
65177 TTTTTATCCA
*
65187 TAT TAT TAT TAT CCTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65234 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
65251 AATATATATT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
3 54 0.95
5 3 0.05
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:65262 original size:11 final size:11
Alignment explanation
Indices: 65246--65277 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
65236 TTATTATTAT
65246 TATTAAATATA
1 TATTAAATATA
65257 TATTAAATATA
1 TATTAAATATA
65268 TATATAAATA
1 TAT-TAAATA
65278 ATAATTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:70161 original size:18 final size:18
Alignment explanation
Indices: 70140--70176 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70130 ATCTTTATTT
*
70140 ATTTAATCTCTTTTTACC
1 ATTTAATCTCATTTTACC
*
70158 ATTTAATTTCATTTTACC
1 ATTTAATCTCATTTTACC
70176 A
1 A
70177 AACCCCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAATCTCATTTTACC
Found at i:91854 original size:27 final size:27
Alignment explanation
Indices: 91818--91906 Score: 169
Period size: 27 Copynumber: 3.3 Consensus size: 27
91808 GTATCCGACC
*
91818 CCTGTGTTTGCTACAAAGCAACACTGA
1 CCTGTGTTTGCTACAAAGCAACACGGA
91845 CCTGTGTTTGCTACAAAGCAACACGGA
1 CCTGTGTTTGCTACAAAGCAACACGGA
91872 CCTGTGTTTGCTACAAAGCAACACGGA
1 CCTGTGTTTGCTACAAAGCAACACGGA
91899 CCTGTGTT
1 CCTGTGTT
91907 CTAACACTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (27 bp):
CCTGTGTTTGCTACAAAGCAACACGGA
Found at i:95555 original size:8 final size:8
Alignment explanation
Indices: 95542--95625 Score: 123
Period size: 8 Copynumber: 10.5 Consensus size: 8
95532 CCTGAAATAC
95542 ATATATAT
1 ATATATAT
95550 ATATATAT
1 ATATATAT
95558 ATATATAT
1 ATATATAT
95566 ATATATAT
1 ATATATAT
95574 ATATATAT
1 ATATATAT
*
95582 ATATATGT
1 ATATATAT
*
95590 ATATATGT
1 ATATATAT
*
95598 ATATATGT
1 ATATATAT
*
95606 ATATATGT
1 ATATATAT
*
95614 ATATATGT
1 ATATATAT
95622 ATAT
1 ATAT
95626 TCATTTATTT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
8 75 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (8 bp):
ATATATAT
Found at i:99315 original size:2 final size:2
Alignment explanation
Indices: 99308--99339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
99298 ATATTTAAAA
99308 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
99340 GATAGAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101498 original size:2 final size:2
Alignment explanation
Indices: 101491--101517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
101481 AGTCTACTTA
101491 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
101518 CCCAAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102803 original size:59 final size:60
Alignment explanation
Indices: 102700--102812 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
102690 TCGAGTGACT
* ** * *
102700 ATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGTATCTATC-TATAGTCGGATGATC
1 ATTTTATAACTTTTAATAGTAAGAGACTCAACAAAATATATATCTTATAGTCGGATGATC
*
102759 ATTTTATAACTTTTAATAGTTAAGAGATTCAACAAAATA-ATATCTTATAGTCGG
1 ATTTTATAACTTTTAATAG-TAAGAGACTCAACAAAATATATATCTTATAGTCGG
102813 TGAACAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 22 0.48
60 24 0.52
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTAAGAGACTCAACAAAATATATATCTTATAGTCGGATGATC
Found at i:108008 original size:15 final size:15
Alignment explanation
Indices: 107988--108017 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
107978 TGCATGAACT
107988 GTTTTCAGTTTCATA
1 GTTTTCAGTTTCATA
108003 GTTTTCAGTTTCATA
1 GTTTTCAGTTTCATA
108018 TATCATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
GTTTTCAGTTTCATA
Found at i:113783 original size:33 final size:30
Alignment explanation
Indices: 113740--113815 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
113730 TATTAAGGTA
* * *
113740 TATTTTATTATATTTAGTATTTTTTTAGTAATT
1 TATTTAATTATATTTA--A-TTGTTTAATAATT
*
113773 TATTTAATTAT-TTTAATTGTTTAATATTT
1 TATTTAATTATATTTAATTGTTTAATAATT
113802 TATTTAATTA-ATTT
1 TATTTAATTATATTT
113816 TTTTTTGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 23 0.61
30 1 0.03
32 4 0.11
33 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (30 bp):
TATTTAATTATATTTAATTGTTTAATAATT
Found at i:119025 original size:15 final size:15
Alignment explanation
Indices: 119005--119039 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
118995 CCGTAGGACC
119005 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
119020 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
119035 ACTAC
1 ACTAC
119040 AATACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:119589 original size:20 final size:20
Alignment explanation
Indices: 119560--119598 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
119550 TTTTTCCTTT
*
119560 AGGGGGAATCGATACCCCCC
1 AGGGGAAATCGATACCCCCC
119580 AGGGGAAATCGATACCCCC
1 AGGGGAAATCGATACCCCC
119599 TGGGCATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.28, T:0.10
Consensus pattern (20 bp):
AGGGGAAATCGATACCCCCC
Found at i:126364 original size:20 final size:21
Alignment explanation
Indices: 126339--126378 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
126329 TTTTTCCTTT
126339 AGGGGG-AATCGATACCCCCC
1 AGGGGGAAATCGATACCCCCC
126359 AGGGGGAAATCGATACCCCC
1 AGGGGGAAATCGATACCCCC
126379 TGGACATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.28, C:0.33, G:0.30, T:0.10
Consensus pattern (21 bp):
AGGGGGAAATCGATACCCCCC
Found at i:136574 original size:44 final size:44
Alignment explanation
Indices: 136499--136584 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
136489 CTTGTTTCCC
* * * * *
136499 TCACTCTAGTTATGACTAATGGACGTGTTTATGAATTTAGTACT
1 TCACTCTAGTGATCACTAATAGACATGTTTATGAATTGAGTACT
* *
136543 TCACTCTAGTGATCACTAATATACATTTTTATGAATTGAGTA
1 TCACTCTAGTGATCACTAATAGACATGTTTATGAATTGAGTA
136585 GTTCTTTGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (44 bp):
TCACTCTAGTGATCACTAATAGACATGTTTATGAATTGAGTACT
Found at i:139972 original size:2 final size:2
Alignment explanation
Indices: 139967--139993 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
139957 ATTTTTTTGT
139967 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 T
139994 TAAAGGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144583 original size:14 final size:14
