Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001573.1 Hibiscus syriacus cultivar Beakdansim tig00003125_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: 99393
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:1437 original size:27 final size:26
Alignment explanation
Indices: 1370--1437 Score: 64
Period size: 30 Copynumber: 2.5 Consensus size: 26
1360 TAAAAAATCA
* * *
1370 AAAAAGAAAAAATTAATAATAATAAT
1 AAAAATAAAATATTAATAATAAAAAT
*
1396 ACAAAATAAATAATATATAATATTAAAAAT
1 A-AAAAT-AA-AATAT-TAATAATAAAAAT
1426 AAAAATAAAATA
1 AAAAATAAAATA
1438 AAAATCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 1 0.03
27 8 0.24
28 4 0.12
29 9 0.26
30 12 0.35
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (26 bp):
AAAAATAAAATATTAATAATAAAAAT
Found at i:1494 original size:35 final size:34
Alignment explanation
Indices: 1455--1577 Score: 153
Period size: 33 Copynumber: 3.6 Consensus size: 34
1445 TTTTTAAATT
*
1455 ATATATTATATATTTTCAAAAATTGTTTCAAAACC
1 ATATA-TATATATTTTCAAAAATTGTTTTAAAACC
*
1490 ATATA-ATATATTTTCAAAAATTGTTTTTAAAACT
1 ATATATATATATTTTCAAAAATTG-TTTTAAAACC
* *
1524 ATATCTATATATTTTCAAAAATAT-TTTTAAAACT
1 ATATATATATATTTTCAAAAAT-TGTTTTAAAACC
*
1558 AT-TATATACATTTTCAAAAA
1 ATATATATATATTTTCAAAAA
1578 CTATATTATT
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
33 34 0.43
34 24 0.30
35 21 0.26
36 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (34 bp):
ATATATATATATTTTCAAAAATTGTTTTAAAACC
Found at i:1671 original size:33 final size:35
Alignment explanation
Indices: 1586--1755 Score: 187
Period size: 34 Copynumber: 5.0 Consensus size: 35
1576 AACTATATTA
*
1586 TTTTTAAAATGTTTTTAAAAACTATATATTATATATG
1 TTTTCAAAATGTTTTTAAAAACTATAT-TTATATA-G
1623 TTTTCAAAATG-TTTT-AAAACTATATTTATA-AG
1 TTTTCAAAATGTTTTTAAAAACTATATTTATATAG
*
1655 TTTTC-AAATGTTTTT-TAAACTATA-TTATATAAG
1 TTTTCAAAATGTTTTTAAAAACTATATTTATAT-AG
* *
1688 TTTTCAAAATG-TTTTCAAAATTATA-TTATATA-
1 TTTTCAAAATGTTTTTAAAAACTATATTTATATAG
*
1720 TATTTCAAAATGTTTTCAAAAACTATATATTATATA
1 T-TTTCAAAATGTTTTTAAAAACTATAT-TTATATA
1756 TATTTTTTCA
Statistics
Matches: 117, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.09
32 19 0.16
33 23 0.20
34 34 0.29
35 10 0.09
36 11 0.09
37 10 0.09
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (35 bp):
TTTTCAAAATGTTTTTAAAAACTATATTTATATAG
Found at i:1685 original size:65 final size:67
Alignment explanation
Indices: 1568--1755 Score: 219
Period size: 65 Copynumber: 2.8 Consensus size: 67
1558 ATTATATACA
* *
1568 TTTTCAAAAACTATA-T-TAT-TTTTAAAATGTTTTTAAAAACTATATATTATATATGTTTTCAA
1 TTTTC-AAAACTATATTATATATTTTCAAATGTTTTTAAAAAC-ATATATTATATAAGTTTTCAA
1630 AATG
64 AATG
*
1634 TTTT-AAAACTATATT-TATAAGTTTTCAAATGTTTTT-TAAAC-TATATTATATAAGTTTTCAA
1 TTTTCAAAACTATATTATAT-A-TTTTCAAATGTTTTTAAAAACATATATTATATAAGTTTTCAA
1695 AATG
64 AATG
* *
1699 TTTTCAAAATTATATTATATATATTTCAAAATGTTTTCAAAAACTATATATTATATA
1 TTTTCAAAACTATATTATATAT-TTTC-AAATGTTTTTAAAAAC-ATATATTATATA
1756 TATTTTTTCA
Statistics
Matches: 105, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
64 9 0.09
65 32 0.30
66 19 0.18
67 16 0.15
68 18 0.17
70 11 0.10
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.48
Consensus pattern (67 bp):
TTTTCAAAACTATATTATATATTTTCAAATGTTTTTAAAAACATATATTATATAAGTTTTCAAAA
TG
Found at i:1713 original size:34 final size:34
Alignment explanation
Indices: 1586--1755 Score: 179
Period size: 33 Copynumber: 4.9 Consensus size: 34
1576 AACTATATTA
* * *
1586 TTTTTAAAATGTTTTTAAAAACTATATATTATATATG
1 TTTTCAAAATG-TTTTCAAAA-T-TATATTATATAAG
*
1623 TTTTCAAAATGTTTT-AAAACTATATT-TATAAG
1 TTTTCAAAATGTTTTCAAAATTATATTATATAAG
** *
1655 TTTTC-AAATGTTTTTTAAACTATATTATATAAG
1 TTTTCAAAATGTTTTCAAAATTATATTATATAAG
1688 TTTTCAAAATGTTTTCAAAATTATATTATAT-A-
1 TTTTCAAAATGTTTTCAAAATTATATTATATAAG
1720 TATTTCAAAATGTTTTCAAAAACTATATATTATATA
1 T-TTTCAAAATGTTTTC-AAAA-T-TATATTATATA
1756 TATTTTTTCA
Statistics
Matches: 118, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
31 9 0.08
32 21 0.18
33 33 0.28
34 26 0.22
35 5 0.04
36 14 0.12
37 10 0.08
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (34 bp):
TTTTCAAAATGTTTTCAAAATTATATTATATAAG
Found at i:2646 original size:85 final size:83
Alignment explanation
Indices: 2434--2805 Score: 402
Period size: 82 Copynumber: 4.5 Consensus size: 83
2424 CTCAACAGTT
* * * ** *
2434 TTTTGTTGACAAATAACCCTTATCGCCTTGAGCTAATG-TGTAAATTTGGTATGCCCTTGAGCTG
1 TTTT-TTGACAGATAACCCTTCTCGCCTTGAG-TTATGCTGTAAATTTAATATTCCCTTGAGCTG
2498 AATGTAATCGAACTCGAAGG
64 AATGTAATCGAACTCGAAGG
* * * *
2518 TTTGTT-ACAGATAGCCCTTCTTGCCTTGAGTTATGCTGTAAATTTAACATTCCCTTGAGCTGAA
1 TTTTTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTAATATTCCCTTGAGCTGAA
2582 TGTAATCGAACTCGAAGG
66 TGTAATCGAACTCGAAGG
* *
2600 TTTTTATCGACAGATAACCCTTCTCGCCTTGTGTTATACTGTAAATTTAATATAT-CCTTGAGC-
1 TTTTT-T-GACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTAATAT-TCCCTTGAGCT
2663 ---TG--ATCGAACTCGAAGG
63 GAATGTAATCGAACTCGAAGG
* * * *
2679 TTTTTCTTGACAGATAACCCTTCTCGCCTTGAGCTATGTTATAAATTTAATATGCCCTTGAGCTG
1 -TTTT-TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTAATATTCCCTTGAGCTG
*
2744 AATGGAATCGAACTCGAAGG
64 AATGTAATCGAACTCGAAGG
** * *
2764 TTTTTTGCTAGCAGATCGCCCTTCTCACCTTGAGCTATGCTG
1 TTTTTTG--A-CAGATAACCCTTCTCGCCTTGAGTTATGCTG
2806 CGAATAGTTC
Statistics
Matches: 244, Mismatches: 27, Indels: 32
0.81 0.09 0.11
Matches are distributed among these distances:
79 62 0.25
80 5 0.02
81 7 0.03
82 66 0.27
83 8 0.03
84 7 0.03
85 62 0.25
86 27 0.11
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (83 bp):
TTTTTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTAATATTCCCTTGAGCTGAA
TGTAATCGAACTCGAAGG
Found at i:2755 original size:79 final size:81
Alignment explanation
Indices: 2433--2805 Score: 346
Period size: 79 Copynumber: 4.5 Consensus size: 81
2423 ACTCAACAGT
* * **
2433 TTTTTGTTGACAAATAACCCTTATCGCCTTGAGCTAATG-TGTAAATTTGGTATGCCCTTGAGCT