Alignment explanation
Indices: 144564--144590 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
144554 TGTCTTTGTA
144564 ATAAACCCTAAACT
1 ATAAACCCTAAACT
144578 ATAAACCCTAAAC
1 ATAAACCCTAAAC
144591 CCTAAATTAT
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:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:144668 original size:7 final size:7
Alignment explanation
Indices: 144656--144701 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
144646 GTCTTTATAA
144656 TAAACCC
1 TAAACCC
144663 TAAACCC
1 TAAACCC
**
144670 TAAACTA
1 TAAACCC
*
144677 TAAACTC
1 TAAACCC
144684 TAAACCC
1 TAAACCC
144691 TAAACCC
1 TAAACCC
144698 TAAA
1 TAAA
144702 TATAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:144680 original size:14 final size:14
Alignment explanation
Indices: 144663--144706 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
144653 TAATAAACCC
144663 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* **
144677 TAAACTCTAAACCC
1 TAAACCCTAAACTA
144691 TAAACCCTAAA-TA
1 TAAACCCTAAACTA
144704 TAA
1 TAA
144707 TTATATGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:144680 original size:21 final size:21
Alignment explanation
Indices: 144655--144695 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
144645 TGTCTTTATA
144655 ATAAACCCTAAACCCTAAACT
1 ATAAACCCTAAACCCTAAACT
*
144676 ATAAACTCTAAACCCTAAAC
1 ATAAACCCTAAACCCTAAAC
144696 CCTAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAACCCTAAACCCTAAACT
Found at i:146641 original size:11 final size:11
Alignment explanation
Indices: 146625--146662 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
146615 GTGAGCACTC
146625 GAGCTTGAATT
1 GAGCTTGAATT
146636 GAGCTTGAATT
1 GAGCTTGAATT
* *
146647 GAGTTTGAAAT
1 GAGCTTGAATT
146658 GAGCT
1 GAGCT
146663 CTTGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (11 bp):
GAGCTTGAATT
Found at i:146889 original size:15 final size:16
Alignment explanation
Indices: 146862--146914 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
146852 AAACCCATTT
*
146862 TAAACTAAAAAAATTA
1 TAAAATAAAAAAATTA
146878 TAAAATAAAAAAATTA
1 TAAAATAAAAAAATTA
146894 TAAAAGT--AAAAATTA
1 TAAAA-TAAAAAAATTA
146909 TAAAAT
1 TAAAAT
146915 TAATTTAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 1 0.03
15 13 0.37
16 20 0.57
17 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAATTA
Found at i:146913 original size:8 final size:8
Alignment explanation
Indices: 146871--146916 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
146861 TTAAACTAAA
146871 AAAATTAT
1 AAAATTAT
* *
146879 AAAATAAA
1 AAAATTAT
146887 AAAATTAT
1 AAAATTAT
*
146895 AAAAGTA-
1 AAAATTAT
146902 AAAATTAT
1 AAAATTAT
146910 AAAATTA
1 AAAATTA
146917 ATTTAGTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAATTAT
Found at i:149811 original size:31 final size:32
Alignment explanation
Indices: 149750--149813 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
149740 TGGATATTGT
149750 TGAATTATATTTTTAATATATAAATGATTTTA
1 TGAATTATATTTTTAATATATAAATGATTTTA
* *
149782 TGAACTTATA-TTTT-ATCTATAAATTATTTTA
1 TGAA-TTATATTTTTAATATATAAATGATTTTA
149813 T
1 T
149814 AGTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.55
32 8 0.28
33 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (32 bp):
TGAATTATATTTTTAATATATAAATGATTTTA
Found at i:150297 original size:20 final size:20
Alignment explanation
Indices: 150267--150308 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
150257 AATTTTTCTT
*
150267 TTTTATAAATTAGTTCTTAAA
1 TTTTATAAATTAATT-TTAAA
150288 TTTT-TAAATTAATTTTAAA
1 TTTTATAAATTAATTTTAAA
150307 TT
1 TT
150309 AATCCCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATAAATTAATTTTAAA
Found at i:155299 original size:126 final size:127
Alignment explanation
Indices: 155005--155531 Score: 941
Period size: 127 Copynumber: 4.2 Consensus size: 127
154995 GTACTATTAA
*
155005 CGTGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTT-TCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
* *
155069 TATTATGTCACTTATGTCCCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* *
155131 CGTGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTATCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
* * *
155196 TATTATGTCACTTATATCCCCCGGGATCTATTCATGTCAATACCTATTATTCCTGAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
155258 CGTGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
155322 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* * *
155384 CGTGAAAGCGCGTTCCCGGGGGGGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
155449 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
155511 CGTGAAGGCGCGTTCCCGGGG
1 CGTGAAGGCGCGTTCCCGGGG
155532 ACGAGTTCCT
Statistics
Matches: 384, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
126 174 0.45
127 210 0.55
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (127 bp):
CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
Found at i:155453 original size:253 final size:253
Alignment explanation
Indices: 155005--155531 Score: 948
Period size: 253 Copynumber: 2.1 Consensus size: 253
154995 GTACTATTAA
*
155005 CGTGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTTCATTACCCT
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTTCATTACCCT
155070 ATTATGTCACTTATGTCCCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGACCGTG
66 ATTATGTCACTTATGTCCCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGACCGTG
* * *
155135 AAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTATCCTATT
131 AAAGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
*
155200 ATGTCACTTATATCCCCCGGGATCTATTCATGTCAATACCTATTATTCCTGAGGGGAC
196 ATGTCACTTATATCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTGAGGGGAC
155258 CGTGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTT-TCATTACCC
* *
155322 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
65 TATTATGTCACTTATGTCCCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGACCGT
*
155387 GAAAGCGCGTTCCCGGGGGGGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTAT
130 GAAAGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTAT
* *
155452 TATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
195 TATGTCACTTATATCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTGAGGGGAC
155511 CGTGAAGGCGCGTTCCCGGGG
1 CGTGAAGGCGCGTTCCCGGGG
155532 ACGAGTTCCT
Statistics
Matches: 263, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
252 32 0.12
253 231 0.88
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (253 bp):
CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTTCATTACCCT
ATTATGTCACTTATGTCCCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGACCGTG
AAAGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
ATGTCACTTATATCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTGAGGGGAC
Found at i:155993 original size:34 final size:33
Alignment explanation
Indices: 155955--156055 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 33
155945 GAATTTAATG
155955 TTAAATTCTGAATACTATAATTTATATTTTAAAT
1 TTAAATT-TGAATACTATAATTTATATTTTAAAT
* * * *
155989 TTAAATTTTGAATAATATTATTTGTATTTTAATT
1 TTAAA-TTTGAATACTATAATTTATATTTTAAAT
*
156023 TTAAATTTCGAATACTATAATTTTTATTTTAAA
1 TTAAATTT-GAATACTATAATTTATATTTTAAA
156056 AACATTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
33 3 0.05
34 52 0.91
35 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (33 bp):
TTAAATTTGAATACTATAATTTATATTTTAAAT
Found at i:156625 original size:20 final size:21
Alignment explanation
Indices: 156576--156626 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
156566 TATGGTATAA
*
156576 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
156597 AACCCTGCGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
156618 AA-CCTGCGG
1 AACCCTGCGG
156627 AGATGACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:158473 original size:35 final size:34
Alignment explanation
Indices: 158434--158519 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 34
158424 AAATTTAAAT
*
158434 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAA-ATTATATTAATAAAAA
* *
158469 AAATAAT-ATT-TATATAATTATATTAATATAAA
1 AAATAATAATTATATAAAATTATATTAATAAAAA
* * *
158501 ATATAATAACTATTTAAAA
1 AAATAATAATTATATAAAA
158520 AAATAACTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 20 0.48
33 7 0.17
34 8 0.19
35 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (34 bp):
AAATAATAATTATATAAAATTATATTAATAAAAA
Found at i:158475 original size:32 final size:32
Alignment explanation
Indices: 158406--158507 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 32
158396 TAATTAGCGC
* *
158406 AAAAAATAATTA-ATTAATA--AATTTAA-AT
1 AAAAAATAATTATATAAATATTATTTTAATAT
* *
158434 AAATAATAATTATATAAATATTATTTTAATAA
1 AAAAAATAATTATATAAATATTATTTTAATAT
* * *
158466 AAAAAATAA-TATTTATATAATTATATTAATAT
1 AAAAAATAATTATATAAAT-ATTATTTTAATAT
*
158498 AAAATATAAT
1 AAAAAATAAT
158508 AACTATTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
31 13 0.22
32 28 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AAAAAATAATTATATAAATATTATTTTAATAT
Found at i:162254 original size:2 final size:2
Alignment explanation
Indices: 162247--162275 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
162237 GACCAAAGTA
162247 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 A
162276 ATTAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164259 original size:106 final size:106
Alignment explanation
Indices: 164128--164357 Score: 424
Period size: 106 Copynumber: 2.2 Consensus size: 106
164118 TAAATACGAT
*
164128 GAATAGTATCTATACTGATTTAAGTAATATCGATACTGAAATGGGGGTATCGATACCAAGAGTAA
1 GAATAGTATCGATACTGATTTAAGTAATATCGATACTGAAATGGGGGTATCGATACCAAGAGTAA
*
164193 GGTATTGATACTATTATTGAGGATGAAATTCCATAATGCTA
66 GGTATTGATACTATTATTGAGGATGAAATTCCAGAATGCTA
*
164234 GAATAGTATCGATATTGATTTAAGTAATATCGATACTGAAATGGGGGTATCGATACCAAGAGTAA
1 GAATAGTATCGATACTGATTTAAGTAATATCGATACTGAAATGGGGGTATCGATACCAAGAGTAA
164299 GGTATTGATACTATTATTGAGGATGAAATTCCAGAATGCTA
66 GGTATTGATACTATTATTGAGGATGAAATTCCAGAATGCTA
*
164340 GAATGGTATCGATACTGA
1 GAATAGTATCGATACTGA
164358 AGTAGATATC
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 119 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (106 bp):
GAATAGTATCGATACTGATTTAAGTAATATCGATACTGAAATGGGGGTATCGATACCAAGAGTAA
GGTATTGATACTATTATTGAGGATGAAATTCCAGAATGCTA
Found at i:165001 original size:23 final size:24
Alignment explanation
Indices: 164969--165015 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
164959 TTTTACACGA
*
164969 TCCTTTGGGAC-AATTCTACGTGG
1 TCCTTCGGGACAAATTCTACGTGG
*
164992 TCCTTCGGGACAAATTCTATGTGG
1 TCCTTCGGGACAAATTCTACGTGG
165016 CACTTCTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTACGTGG
Found at i:166545 original size:21 final size:21
Alignment explanation
Indices: 166519--166592 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
166509 TATCGCAATT
166519 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
166540 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
166560 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
166581 TCGCGTTGCGAT
1 TCGCGTTGCGAT
166593 TTTCCATTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:166565 original size:20 final size:20
Alignment explanation
Indices: 166540--166651 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
166530 TAGTTGAAAA
166540 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
166560 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
166581 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
166601 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
166622 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
166642 TCGCGTTGCG
1 TCGCGTTGCG
166652 GTAGTCTACA
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.06
20 37 0.51
21 27 0.38
22 4 0.06
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:166627 original size:21 final size:21
Alignment explanation
Indices: 166601--166675 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
166591 ATTTTCCATT
166601 TCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATAGTCTACAG
* * *
166622 TCGCGTTGCGAT--TTTCCATT
1 TCGCGTTGCGATAGTCTACA-G
*
166642 TCGCGTTGCGGTAGTCTACAG
1 TCGCGTTGCGATAGTCTACAG
*
166663 TTGTCGTTGCGAT
1 TCG-CGTTGCGAT
166676 TTTCCAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 14 0.34
22 12 0.29
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCTACAG
Found at i:166663 original size:41 final size:41
Alignment explanation
Indices: 166516--166656 Score: 239
Period size: 41 Copynumber: 3.4 Consensus size: 41