1 TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCT-ATGCTGTAAATTTAATATGCCCTTGAGCT
2497 GAATGTAATCGAACTCGAAGG
65 GAATG--A--GAACTCGAAGG
* * * * *
2518 --TTTGTT-ACAGATAGCCCTTCTTGCCTTGAGTTATGCTGTAAATTTAACATTCCCTTGAGCTG
1 TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTAATATGCCCTTGAGCTG
2580 AATGTAATCGAACTCGAAGG
66 AATG--A--GAACTCGAAGG
* * * * * **
2600 TTTTTATCGACAGATAACCCTTCTCGCCTTGTGTTATACTGTAAATTTAATATATCCTTGAGCTG
1 TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTAATATGCCCTTGAGCTG
*
2665 -AT-CGAACTCGAAGG
66 AATGAGAACTCGAAGG
* * *
2679 TTTTTCTTGACAGATAACCCTTCTCGCCTTGAGCTATGTTATAAATTTAATATGCCCTTGAGCTG
1 TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTAATATGCCCTTGAGCTG
2744 AATGGAATCGAACTCGAAGG
66 AAT-G-A--GAACTCGAAGG
* ** *
2764 TTTTTTGCT-AGCAGATCGCCCTTCTCACCTTGAGCTATGCTG
1 -TTTTTGTTGA-CAGATAACCCTTCTCGCCTTGAGCTATGCTG
2806 CGAATAGTTC
Statistics
Matches: 240, Mismatches: 36, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
79 67 0.28
80 2 0.01
81 3 0.01
82 63 0.26
83 6 0.03
84 6 0.03
85 61 0.25
86 32 0.13
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTAATATGCCCTTGAGCTG
AATGAGAACTCGAAGG
Found at i:3896 original size:25 final size:25
Alignment explanation
Indices: 3862--3917 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
3852 GGTGTTCCTT
3862 AACTCCCTTAGTCCATCTTTGCTGA
1 AACTCCCTTAGTCCATCTTTGCTGA
3887 AACTCCCTTAGTCCATCTTTGCTGA
1 AACTCCCTTAGTCCATCTTTGCTGA
3912 AACTCC
1 AACTCC
3918 TTATTTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (25 bp):
AACTCCCTTAGTCCATCTTTGCTGA
Found at i:6390 original size:64 final size:63
Alignment explanation
Indices: 6253--6410 Score: 151
Period size: 64 Copynumber: 2.5 Consensus size: 63
6243 AATTGTTCAA
* * * * **
6253 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAATGCAAATGTCGAATGCAATT
1 TGTGTATCGATGCATAGGGAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGC-ATT
* * * *
6317 AGTGCATCGATGCATAGGGAGTGCATCGATACACCCCCTT-AAGATTAAAACATCGAAGGTGC-T
1 TGTGTATCGATGCATAGGGAGTGCATCGATACA-CCCCTTAAAAATGAAAACATCGAA--TGCAT
6380 T
63 T
*
6381 TGTGTATCGATACAT-GGGTAGTGCATCGAT
1 TGTGTATCGATGCATAGGG-AGTGCATCGAT
6411 GCACATGTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 6 0.08
66 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (63 bp):
TGTGTATCGATGCATAGGGAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGCATT
Found at i:8113 original size:23 final size:23
Alignment explanation
Indices: 8049--8105 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
8039 TTTATATGGA
*
8049 ACTTCGGTGCAATTCTACGTGGC
1 ACTTCGGTGTAATTCTACGTGGC
*
8072 ACTTTGGTGTAATTCTACGTGGC
1 ACTTCGGTGTAATTCTACGTGGC
8095 ACTTCGGTGTA
1 ACTTCGGTGTA
8106 TTTTTACGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGTAATTCTACGTGGC
Found at i:11581 original size:24 final size:20
Alignment explanation
Indices: 11553--11610 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
11543 ACATGGGTAG
11553 TGCATCGATGCACATGTTAAGGAA
1 TGCATCGATGCAC-TG-T-A-GAA
*
11577 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
11597 TGTATCGATGCACT
1 TGCATCGATGCACT
11611 TTAATAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:13741 original size:103 final size:103
Alignment explanation
Indices: 13472--13783 Score: 578
Period size: 103 Copynumber: 3.1 Consensus size: 103
13462 AAATGTCCAT
*
13472 AAGGACTACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
13537 GACTTCACACATGTTCCAAAGAATAC--ATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
13573 AAGGACCAC--ATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
13636 GACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
13674 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
13739 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
13777 AAGGACC
1 AAGGACC
13784 GCGTAGACCC
Statistics
Matches: 204, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
99 79 0.39
101 27 0.13
103 98 0.48
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:18854 original size:23 final size:23
Alignment explanation
Indices: 18823--18891 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
18813 CACCACAGCT
* *
18823 CGTATAATTGTAACGAAGTGCCA
1 CGTAGAATTGCAACGAAGTGCCA
* * *
18846 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCAACGAAGTGCCA
* *
18869 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCAACGAAGTGCCA
18892 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCAACGAAGTGCCA
Found at i:19078 original size:103 final size:103
Alignment explanation
Indices: 18915--19119 Score: 383
Period size: 103 Copynumber: 2.0 Consensus size: 103
18905 ATAAGGACTG
*
18915 CATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCATATACATATAATAAGGATCAAGTATGTGTCTCACCAGACTTCAC
18980 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
66 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
* *
19018 CATATCATTCCTTAAGAATTATATACATATAATAGGGATCAAGTATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCATATACATATAATAAGGATCAAGTATGTGTCTCACCAGACTTCAC
19083 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
66 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
19120 GCGTAGACCC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (103 bp):
CATATCATTCCTTAAGAATCATATACATATAATAAGGATCAAGTATGTGTCTCACCAGACTTCAC
ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
Found at i:21985 original size:22 final size:23
Alignment explanation
Indices: 21934--21985 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
21924 TTTGCATATG
* *
21934 TATATGATTCTTAAGGAAATTTC
1 TATATGGTCCTTAAGGAAATTTC
* *
21957 TATATGGTCCTTAGGGACATTT-
1 TATATGGTCCTTAAGGAAATTTC
21979 TATATGG
1 TATATGG
21986 CACTTCGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (23 bp):
TATATGGTCCTTAAGGAAATTTC
Found at i:22051 original size:23 final size:23
Alignment explanation