166506 CACTATCGCA
166516 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
166557 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
* *
166598 ATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCC
*
166639 ATTTCGCGTTGCGGTAGT
1 ATTTCGCGTTGCGATAGT
166657 CTACAGTTGT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 95 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.37
Consensus pattern (41 bp):
ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
Found at i:166690 original size:41 final size:40
Alignment explanation
Indices: 166516--166681 Score: 201
Period size: 41 Copynumber: 4.0 Consensus size: 40
166506 CACTATCGCA
* *
166516 ATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCC
1 ATTTC-CGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCC
* *
166557 ATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCC
1 ATTTC-CGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCC
166598 ATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCC
1 ATTTC-CGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCC
* *
166639 ATTTCGCGTTGCGGTAGTCTACAGTTGTCGTTGCGATTTTCC
1 ATTTC-CGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTCC
166681 A
1 A
166682 AATTCGTTGT
Statistics
Matches: 119, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
41 103 0.87
42 16 0.13
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (40 bp):
ATTTCCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCC
Found at i:166785 original size:6 final size:6
Alignment explanation
Indices: 166774--166844 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
166764 GACACGTATT
166774 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
166822 ACC-CG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
166845 CGAGACGGAC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.31
6 45 0.69
ACGTcount: A:0.30, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:167368 original size:6 final size:6
Alignment explanation
Indices: 167337--167443 Score: 186
Period size: 6 Copynumber: 18.5 Consensus size: 6
167327 TCTCGTCTCG
167337 GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
167381 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
167429 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
167444 AATACGTGTC
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 20 0.20
6 81 0.80
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:167607 original size:41 final size:41
Alignment explanation
Indices: 167537--167671 Score: 193
Period size: 41 Copynumber: 3.3 Consensus size: 41
167527 ACAACGAATT
*
167537 TGGAAAATCGCAACGAC-AACTGTAGACTATCGCAACGGGAAA
1 TGGAAAATCGCAACG-CGAA-TGTAGACTATCGCAACGCGAAA
*
167579 TGGAAAATCGCAACGCGAATTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATGT-AGACTATCGCAACGCGAAA
* *
167620 TGAAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATGTAGACTATCGCAACGCGAAA
167661 TGGAAAATCGC
1 TGGAAAATCGC
167672 GCGAAATGGA
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
40 1 0.01
41 65 0.77
42 18 0.21
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGAATGTAGACTATCGCAACGCGAAA
Found at i:167676 original size:17 final size:17
Alignment explanation
Indices: 167654--167688 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
167644 ACTATCGCAA
167654 CGCGAAATGGAAAATCG
1 CGCGAAATGGAAAATCG
167671 CGCGAAATGGAAAATCG
1 CGCGAAATGGAAAATCG
167688 C
1 C
167689 AACGCGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.29, T:0.11
Consensus pattern (17 bp):
CGCGAAATGGAAAATCG
Found at i:167702 original size:99 final size:96
Alignment explanation
Indices: 167575--167757 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 96
167565 ATCGCAACGG
167575 GAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGACT
1 GAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAA-C-C-ACGCGACT
167640 GT-AGACTATCGCAACGCGAAATGGAAAATCGCGC
63 GTCA-ACTATCGCAACGCGAAATGGAAAATCGCGC
* * * *
167674 GAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAACCACGCGATTTTC
1 GAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAACCACGCGACTGTC
167739 AACTATCGCAACGCGAAAT
66 AACTATCGCAACGCGAAAT
167758 TTTCAACTAT
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
96 26 0.33
97 2 0.03
98 1 0.01
99 50 0.63
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (96 bp):
GAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGAAAAACCACGCGACTGTC
AACTATCGCAACGCGAAATGGAAAATCGCGC
Found at i:167723 original size:41 final size:41
Alignment explanation
Indices: 167671--167923 Score: 243
Period size: 41 Copynumber: 6.2 Consensus size: 41
167661 TGGAAAATCG
167671 CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
1 CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
167712 CGCGAAATGGAAAA-C-C-ACGCGATTTTCAACTATCGCAA
1 CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
** * ** * *
167750 CGCGAAATTTTCAACTATCGCAACGCGAAATGCAAC--GCG-AA
1 CGCGAAA--TGGAA-AATCGCAACGCGATTTTCAACTATCGCAA
* * ***
167791 TTTGCGATAATGG-AGATCGCGTTGCGA-TTTCAACTATCGCAA
1 --CGCGA-AATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
* *
167833 CGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAA
1 CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
* *
167874 CACGAAATGGAAAAACGCAACGCGATTTTCAACTATCGCAA
1 CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
*
167915 TGCGAAATG
1 CGCGAAATG
167924 CAACGTGAAT
Statistics
Matches: 168, Mismatches: 30, Indels: 28
0.74 0.13 0.12
Matches are distributed among these distances:
38 29 0.17
39 11 0.07
40 27 0.16
41 77 0.46
42 6 0.04
43 5 0.03
44 13 0.08
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
CGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAA
Found at i:167772 original size:23 final size:23
Alignment explanation
Indices: 167684--167780 Score: 97
Period size: 23 Copynumber: 4.7 Consensus size: 23
167674 GAAATGGAAA
167684 ATCGCAACGCG--ATTTTCAACT
1 ATCGCAACGCGAAATTTTCAACT
**
167705 ATCGCAACGCGAAA--TGGAA--
1 ATCGCAACGCGAAATTTTCAACT
*
167724 AAC-C-ACGCG-A-TTTTCAACT
1 ATCGCAACGCGAAATTTTCAACT
167743 ATCGCAACGCGAAATTTTCAACT
1 ATCGCAACGCGAAATTTTCAACT
167766 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
167781 GCAACGCGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 8 0.13
18 1 0.02
19 4 0.07
20 1 0.02
21 19 0.32
22 1 0.02
23 25 0.42
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (23 bp):
ATCGCAACGCGAAATTTTCAACT
Found at i:167837 original size:20 final size:20
Alignment explanation
Indices: 167814--167919 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
167804 AGATCGCGTT
*
167814 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
167834 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
167854 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * * *
167875 ACGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
167895 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
167916 GCGA
1 GCGA
167920 AATGCAACGT
Statistics
Matches: 59, Mismatches: 21, Indels: 11
0.65 0.23 0.12
Matches are distributed among these distances:
19 2 0.03
20 29 0.49
21 27 0.46
22 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:167858 original size:60 final size:59
Alignment explanation
Indices: 167624--167858 Score: 196
Period size: 58 Copynumber: 3.9 Consensus size: 59
167614 GCGAAATGAA
* *
167624 AAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCG--CGCGA-AATGG
1 AAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAA-CGCACGCGATAATGG
* **
167681 AAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAC-CACGCGAT-TTTC
1 -AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAACGCACGCGATAATGG
* ** * *
167739 AACTATCGCAACGCGAAATTTTCAACTATCGCAACGCGAAATGCAACGCGAATTTGCGATAATGG
1 AA--ATCGCAACGCG--ATTTTCAACTATCGCAACGCGAAATGGAAAACGCA--CGCGATAATGG
* ***
167804 AGATCGCGTTGCGA-TTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGAT
1 AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA-CGC-ACGCGAT
167859 CTCCAACTAT
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
57 3 0.02
58 46 0.33
59 12 0.09
60 31 0.22
61 32 0.23
62 2 0.01
63 8 0.06
64 5 0.04
65 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (59 bp):
AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAACGCACGCGATAATGG
Found at i:167927 original size:21 final size:21
Alignment explanation
Indices: 167562--167927 Score: 142
Period size: 21 Copynumber: 18.1 Consensus size: 21
167552 ACAACTGTAG
* *
167562 ACTATCGCAACGGGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
167583 A-AATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGCA
167603 ACTATCGCAACGCGAAATG-A
1 ACTATCGCAACGCGAAATGCA
** * *
167623 AAAATCGCAACGCG-ACTGTA
1 ACTATCGCAACGCGAAATGCA
*
167643 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* *
167665 A-AATCG---CGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
167682 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
167702 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
167723 A--AAC-C-ACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
167740 ACTATCGCAACGCGAAATTTTCA
1 ACTATCGCAACGCGAAA--TGCA
167763 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
* * *
167784 AC--GCG-AATTTGCGATAATG-G
1 ACTATCGCAA--CGCGA-AATGCA
* *** * *
167804 A-GATCGCGTTGCG-ATTTCA
1 ACTATCGCAACGCGAAATGCA
*
167823 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
167844 A-AATCGCAACGCGATCTCCA
1 ACTATCGCAACGCGAAATGCA
* *
167864 ACTATCGCAACACGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
167885 A-AAACGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
167905 ACTATCGCAATGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
167926 AC
1 AC
167928 GTGAATTTGC
Statistics
Matches: 246, Mismatches: 74, Indels: 50
0.66 0.20 0.14
Matches are distributed among these distances:
17 26 0.11
18 5 0.02
19 10 0.04
20 87 0.35
21 93 0.38
22 4 0.02
23 21 0.09
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:169410 original size:2 final size:2
Alignment explanation
Indices: 169403--169427 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
169393 TCTCTACTCA
169403 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
169428 CTTCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:172979 original size:43 final size:45
Alignment explanation
Indices: 172918--173002 Score: 138
Period size: 43 Copynumber: 1.9 Consensus size: 45
172908 TCCATGTCAA
172918 CATAGTTGTTCGAATTTGGATC-TTTT-AGAGAACAATATTTCAC
1 CATAGTTGTTCGAATTTGGATCTTTTTAAGAGAACAATATTTCAC
*
172961 CATAGTTGTTTGAATTTGGATCTTTTTAGAGAGAACAATATT
1 CATAGTTGTTCGAATTTGGATCTTTTTA-AGAGAACAATATT
173003 ATCTATTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
43 21 0.55
44 4 0.11
46 13 0.34
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (45 bp):
CATAGTTGTTCGAATTTGGATCTTTTTAAGAGAACAATATTTCAC
Found at i:182613 original size:19 final size:20
Alignment explanation
Indices: 182559--182613 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 20
182549 AATTTTATCT
*
182559 TAATTTAAAATAATTTAATAA
1 TAATTTAATA-AATTTAATAA
182580 -ATATTTAAT--ATTTAA-AA
1 TA-ATTTAATAAATTTAATAA
182597 TAATTTAATAAATTTAA
1 TAATTTAATAAATTTAA
182614 CCTTTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 6 0.21
20 1 0.03
21 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTTAATAAATTTAATAA
Found at i:186659 original size:24 final size:24
Alignment explanation
Indices: 186632--186682 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
186622 TGGGTAGTGT
186632 ATCGATGCACATGTTAAAGGATAC
1 ATCGATGCACATGTTAAAGGATAC
*
186656 ATCGATGCACATGTTAAAGGATGC
1 ATCGATGCACATGTTAAAGGATAC
186680 ATC
1 ATC
186683 AATACACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
ATCGATGCACATGTTAAAGGATAC
Found at i:189217 original size:17 final size:16
Alignment explanation
Indices: 189195--189228 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
189185 TAAAAACAGT
189195 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
189212 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
189228 A
1 A
189229 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:189746 original size:24 final size:24
Alignment explanation
Indices: 189702--189748 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
189692 ATAAAGAACC
*
189702 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
189726 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
189749 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:193094 original size:20 final size:19
Alignment explanation
Indices: 193046--193094 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