Indices: 21983--22043 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
21973 ACATTTTATA
*
21983 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTATG
*
22006 TGACACTTCGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTATG
22029 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
22044 TTTATATGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTATG
Found at i:25084 original size:28 final size:28
Alignment explanation
Indices: 25052--25112 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
25042 TTAAATTGCG
25052 AAATATATAAATATGAACAA-AATAAAAA
1 AAATATATAAATAT-AACAATAATAAAAA
* * *
25080 AAATATATTAATATAATAATAATAAAAT
1 AAATATATAAATATAACAATAATAAAAA
25108 AAATA
1 AAATA
25113 AAATAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATATATAAATATAACAATAATAAAAA
Found at i:25125 original size:28 final size:28
Alignment explanation
Indices: 25072--25126 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
25062 ATATGAACAA
* *
25072 AATAAAAAAAATATATTAATATAATAAT
1 AATAAAAAAAATAAAATAATATAATAAT
*
25100 AATAAAATAAATAAAATAGATA-AATAA
1 AATAAAAAAAATAAAATA-ATATAATAA
25127 AATTGAGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (28 bp):
AATAAAAAAAATAAAATAATATAATAAT
Found at i:26601 original size:36 final size:36
Alignment explanation
Indices: 26560--26753 Score: 204
Period size: 36 Copynumber: 5.4 Consensus size: 36
26550 AATTATTTAT
* *
26560 TATATATGCTTTCAAAAATTGTTTTCAAAACCATATAA
1 TATATAT--TTTCAAAAATTATTTTCAAAACTATATAA
*
26598 TATATATTTTCAAAAATTATTTTTAAAACTATATAA
1 TATATATTTTCAAAAATTATTTTCAAAACTATATAA
* *
26634 TATATATTTTCAAAAAATATTTTCAAAACTATATTA
1 TATATATTTTCAAAAATTATTTTCAAAACTATATAA
* *
26670 TATACATTTTCAAAAA-TATTTTCAAAAACTACAT-A
1 TATATATTTTCAAAAATTATTTTC-AAAACTATATAA
*
26705 T-TAT-TTTT--AAAA-TGTTTTCAAAAACTATATATTA
1 TATATATTTTCAAAAATTATTTTC-AAAACTATATA--A
*
26739 TATATGTTTTCAAAA
1 TATATATTTTCAAAA
26754 CTATATATTA
Statistics
Matches: 137, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
31 20 0.15
33 4 0.03
34 4 0.03
35 12 0.09
36 87 0.64
38 10 0.07
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (36 bp):
TATATATTTTCAAAAATTATTTTCAAAACTATATAA
Found at i:26648 original size:72 final size:70
Alignment explanation
Indices: 26537--26948 Score: 297
Period size: 72 Copynumber: 5.9 Consensus size: 70
26527 TATAAAAATA
* * * * *
26537 AAAAACATTTTT-AAATTATTTATTATATATGCTTTCAAAAATTGTTTTCAAAACCATATAATAT
1 AAAAATATTTTTAAAACTATATAATATATAT--TTTCAAAAA-TGTTTTCAAAACTATATAATAT
26601 ATATTTTC
63 ATATTTTC
* *
26609 AAAAATTATTTTTAAAACTATATAATATATATTTTCAAAAAATATTTTCAAAACTATATTATATA
1 AAAAA-TATTTTTAAAACTATATAATATATATTTTC-AAAAATGTTTTCAAAACTATATAATATA
*
26674 CATTTTC
64 TATTTTC
* *
26681 AAAAATATTTTCAAAAACTACAT-AT-TAT-TTTT--AAAATGTTTTCAAAAACTATAT-AT-TA
1 AAAAATATTTT-TAAAACTATATAATATATATTTTCAAAAATGTTTTC-AAAACTATATAATATA
26739 TA---T-
64 TATTTTC
* * * *
26742 ----ATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAATGTTTTCAAAACTATATATTATA
1 AAAAATATTTTTAAAACTATATAATATAT-A-TTTTCAAAAATGTTTTCAAAACTATATAATATA
26803 TAAGTTTTC
64 T-A-TTTTC
* * * * *
26812 -AAAATGTTTTTTAAAAACTATATATTATATAAGTTTT-TAAAATGTTTTCAAAAATATATTATA
1 AAAAAT-ATTTTT-AAAACTATATAATATAT-A-TTTTCAAAAATGTTTTCAAAACTATATAATA
*
26875 TATATATTC
62 TATATTTTC
* * * *
26884 -AAAATGTTTTAAAAACTATATATTATATATATGTTTTC-AAAATGTTTTAAAAACTATATTATA
1 AAAAATATTTTTAAAACTATATA--ATATATA--TTTTCAAAAATGTTTTCAAAACTATATAATA
26947 TA
62 TA
26949 GATATATATT
Statistics
Matches: 282, Mismatches: 29, Indels: 58
0.76 0.08 0.16
Matches are distributed among these distances:
56 9 0.03
57 7 0.02
58 3 0.01
61 4 0.01
62 11 0.04
63 12 0.04
64 3 0.01
65 4 0.01
66 12 0.04
67 10 0.04
69 5 0.02
70 14 0.05
71 13 0.05
72 93 0.33
73 14 0.05
74 44 0.16
75 24 0.09
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (70 bp):
AAAAATATTTTTAAAACTATATAATATATATTTTCAAAAATGTTTTCAAAACTATATAATATATA
TTTTC
Found at i:26655 original size:13 final size:13
Alignment explanation
Indices: 26637--26661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26627 TATATAATAT
26637 ATATTTTCAAAAA
1 ATATTTTCAAAAA
26650 ATATTTTCAAAA
1 ATATTTTCAAAA
26662 CTATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:26745 original size:26 final size:26
Alignment explanation
Indices: 26716--26779 Score: 112
Period size: 25 Copynumber: 2.5 Consensus size: 26
26706 TATTTTTAAA
26716 ATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATAT
26742 ATGTTTTC-AAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATAT
*
26767 AAGTTTTCAAAAA
1 ATGTTTTCAAAAA
26780 TGTTTTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 24 0.67
26 12 0.33
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (26 bp):
ATGTTTTCAAAAACTATATATTATAT
Found at i:26838 original size:38 final size:36
Alignment explanation
Indices: 26742--26942 Score: 282
Period size: 38 Copynumber: 5.5 Consensus size: 36
26732 TATATTATAT
*
26742 ATGTTTTCAAAACTATATATTATATAAGTTTTCAAAA
1 ATGTTTTAAAAACTATATATTATATAAGTTTTC-AAA
*
26779 ATGTTTTCAAAACTATATATTATATAAGTTTTCAAA
1 ATGTTTTAAAAACTATATATTATATAAGTTTTCAAA
*
26815 ATGTTTTTTAAAAACTATATATTATATAAGTTTTTAAA
1 ATG--TTTTAAAAACTATATATTATATAAGTTTTCAAA
* *
26853 ATGTTTTCAAAA--ATATATTATATATA-TATTCAAA
1 ATGTTTTAAAAACTATATATTATATA-AGTTTTCAAA
26887 ATGTTTTAAAAACTATATATTATATATATGTTTTCAAA
1 ATGTTTTAAAAACTATATATTATATA-A-GTTTTCAAA
26925 ATGTTTTAAAAACTATAT
1 ATGTTTTAAAAACTATAT
26943 TATATAGATA
Statistics
Matches: 150, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
34 29 0.19
35 1 0.01
36 28 0.19
37 33 0.22
38 59 0.39
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
ATGTTTTAAAAACTATATATTATATAAGTTTTCAAA
Found at i:27023 original size:2 final size:2
Alignment explanation
Indices: 27016--27067 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
27006 ATGATAACAT
27016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27058 TA TA TA TA TA
1 TA TA TA TA TA
27068 ATACTTCCGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27650 original size:183 final size:183
Alignment explanation
Indices: 27336--27767 Score: 564
Period size: 183 Copynumber: 2.4 Consensus size: 183
27326 TTGTCGGTAC
* * * *
27336 GTATCGATACAATTA-AAATATGTATCGACACATAACAATAT-ATCAGGTAAAAATATGAGAAAA
1 GTATCGATA-ATTTATAAATATGTATCGATACAAAACAATATAAT-AGGTAAAAATATGACAAAA
* *
27399 CCGAGTTCAATATGACAAAACCGGTAAAGCGCTACCGGATATGTAGAAAGTATCGATTCTACTGA
64 CCGAGTTCAATATGACAAAACCGGTAAAACGCTACCGGATATGTAGAAAGTATCGATTCCACTGA
* * **
27464 AATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGTATTAAGAGCGTCTAAAAA
129 AATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGCAATAAGAGCACCTAAAAA
* * *
27519 GTATCGATAATTTATAAATATGTATCGATACACAACAATATAATAGGTAAAAATATAACAAAACT
1 GTATCGATAATTTATAAATATGTATCGATACAAAACAATATAATAGGTAAAAATATGACAAAACC
* * ** *
27584 G-GTTTCATTATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTATTTATTCCATTGAA
66 GAG-TTCAATATGACAAAACCGGTAAAACGCTACCGGATATGTAGAAAGTATCGATTCCACTGAA
** *
27648 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACCTAAAAA
130 ATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGCAATAAGAGCACCTAAAAA
* * * * * * *
27702 GTATTGATACTTTATAAACATTTATCGATAGAAAACAATATAACATGTAAAAATATGACAAAACC
1 GTATCGATAATTTATAAATATGTATCGATACAAAACAATATAATAGGTAAAAATATGACAAAACC
27767 G
66 G
27768 GTAAAGCGCT
Statistics
Matches: 216, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
182 5 0.02
183 209 0.97
184 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (183 bp):
GTATCGATAATTTATAAATATGTATCGATACAAAACAATATAATAGGTAAAAATATGACAAAACC
GAGTTCAATATGACAAAACCGGTAAAACGCTACCGGATATGTAGAAAGTATCGATTCCACTGAAA
TAAGTATCGACACTTTTAAAATTTAAAAGAAAAGCAATAAGAGCACCTAAAAA
Found at i:27868 original size:163 final size:164
Alignment explanation
Indices: 27592--27933 Score: 533
Period size: 163 Copynumber: 2.1 Consensus size: 164
27582 CTGGTTTCAT
**
27592 TATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTATTTATTCCATTGAAATAAGTATC
1 TATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
* * *
27657 GACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACCTAAAAAGTATTGATACTTTAT-AAAC
66 AACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACCTAAAAAGTATCGATACTTTATAAAAA
* * *
27721 ATTTATCGATAGAAAACAATATAACATGTAAAAA
131 ATGTATCGATACAAAACAATATAACAGGTAAAAA
*
27755 TATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
1 TATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
* * * *
27820 AACACTTTTGGAATTTAAAATAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAA
66 AACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACCTAAAAAGTATCGATACTTTATAAAAA
* *
27885 ATGTATCGATCCATAACAATATAACAGGTAAAAA
131 ATGTATCGATACAAAACAATATAACAGGTAAAAA
*
27919 TATGATAAAACCGGT
1 TATGACAAAACCGGT
27934 TTCATTATGA
Statistics
Matches: 162, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
163 116 0.72
164 46 0.28
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (164 bp):
TATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
AACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACCTAAAAAGTATCGATACTTTATAAAAA
ATGTATCGATACAAAACAATATAACAGGTAAAAA
Found at i:30300 original size:21 final size:21
Alignment explanation
Indices: 30254--30300 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
30244 TAGATGAGGC
*
30254 AGAGGAAGAAGTGGAGGCAGT
1 AGAGGAAGAAGTAGAGGCAGT
* *
30275 GGAGGAAGAAG-AGATGGTAGT
1 AGAGGAAGAAGTAGA-GGCAGT
30296 AGAGG
1 AGAGG
30301 GGATGATGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.49, T:0.11
Consensus pattern (21 bp):
AGAGGAAGAAGTAGAGGCAGT
Found at i:30658 original size:6 final size:6
Alignment explanation
Indices: 30647--30682 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
30637 TATGTTATTG
* *
30647 GAATTT GAATTT GAATTT CAATTT GAGTTT GAATTT
1 GAATTT GAATTT GAATTT GAATTT GAATTT GAATTT
30683 CAATATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (6 bp):
GAATTT
Found at i:30669 original size:18 final size:18
Alignment explanation
Indices: 30648--30686 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
30638 ATGTTATTGG
30648 AATTTGAATTTGAATTTC
1 AATTTGAATTTGAATTTC
*
30666 AATTTGAGTTTGAATTTC
1 AATTTGAATTTGAATTTC
30684 AAT
1 AAT
30687 ATAAAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (18 bp):
AATTTGAATTTGAATTTC
Found at i:32559 original size:22 final size:21
Alignment explanation
Indices: 32533--32580 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
32523 TGGTAACATA
32533 ATTTTATATAAAGTATCGATAC
1 ATTTTATAT-AAGTATCGATAC
* *
32555 ATTTTGTATATGTATCGATAC
1 ATTTTATATAAGTATCGATAC
*
32576 TTTTT
1 ATTTT
32581 GTCCAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTTATATAAGTATCGATAC
Found at i:32589 original size:20 final size:20
Alignment explanation
Indices: 32544--32589 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
32534 TTTTATATAA
*
32544 AGTATCGATACATTTTGTAT
1 AGTATCGATACATTTTGTAC
* *
32564 ATGTATCGATACTTTTTGTCC
1 A-GTATCGATACATTTTGTAC
32585 AGTAT
1 AGTAT
32590 ACTTTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
AGTATCGATACATTTTGTAC
Found at i:32662 original size:202 final size:201
Alignment explanation
Indices: 32316--32721 Score: 643
Period size: 202 Copynumber: 2.0 Consensus size: 201
32306 AATATACCGA
* *
32316 TTTAATGGTAACATAAGTTAATATAAAGTACCGATACTTTTTTTATATGTATCGATACTTTTTGT
1 TTTAATGGTAACATAAGTTAATATAAAGTACCGATACATTTTGTATATGTATCGATACTTTTTGT
** * *
32381 CCAGTATGTTTCTCAAAACTACATGCACGTAAGAAGTATAGATACCTATAAAACGTATCTATACA
66 CCAGTATACTTCTCAAAACTACATGCACGTAAGAAGTATAGATACCTATAAAACATATCGATACA
*
32446 TAATGATATAAAAGGTTAAAAATTGATAAAAATTGGTTTCAATATACAATGTAACCGATCAATAG
131 TAATGATATAAAAGGTTAAAAATTGAT-AAAACTGGTTTCAATATACAATGTAACCGATCAATAG
32511 ATACCAG
195 ATACCAG
* * *
32518 TTTAATGGTAACATAATTTTATATAAAGTATCGATACATTTTGTATATGTATCGATACTTTTTGT