193036 AAGAAAGAGA
* *
193046 AAAGGTAAAAGTTAAAATG
1 AAAGATAAAAATTAAAATG
*
193065 AAAGAGAAAAATTAATAATG
1 AAAGATAAAAATTAA-AATG
*
193085 AAATATAAAA
1 AAAGATAAAA
193095 GAAAAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.20
Consensus pattern (19 bp):
AAAGATAAAAATTAAAATG
Found at i:199457 original size:17 final size:16
Alignment explanation
Indices: 199435--199468 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
199425 TAAAAACAGT
199435 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
199452 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
199468 A
1 A
199469 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:199987 original size:24 final size:24
Alignment explanation
Indices: 199943--199989 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
199933 ATAAAGAACC
*
199943 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
199967 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
199990 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:202911 original size:107 final size:107
Alignment explanation
Indices: 202725--203133 Score: 513
Period size: 107 Copynumber: 3.8 Consensus size: 107
202715 TAAAGCGACA
* * * * * * *
202725 TCGATGGTTAAGAGATTTATTGTTATCTTTTAAGGTCTCGAGTTTGAGCACTAGGTATACTAGAT
1 TCGATGGTTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAGTTCGAGCACCAGGTATACCAGAT
* *
202790 GTATGAGCGTTCATTGTTAAAGGGTTGAACGTCCTTGAACTC
66 GTATGAGCATTCATTGTTAAAAGGTTGAACGTCCTTGAACTC
* *
202832 TCGATGGTTAAGAGATTTGTTGTTATCTCTTGAGATGTCG-GATTCGAGTACCAGGTATACCAGA
1 TCGATGGTTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAG-TTCGAGCACCAGGTATACCAGA
*
202896 TGTATGAGCATTCATTGTCAAAAGGTTGAACGTCCTTGAACTC
65 TGTATGAGCATTCATTGTTAAAAGGTTGAACGTCCTTGAACTC
* * * * * *
202939 ACGGTGGCTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAGTTCGAGCATCGGGTATACCAGAG
1 TCGATGGTTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAGTTCGAGCACCAGGTATACCAGAT
* *
203004 GTATGAGCATTCATT-TTCAAAATGTTGAAAGTCCTTGAACTC
66 GTATGAGCATTCATTGTT-AAAAGGTTGAACGTCCTTGAACTC
* * *
203046 T-TAGTGATTAAGAGATTTGTTGTTATCTCTTGAGATCTCGGGTTCGAGCACC-GAGTATACCAG
1 TCGA-TGGTTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAGTTCGAGCACCAG-GTATACCA-
* *
203109 GA-GTATGAGCGTTCATTGTCAAAAG
63 GATGTATGAGCATTCATTGTTAAAAG
203134 ATTAAAATTC
Statistics
Matches: 262, Mismatches: 33, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
106 3 0.01
107 255 0.97
108 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (107 bp):
TCGATGGTTAAGAGATTTGTTGTTATCTCTTGAGATCTCGAGTTCGAGCACCAGGTATACCAGAT
GTATGAGCATTCATTGTTAAAAGGTTGAACGTCCTTGAACTC
Found at i:208144 original size:12 final size:13
Alignment explanation
Indices: 208127--208155 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
208117 ATTTGTTTAA
208127 GAAATT-ATTTTT
1 GAAATTGATTTTT
208139 GAAATTGATTTTT
1 GAAATTGATTTTT
208152 GAAA
1 GAAA
208156 AACTTACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
GAAATTGATTTTT
Found at i:208191 original size:31 final size:31
Alignment explanation
Indices: 208153--208232 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
208143 TTGATTTTTG
208153 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
208184 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
208215 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
208233 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:222869 original size:58 final size:58
Alignment explanation
Indices: 222793--222902 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 58
222783 AAGAAAATAG
* *
222793 AGTTTGGTTACTTGGAAAATGGCAAATGCCAACAGCATGATGTTACATCAAATTTTCT
1 AGTTTGGTTACTTAGAAAATGGCAAATGCCAACAGCATGATGCTACATCAAATTTTCT
* **
222851 AGTTTGGTTTCTTAGAAAATGGCAAATGCCAGTAGCATGATGCTACATCAAA
1 AGTTTGGTTACTTAGAAAATGGCAAATGCCAACAGCATGATGCTACATCAAA
222903 CTCTCTATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (58 bp):
AGTTTGGTTACTTAGAAAATGGCAAATGCCAACAGCATGATGCTACATCAAATTTTCT
Found at i:237380 original size:35 final size:36
Alignment explanation
Indices: 237333--237439 Score: 182
Period size: 35 Copynumber: 3.0 Consensus size: 36
237323 GCAAAATCTT
*
237333 TATTTCCAATACTAGTGGGATAACCTAATTTGAGCA
1 TATTTCTAATACTAGTGGGATAACCTAATTTGAGCA
237369 TATTT-TAATACTAGTGGGATAACCTAATTT-AGCA
1 TATTTCTAATACTAGTGGGATAACCTAATTTGAGCA
*
237403 TATTTCTAATACTAGTGGGATGACCTAATTTGAGCA
1 TATTTCTAATACTAGTGGGATAACCTAATTTGAGCA
237439 T
1 T
237440 TATCAATATT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
34 9 0.13
35 48 0.72
36 10 0.15
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (36 bp):
TATTTCTAATACTAGTGGGATAACCTAATTTGAGCA
Found at i:246971 original size:22 final size:22
Alignment explanation
Indices: 246941--246989 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
246931 TTCAGTACTT
246941 GTCCCGAATGACCACTGGATAC
1 GTCCCGAATGACCACTGGATAC
*
246963 GTCCTGAATGACCACTGGATAC
1 GTCCCGAATGACCACTGGATAC
246985 GTCCC
1 GTCCC
246990 AAAGGACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (22 bp):
GTCCCGAATGACCACTGGATAC
Found at i:251856 original size:18 final size:18
Alignment explanation
Indices: 251829--251863 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
251819 TTTCAATATT
*
251829 TGTCCTGAAGAACCACTA
1 TGTCCCGAAGAACCACTA
*
251847 TGTCCCGAAGGACCACT
1 TGTCCCGAAGAACCACT
251864 GGATATATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGAACCACTA
Found at i:251901 original size:22 final size:22
Alignment explanation
Indices: 251848--251926 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
251838 GAACCACTAT
*
251848 GTCCCGAAGGACCACTGGATAT
1 GTCCCGAAGGACCACTGGATAC
* *
251870 ATCCCCGAAGGACCACTCGATAC
1 GT-CCCGAAGGACCACTGGATAC
251893 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
251915 GTCCCAAAGGAC
1 GTCCCGAAGGAC
251927 TAATATACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
22 31 0.62
23 19 0.38
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:252621 original size:66 final size:63
Alignment explanation
Indices: 252475--252637 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
252465 TCCCTTGACG
* * *
252475 GGTGCATCGATGCACTACCCATGTATCGATGCATAAATCCTATTCGATGTTTGTATTTTAAGTA
1 GGTGCATCGATGCACT-CCTATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTTAAATA
* * *
252539 GGTGCATCGATGCACTCCTTATGCATCGATGCATTAAT-TTCATTCGATGTTCATTTATTTTAAA
1 GGTGCATCGATGCACTCC-TATGCATCGATGCATAAATCCT-ATTCGATGTT--TGTATTTTAAA
252603 T-
62 TA
* *
252604 GAGTGCATCGATACACTCCATGTGCATCGATGCA
1 G-GTGCATCGATGCACTCC-TATGCATCGATGCA
252638 CCTTCAACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
63 3 0.04
64 42 0.49
65 1 0.01
66 39 0.46
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (63 bp):
GGTGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTTAAATA
Found at i:253985 original size:36 final size:37
Alignment explanation
Indices: 253938--254041 Score: 160
Period size: 35 Copynumber: 2.9 Consensus size: 37
253928 CAAAATTGTC
*
253938 ATTTCCAATACTAGTGGGATAACCTAATTTGAGA-AT
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAGACAT
253974 ATTTCTAATACTAGTGGGATAACCTAATTT-A-ACAT
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAGACAT
* *
254009 ATTTCTAATATTAGTGGGATGACCTAATTTGAG
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAG
254042 CATTATCAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
34 1 0.02
35 31 0.50
36 30 0.48
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (37 bp):
ATTTCTAATACTAGTGGGATAACCTAATTTGAGACAT
Found at i:257215 original size:8 final size:8
Alignment explanation
Indices: 257202--257255 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
257192 TATTAATATT
257202 TATAATAA
1 TATAATAA
*
257210 TATAATAT
1 TATAATAA
257218 TATAATAA
1 TATAATAA
*
257226 AATAATCAA
1 TATAAT-AA
*
257235 T-T-ATAT
1 TATAATAA
257241 TATAATAA
1 TATAATAA
257249 TATAATA
1 TATAATA
257256 TATTATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 30 0.81
9 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAATAA
Found at i:257218 original size:23 final size:22
Alignment explanation
Indices: 257176--257265 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 22
257166 TTAATTTAAA
* *
257176 ATATTTAAAAT-ATAT-TTATT
1 ATATTTATAATAATATAATATT
257196 AATATTTATAATAATATAATATT
1 -ATATTTATAATAATATAATATT
*
257219 ATA---ATAA-AATAATCA-ATT
1 ATATTTATAATAAT-ATAATATT
257237 ATA-TTATAATAATATAATATATT
1 ATATTTATAATAATAT-A-ATATT
257260 ATATTT
1 ATATTT
257266 TTATTTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
18 9 0.16
19 7 0.13
20 6 0.11
21 13 0.24
22 8 0.15
23 10 0.18
24 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTATAATAATATAATATT
Found at i:257365 original size:19 final size:18
Alignment explanation
Indices: 257341--257409 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
257331 ATATTATTAA
257341 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
257360 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
257378 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
257400 ATT-TTAATAA
1 ATTATTAATAA
257410 ATATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:257384 original size:27 final size:27
Alignment explanation
Indices: 257304--257389 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
257294 AATAAAATTT
* *
257304 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
257331 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
257358 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
257387 ATA
1 ATA
257390 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:257423 original size:23 final size:23
Alignment explanation
Indices: 257376--257448 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
257366 TATATATTTA
*
257376 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
257400 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
257423 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
257446 ATA
1 ATA
257449 ATATAACACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 29 0.69
24 13 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:259245 original size:18 final size:19
Alignment explanation
Indices: 259224--259265 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
259214 AGTTAAAACT
259224 TTATAAAGTTATA-AAAAA
1 TTATAAAGTTATATAAAAA
*
259242 TTAT-AATTTATATAAAAA
1 TTATAAAGTTATATAAAAA
*
259260 TAATAA
1 TTATAA
259266 TAAAGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.35
18 12 0.60
19 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTATAAAGTTATATAAAAA
Found at i:261755 original size:60 final size:60
Alignment explanation
Indices: 261681--261796 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
261671 TCACATATTC
* * * * * *
261681 TTAAACTATTATTTTTATTTTAAATTGGTTATTAAATTTTTAAATATTCCAATTTCTTCA
1 TTAAACTATGATTTTCATTCTAAATTAGTTATCAAAATTTTAAATATTCCAATTTCTTCA
* * *
261741 TTAAACTATGATTTTCATTCTAAATTAGTTCTCAAAATTTTGAATGTTCCAATTTC
1 TTAAACTATGATTTTCATTCTAAATTAGTTATCAAAATTTTAAATATTCCAATTTC
261797 ACCCCTAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (60 bp):
TTAAACTATGATTTTCATTCTAAATTAGTTATCAAAATTTTAAATATTCCAATTTCTTCA
Found at i:263708 original size:29 final size:30
Alignment explanation
Indices: 263593--263697 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
263583 TGTTAGTAAT
** * * *
263593 TTTTTTAAATAAATTAATTACAAGTATTTA
1 TTTTTTATTTAAATTAATCACAAATAATTA
** *
263623 TTTTTTATTTTTATTAATTACAAATAATTA
1 TTTTTTATTTAAATTAATCACAAATAATTA
**
263653 TTTTTTATTTTTATTAATCACAAATAATTA
1 TTTTTTATTTAAATTAATCACAAATAATTA
263683 TTTTTTA-TTAAATTA
1 TTTTTTATTTAAATTA
263698 GACAAACATA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 6 0.09
30 60 0.91
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTTTTATTTAAATTAATCACAAATAATTA
Found at i:265120 original size:16 final size:16
Alignment explanation
Indices: 265085--265128 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
265075 ATGATATTAA
* *
265085 CTGACATGTTATCAAC
1 CTGACATGTAATAAAC
*
265101 CTGACATGTAATAAAT
1 CTGACATGTAATAAAC
*
265117 CTGATATGTAAT
1 CTGACATGTAAT
265129 TGACTCAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (16 bp):
CTGACATGTAATAAAC
Found at i:265994 original size:2 final size:2
Alignment explanation
Indices: 265987--266071 Score: 72
Period size: 2 Copynumber: 44.5 Consensus size: 2
265977 ATAATTACTT
* * * * *
265987 TA TA TA TA TA TT TA CA -A TA TT TA TA -A TA TA -A TG TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
266026 CA TA TA TA TA CT- TA TA -A 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
266067 TA TA T
1 TA TA T
266072 TAAGTATACA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