1 TTTAATGGTAACATAAGTTAATATAAAGTACCGATACATTTTGTATATGTATCGATACTTTTTGT
** *
32583 CCAGTATACTT-TCAAAACTACATGCACGTAAGAAGTATCTATACCTATAAAAATATATCGATAC
66 CCAGTATACTTCTCAAAACTACATGCACGTAAGAAGTATAGATACCTAT-AAAACATATCGATAC
* *
32647 ATAATGATATAAAAGGTTAAAAATTGATAAAACTGGTTTCAATATACAATGTAATCGGTCAATAG
130 ATAATGATATAAAAGGTTAAAAATTGATAAAACTGGTTTCAATATACAATGTAACCGATCAATAG
*
32712 ATACCGG
195 ATACCAG
32719 TTT
1 TTT
32722 TGAAAAAATG
Statistics
Matches: 187, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
201 78 0.42
202 109 0.58
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (201 bp):
TTTAATGGTAACATAAGTTAATATAAAGTACCGATACATTTTGTATATGTATCGATACTTTTTGT
CCAGTATACTTCTCAAAACTACATGCACGTAAGAAGTATAGATACCTATAAAACATATCGATACA
TAATGATATAAAAGGTTAAAAATTGATAAAACTGGTTTCAATATACAATGTAACCGATCAATAGA
TACCAG
Found at i:34543 original size:2 final size:2
Alignment explanation
Indices: 34536--34575 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
34526 AAATGTATCG
34536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34576 TTCATACTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35218 original size:23 final size:23
Alignment explanation
Indices: 35192--35241 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
35182 ACTTATTTTA
* *
35192 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCACTACCTAATACG
* *
35215 TTATATACGCACTACCTAATATG
1 TTATATAAGCACTACCTAATACG
35238 TTAT
1 TTAT
35242 TGTGCTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (23 bp):
TTATATAAGCACTACCTAATACG
Found at i:39479 original size:20 final size:21
Alignment explanation
Indices: 39454--39546 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
39444 TTTTCCCAAT
*
39454 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
39474 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
39495 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
39515 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
39536 TCGCAATGCGA
1 TCGCAATGCGA
39547 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:39499 original size:41 final size:41
Alignment explanation
Indices: 39454--39546 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
39444 TTTTCCCAAT
39454 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
39495 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
39536 TCGCAATGCGA
1 TCGCAATGCGA
39547 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:39559 original size:41 final size:41
Alignment explanation
Indices: 39473--39607 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
39463 GAATAAGTAA
** *
39473 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
39514 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
39555 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
39596 TTCGCAACGCGA
1 ATCGCAACGCGA
39608 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:39560 original size:20 final size:20
Alignment explanation
Indices: 39535--39628 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
39525 AATTGGGAAA
*
39535 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
39555 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
39576 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
39596 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
39616 TTCGCAACGCGAT
1 ATCGCAACGCGAT
39629 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:39844 original size:22 final size:22
Alignment explanation
Indices: 39816--39859 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
39806 CACTCTCTCA
39816 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
39838 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
39860 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:40662 original size:18 final size:18
Alignment explanation
Indices: 40641--40686 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
40631 CTCCACTTCG
*
40641 AGAGCCATCACCTCGCCC
1 AGAGCCATCACCCCGCCC
*
40659 AGAGCTATCACCCCGCCC
1 AGAGCCATCACCCCGCCC
40677 AGAGCCATCA
1 AGAGCCATCA
40687 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.46, G:0.17, T:0.11
Consensus pattern (18 bp):
AGAGCCATCACCCCGCCC
Found at i:41187 original size:20 final size:19
Alignment explanation
Indices: 41153--41218 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
41143 TAGTTTACTT
*
41153 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
41172 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
41192 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
41211 TCGCAACG
1 TCGCAACG
41219 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:41295 original size:19 final size:19
Alignment explanation
Indices: 41280--41367 Score: 61
Period size: 19 Copynumber: 4.6 Consensus size: 19
41270 GCGATTTTGT
41280 CGCTGCGA-TTTCATTTCG
1 CGCTGCGATTTTCATTTCG
*
41298 CGTTGCGATTTTCATTTCG
1 CGCTGCGATTTTCATTTCG
** *** *
41317 CATTGCGATAGCCATTTCCA
1 CGCTGCGATTTTCATTT-CG
* **
41337 CGTTGCGATAGTCATTTCG
1 CGCTGCGATTTTCATTTCG
*
41356 CGTTGCGATTTT
1 CGCTGCGATTTT
41368 AAGTTTCGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
18 7 0.12
19 34 0.60
20 16 0.28
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.40
Consensus pattern (19 bp):
CGCTGCGATTTTCATTTCG
Found at i:41344 original size:20 final size:19
Alignment explanation
Indices: 41291--41364 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
41281 GCTGCGATTT
* ***
41291 CATTTCGCGTTGCGATTTT
1 CATTTCACGTTGCGATAGC
* *
41310 CATTTCGCATTGCGATAGC
1 CATTTCACGTTGCGATAGC
*
41329 CATTTCCACGTTGCGATAGT
1 CATTT-CACGTTGCGATAGC
*
41349 CATTTCGCGTTGCGAT
1 CATTTCACGTTGCGAT
41365 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 30 0.65
20 16 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (19 bp):
CATTTCACGTTGCGATAGC
Found at i:43382 original size:19 final size:19
Alignment explanation
Indices: 43358--43492 Score: 173
Period size: 19 Copynumber: 7.6 Consensus size: 19
43348 AAAACAGACT
* *