1 5 0.07
2 62 0.91
3 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:266048 original size:25 final size:25
Alignment explanation
Indices: 266013--266060 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
266003 ATATTTATAA
*
266013 TATAATGTATACACATATATATACT
1 TATAATATATACACATATATATACT
* *
266038 TATAATATATATATATATATATA
1 TATAATATATACACATATATATA
266061 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATATATACACATATATATACT
Found at i:266312 original size:13 final size:13
Alignment explanation
Indices: 266296--266374 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 13
266286 GTATGCATAT
266296 TATACTTATATTATA
1 TATACTTATA-T-TA
*
266311 TATACTTATATGCA
1 TATACTTATAT-TA
*
266325 TACCTACATATATTA
1 TA--TACTTATATTA
* * *
266340 TA-A-GTATAATG
1 TATACTTATATTA
266351 TATACTTATATTA
1 TATACTTATATTA
266364 TATACTTATAT
1 TATACTTATAT
266375 AAGTATATAC
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
11 7 0.14
12 2 0.04
13 16 0.32
14 4 0.08
15 13 0.26
16 8 0.16
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (13 bp):
TATACTTATATTA
Found at i:266335 original size:53 final size:51
Alignment explanation
Indices: 266274--266406 Score: 135
Period size: 53 Copynumber: 2.5 Consensus size: 51
266264 ATTATATATT
266274 TATACATATAATGTATGCATAT-TATACTTATATTATATATACTTATAT-GCA
1 TATACATATAATGTATGCATATGTATACTTATA-T-TATATACTTATATAGCA
* * * * *
266325 TACCTACATATATTATAAGTATAATGTATACTTATATTATATACTTATATAAGTA
1 TA--TACATATAATGTATGCAT-ATGTATACTTATATTATATACTTATAT-AGCA
* *
266380 TATACATATAATGAATGCATAAGTATA
1 TATACATATAATGTATGCATATGTATA
266407 AATGTATAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
51 2 0.03
52 6 0.09
53 40 0.62
54 3 0.05
55 14 0.22
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (51 bp):
TATACATATAATGTATGCATATGTATACTTATATTATATACTTATATAGCA
Found at i:266441 original size:136 final size:136
Alignment explanation
Indices: 266197--266443 Score: 365
Period size: 136 Copynumber: 1.8 Consensus size: 136
266187 TATATATACT
* *
266197 TATATTATAAGTATAATGTATACTTGTATTATATACTTATATAAGTATATACATATAATGTATGC
1 TATATTATAAGTATAATGTATACTTATATTATATACTTATATAAGTATATACATATAATGAATGC
* * * * * * *
266262 ATATTATATATTTATACATATAATGTATGCATATTATACTTATATTATATATACTTATATGCATA
66 ATAGTATAAATGTATACATATAATATATACACATTATAATTATATTATATATACTTATATGCATA
266327 CCTACA
131 CCTACA
266333 TATATTATAAGTATAATGTATACTTATATTATATACTTATATAAGTATATACATATAATGAATGC
1 TATATTATAAGTATAATGTATACTTATATTATATACTTATATAAGTATATACATATAATGAATGC
266398 ATAAGTATAAATGTATA-ATATACATTATATACACA-TA-AATTATATT
66 AT-AGTATAAATGTATACATATA-A-TATATACACATTATAATTATATT
266444 GTCATGGCAT
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
136 78 0.79
137 14 0.14
138 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (136 bp):
TATATTATAAGTATAATGTATACTTATATTATATACTTATATAAGTATATACATATAATGAATGC
ATAGTATAAATGTATACATATAATATATACACATTATAATTATATTATATATACTTATATGCATA
CCTACA
Found at i:266468 original size:26 final size:26
Alignment explanation
Indices: 266435--266485 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
266425 TATACACATA
*
266435 AATTATATTGTCATGGCATTCATCAT
1 AATTATATTGTCATGACATTCATCAT
266461 AATTATATTGTCATGACATTCATCA
1 AATTATATTGTCATGACATTCATCA
266486 CACATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (26 bp):
AATTATATTGTCATGACATTCATCAT
Found at i:266576 original size:21 final size:21
Alignment explanation
Indices: 266507--266577 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
266497 TATATACATT
*
266507 ATAAGTATAATGTATACTTGT-
1 ATAAGTATAATGTATA-TTATC
*
266528 ATGAGTATATACT-TATAATGTATAC
1 ATAAGTATA-A-TGTAT-AT-TAT-C
266553 ATAAGTATAATGTATATTATC
1 ATAAGTATAATGTATATTATC
266574 ATAA
1 ATAA
266578 CATACATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
21 13 0.32
22 8 0.20
23 7 0.17
24 4 0.10
25 8 0.20
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (21 bp):
ATAAGTATAATGTATATTATC
Found at i:267642 original size:14 final size:14
Alignment explanation
Indices: 267623--267650 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
267613 ATTGAGAGGC
267623 GAACTTATAAAATT
1 GAACTTATAAAATT
267637 GAACTTATAAAATT
1 GAACTTATAAAATT
267651 TTAGGGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
GAACTTATAAAATT
Found at i:269366 original size:15 final size:14
Alignment explanation
Indices: 269345--269386 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
269335 TTTTACCGGA
269345 TAAAAAAACCGGTT
1 TAAAAAAACCGGTT
269359 TGAAAAAAACCGG-T
1 T-AAAAAAACCGGTT
269373 T-AAAAAACCGGTT
1 TAAAAAAACCGGTT
269386 T
1 T
269387 TTATCCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 3 0.12
15 11 0.42
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (14 bp):
TAAAAAAACCGGTT
Found at i:269377 original size:12 final size:13
Alignment explanation
Indices: 269339--269385 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
269329 CGGTTTTTTT
*
269339 ACCGGATAAAAAA
1 ACCGGTTAAAAAA
269352 ACCGGTTTGAAAAAA
1 ACCGG-TT-AAAAAA
269367 ACCGGTT-AAAAA
1 ACCGGTTAAAAAA
269379 ACCGGTT
1 ACCGGTT
269386 TTTATCCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 12 0.39
13 5 0.16
14 3 0.10
15 11 0.35
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (13 bp):
ACCGGTTAAAAAA
Found at i:271699 original size:21 final size:21
Alignment explanation
Indices: 271675--271714 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
271665 TTTATTTTAT
271675 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
271696 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
271715 AACTTGAAGT
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:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:271807 original size:32 final size:32
Alignment explanation
Indices: 271703--271808 Score: 160
Period size: 32 Copynumber: 3.3 Consensus size: 32
271693 GTAAACTTTG
271703 TTTCAATTATCGAACTT-GAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
*
271734 TTTGAATTTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTTTTTAAGTA
* * *
271767 TTTGAATTATCAAACTTGGAAGTATTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
271799 TTTCAATTAT
1 TTTCAATTAT
271809 GTTGAGTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
31 5 0.07
32 44 0.64
33 20 0.29
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
Done.