43358 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
43377 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
43396 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
43415 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
43434 ATCGTAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
43448 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
43467 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
43481 ATCGCAATGCGA
1 ATCGCAATGCGA
43493 TTTTCATTTC
Statistics
Matches: 104, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
14 21 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 1 0.01
19 72 0.69
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:43409 original size:38 final size:37
Alignment explanation
Indices: 43358--43492 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 37
43348 AAAACAGACT
*
43358 ATCGCAACGCGAAATGGAAATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAAATCGCAATGCGAAATGAAA
43396 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAAATCGCAATGCGAAATGAAA
*
43434 ATCGTAA-CG--A-GAAAATCGCAATGCGAAATGAAA
1 ATCGCAAGCGAAATGAAAATCGCAATGCGAAATGAAA
43467 ATCGCAA-CG--A-GAAAATCGCAATGCGA
1 ATCGCAAGCGAAATGAAAATCGCAATGCGA
43493 TTTTCATTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
33 48 0.52
34 1 0.01
36 2 0.02
38 42 0.45
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (37 bp):
ATCGCAAGCGAAATGAAAATCGCAATGCGAAATGAAA
Found at i:43447 original size:14 final size:14
Alignment explanation
Indices: 43430--43487 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
43420 AATGCGAAAT
*
43430 GAAAATCGTAACGA
1 GAAAATCGCAACGA
43444 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
43462 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
43477 GAAAATCGCAA
1 GAAAATCGCAA
43488 TGCGATTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 21 0.55
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:43505 original size:33 final size:33
Alignment explanation
Indices: 43375--43492 Score: 182
Period size: 33 Copynumber: 3.4 Consensus size: 33
43365 CGCGAAATGG
43375 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GA
*
43413 AAATCGCAATGCGAAATGAAAATCGTAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
43446 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
43479 AAATCGCAATGCGA
1 AAATCGCAATGCGA
43493 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
33 48 0.62
34 1 0.01
36 2 0.03
38 27 0.35
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (33 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGA
Found at i:43568 original size:20 final size:20
Alignment explanation
Indices: 43511--43568 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
43501 TCGCATTGCG
* *
43511 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
43531 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
43551 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
43569 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:44631 original size:24 final size:24
Alignment explanation
Indices: 44604--44657 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
44594 GTATTCGAAA
* *
44604 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
44628 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
44652 TTTGAT
1 TTTGAT
44658 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:44849 original size:12 final size:12
Alignment explanation
Indices: 44832--44856 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44822 ATATAATCCT
44832 GAAGAAGAAAAA
1 GAAGAAGAAAAA
44844 GAAGAAGAAAAA
1 GAAGAAGAAAAA
44856 G
1 G
44857 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:47205 original size:20 final size:19
Alignment explanation
Indices: 47148--47215 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 19
47138 GGAAATTACT
47148 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
47167 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
47181 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
*
47201 ATCGCAACGCGAAAT
1 ATCGCAATGCGAAAT
47216 TAAATTCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
19 12 0.30
20 13 0.32
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:47224 original size:19 final size:20
Alignment explanation
Indices: 47128--47214 Score: 62
Period size: 20 Copynumber: 4.7 Consensus size: 20
47118 CTTAATGTCC
* * **
47128 ATCGCAACGCGGAAATTACT
1 ATCGCAACGCGAAAATGAAA
*
47148 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGAAA
*
47167 ATCGCAA--CG---A-GAGA
1 ATCGCAACGCGAAAATGAAA
*
47181 ATCGCAATGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
47201 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
47215 TTAAATTCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
19 13 0.24
20 26 0.48
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGAAA
Found at i:47266 original size:33 final size:32
Alignment explanation
Indices: 47224--47350 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
47214 ATTAAATTCG
47224 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
47257 CGTTGCGATTTTCATTTCGCATTGCTAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
47290 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
47323 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
47351 AGTACTTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:47313 original size:66 final size:66
Alignment explanation
Indices: 47216--47347 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
47206 AACGCGAAAT
*
47216 TAAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
1 TAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
47281 C
66 C
*
47282 TAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 TAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
47347 C
66 C
47348 GATAGTACTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
TAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
C
Found at i:47477 original size:14 final size:14
Alignment explanation
Indices: 47458--47494 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
47448 CATCAATTAA
47458 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
47472 ACAAATCACCTTTT
1 ACAAATCAACTTTT
47486 ACAAATCAA
1 ACAAATCAA
47495 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:50767 original size:33 final size:33
Alignment explanation
Indices: 50710--50808 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
50700 ACGAGATAAT
*
50710 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
50744 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
50777 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
50809 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:50802 original size:19 final size:19
Alignment explanation
Indices: 50685--50869 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
50675 TCTTTTGGTT
*
50685 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
50704 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
50724 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
50742 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
50758 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
50776 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
50791 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
50811 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
50830 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
50849 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
50868 GA
1 GA
50870 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:50823 original size:39 final size:38
Alignment explanation
Indices: 50780--50869 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
50770 GCGACCAGAC
*
50780 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAATGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
50819 AATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGCGAAATAAA
50857 AATCGCAATGCGA
1 AATCGCAATGCGA
50870 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 23 0.47
39 26 0.53
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (38 bp):
AATCGCAATGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:50898 original size:19 final size:19
Alignment explanation
Indices: 50865--50931 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
50855 AAAATCGCAA
**
50865 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
50884 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
50903 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
50923 TGCGATTTT
1 TGCGATTTT
50932 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:51534 original size:20 final size:20
Alignment explanation
Indices: 51449--51542 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
51439 CGCTATATAA
* *
51449 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
* *
51469 ATCGCGTTGCGAAAATAAGT
1 ATCGCGTTGCGATAGTAAGT
* * *
51489 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTAAGT
*
51510 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
51530 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
51543 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.73
21 12 0.20
22 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:51560 original size:21 final size:21
Alignment explanation
Indices: 51531--51623 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
51521 ATAGTAAGTA
51531 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
51552 TCGCGTTGCGA-TTTACGTAT
1 TCGCATTGCGATTTTCCCAAT
51572 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
51593 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
51613 TCGCATTGCGA
1 TCGCATTGCGA
51624 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:51561 original size:41 final size:41
Alignment explanation
Indices: 51470--51604 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
51460 AAAGTCAGTA
* * * ** *
51470 TCGCGTTGCGAAAATAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAATAAGTATCGCATTGCGATTTTCCCAAT
* *
51510 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAATAAGTATCGCATTGCGATTTTCCCAAT
* *
51552 TCGCGTTGCGAT-TTACGTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAATAAGTA-TCGCATTGCGATTTTCCCAAT
51593 TCGCGTTGCGAT
1 TCGCGTTGCGAT
51605 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAATAAGTATCGCATTGCGATTTTCCCAAT
Found at i:51605 original size:41 final size:41
Alignment explanation
Indices: 51531--51623 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
51521 ATAGTAAGTA
51531 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACGTAT
*
51572 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACGTAT
51613 TCGCATTGCGA
1 TCGCATTGCGA
51624 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACGTAT
Found at i:53108 original size:108 final size:108
Alignment explanation
Indices: 52969--53263 Score: 405
Period size: 108 Copynumber: 2.7 Consensus size: 108
52959 TTTTTAAAGC
* * * * *
52969 TGATGAGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTA
1 TGATGAGACCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTATTTTGTTATAAATATTA
*
53034 TCAACATATTAGGCAGCGTCTAAAATATTATCAAAGTTTAAGT
66 TCAACATATTAGGCAGCGCCTAAAATATTATCAAAGTTTAAGT
*
53077 TGAT-AGGACCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTATTTTGTTATTAATATT
1 TGATGA-GACCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTATTTTGTTATAAATATT
** * *
53141 ATCAACATATTAGATAGCGCCTAAAATGTTATCAAATTTTAAGT
65 ATCAACATATTAGGCAGCGCCTAAAATATTATCAAAGTTTAAGT
* * * *
53185 TGATGAGACCTTCGAAATCTC-ACGACAACAAAATATGTTAATTTCTTATTTTGTTATAAATAAA
1 TGATGAGACCTTAGAAATC-CGACGATAACAAAATATGTTAATTACTTATTTTGTTATAAAT-AT
*
53249 TATTAACATATTAGG
64 TATCAACATATTAGG
53264 TTGTGCCCAA
Statistics
Matches: 166, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 149 0.90
109 16 0.10
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (108 bp):
TGATGAGACCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTATTTTGTTATAAATATTA
TCAACATATTAGGCAGCGCCTAAAATATTATCAAAGTTTAAGT
Found at i:53160 original size:213 final size:213
Alignment explanation
Indices: 52737--53121 Score: 560
Period size: 213 Copynumber: 1.8 Consensus size: 213
52727 GTAACGTAAT
* * *
52737 ATGTAGCGCATTTTTAAATCTGATGGTCATTAGAAATCCGACGATAACAAAATATATTAATTACT
1 ATGTAGCGCATTTTTAAAGCTGATGGGCATTAGAAATCCGACGATAACAAAATAGATTAATTACT
* ** *
52802 TGATTTGTTATCAATATTATCAACATATTAGGTTGCACTTAAAATGTTACCAAAGTTTAAGCTGA
66 TAATTTGTTATCAATATTATCAACATATTAGGCAGCACTTAAAATATTACCAAAGTTTAAGCTGA
* *
52867 TGGAGCCTTAGAAATATAATGATAACAAAACATGTTAATTACCGGAAACATTATCAACCATAATA
131 TGGAGCCTTAGAAATACAACGATAACAAAACATGTTAATTACCGGAAACATTATCAACCATAATA
52932 ACATAACAAATAGCGCTC
196 ACATAACAAATAGCGCTC
* * *
52950 ATGTAGCG-TTTTTTAAAGCTGATGAGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTAC
1 ATGTAGCGCATTTTTAAAGCTGATG-GGCATTAGAAATCCGACGATAACAAAATAGATTAATTAC
* * *
53014 TTAATTTGTTATCAATATTATCAACATATTAGGCAGC-GTCTAAAATATTATCAAAGTTTAAGTT
65 TTAATTTGTTATCAATATTATCAACATATTAGGCAGCACT-TAAAATATTACCAAAGTTTAAGCT
* * *
53078 GATAGGA-CCTTAGAAATCCGACGATAACAAAATATGTTAATTAC
129 GAT-GGAGCCTTAGAAATACAACGATAACAAAACATGTTAATTAC
53122 TTATTTTGTT
Statistics
Matches: 151, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
212 15 0.10
213 133 0.88
214 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (213 bp):
ATGTAGCGCATTTTTAAAGCTGATGGGCATTAGAAATCCGACGATAACAAAATAGATTAATTACT
TAATTTGTTATCAATATTATCAACATATTAGGCAGCACTTAAAATATTACCAAAGTTTAAGCTGA
TGGAGCCTTAGAAATACAACGATAACAAAACATGTTAATTACCGGAAACATTATCAACCATAATA
ACATAACAAATAGCGCTC
Found at i:53440 original size:18 final size:18
Alignment explanation
Indices: 53417--53459 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
53407 TTGATGGTCG
53417 ATACTTTAGCAAATATCA
1 ATACTTTAGCAAATATCA
53435 ATACTTTAGCAAATATCA
1 ATACTTTAGCAAATATCA
53453 ATACTTT
1 ATACTTT
53460 TAGAGTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (18 bp):
ATACTTTAGCAAATATCA
Found at i:55758 original size:37 final size:37
Alignment explanation
Indices: 55711--55837 Score: 132
Period size: 37 Copynumber: 3.4 Consensus size: 37
55701 TCAAAAAAAA
*
55711 TTAAAAACCATATACCATACATTTTTTAAAAAATG-TT
1 TTAAAAACCATATATCATA-ATTTTTTAAAAAATGTTT
* *
55748 TTAGAAACCATATATTATAAGTTTTTT-AAAAATGTTT
1 TTAAAAACCATATATCATAA-TTTTTTAAAAAATGTTT
* * *
55785 TTAAAAACCATATATCATATGTTTTTTAAATAATATTT
1 TTAAAAACCATATATCATA-ATTTTTTAAAAAATGTTT
** *
55823 AAAAAAACGATATAT
1 TTAAAAACCATATAT
55838 TATACGTTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
36 8 0.11
37 47 0.63
38 20 0.27
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.41
Consensus pattern (37 bp):
TTAAAAACCATATATCATAATTTTTTAAAAAATGTTT
Found at i:55789 original size:74 final size:76
Alignment explanation
Indices: 55711--55856 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 76
55701 TCAAAAAAAA
* * *
55711 TTAAAAACCATATACCATACATTTTTTAAAAAATGTTT-TAGAAACCATATATTATAAGTTTT-T
1 TTAAAAACCATATACCATACATTTTTTAAAAAATATTTAAAAAAACCATATATTATAAGTTTTCT
55774 TAAAAATGTTT
66 TAAAAATGTTT
* ** * * *
55785 TTAAAAACCATATATCATATGTTTTTTAAATAATATTTAAAAAAACGATATATTATACGTTTTCT
1 TTAAAAACCATATACCATACATTTTTTAAAAAATATTTAAAAAAACCATATATTATAAGTTTTCT
*
55850 TTAAAAT
66 TAAAAAT
55857 TTATTTTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 33 0.55
75 20 0.33
76 7 0.12
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (76 bp):
TTAAAAACCATATACCATACATTTTTTAAAAAATATTTAAAAAAACCATATATTATAAGTTTTCT
TAAAAATGTTT
Found at i:55909 original size:35 final size:35
Alignment explanation
Indices: 55852--56124 Score: 241
Period size: 35 Copynumber: 7.7 Consensus size: 35
55842 CGTTTTCTTT
*
55852 AAAATTTATTTTGAAAATTATATACTATATGTTTTC
1 AAAA-TTATTTTAAAAATTATATACTATATGTTTTC
* * *
55888 AAGATTATTTTAAACCA-TATAT--TACATGTTTTTC
1 AAAATTATTTTAAA-AATTATATACTATATG-TTTTC
** *
55922 AAAATCGTTTTAAAAATTATATATTATATGTTTTC
1 AAAATTATTTTAAAAATTATATACTATATGTTTTC
* * * *
55957 AAAATTACTTTAAAAACTATATACCATATATTTTC
1 AAAATTATTTTAAAAATTATATACTATATGTTTTC
** *
55992 AAAATCGTTTTAAAAAAATTATATATTATATGTTTT-
1 AAAATTATTTT--AAAAATTATATACTATATGTTTTC
* * *
56028 AAAATTATTTTAAAAATTATATATTATATATTTTTT
1 AAAATTATTTTAAAAATTATATACTATAT-GTTTTC
** * *
56064 AAAATCGTTTTAAAAATTATATATTATATATTTTC
1 AAAATTATTTTAAAAATTATATACTATATGTTTTC
56099 AAAAGTTATATTT-AAAATTATTATAC
1 AAAA-TTAT-TTTAAAAATTA-TATAC
56125 ACTATGCTAA
Statistics
Matches: 192, Mismatches: 33, Indels: 23
0.77 0.13 0.09
Matches are distributed among these distances:
33 6 0.03
34 39 0.20
35 67 0.35
36 54 0.28
37 26 0.14
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (35 bp):
AAAATTATTTTAAAAATTATATACTATATGTTTTC
Found at i:55953 original size:36 final size:35
Alignment explanation
Indices: 55904--56119 Score: 229
Period size: 36 Copynumber: 6.1 Consensus size: 35
55894 ATTTTAAACC
* *
55904 ATATATTACATGTTTTTCAAAATCGTTTTAAAAATT
1 ATATATTATATG-TTTTCAAAATCATTTTAAAAATT
* * *
55940 ATATATTATATGTTTTCAAAATTACTTTAAAAACT
1 ATATATTATATGTTTTCAAAATCATTTTAAAAATT
** * *
55975 ATATACCATATATTTTCAAAATCGTTTTAAAAAAATT
1 ATATATTATATGTTTTCAAAATCATTTT--AAAAATT
*
56012 ATATATTATATGTTTT-AAAATTATTTTAAAAATT
1 ATATATTATATGTTTTCAAAATCATTTTAAAAATT
* * *
56046 ATATATTATATATTTTTTAAAATCGTTTTAAAAATT
1 ATATATTATAT-GTTTTCAAAATCATTTTAAAAATT
* *
56082 ATATATTATATATTTTCAAAAGTTATATTT-AAAATT
1 ATATATTATATGTTTTCAAAA-TCAT-TTTAAAAATT
56118 AT
1 AT
56120 TATACACTAT
Statistics
Matches: 150, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
34 18 0.12
35 53 0.35
36 57 0.38
37 22 0.15
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (35 bp):
ATATATTATATGTTTTCAAAATCATTTTAAAAATT
Found at i:56068 original size:72 final size:70
Alignment explanation
Indices: 55860--56115 Score: 329
Period size: 72 Copynumber: 3.6 Consensus size: 70
55850 TTAAAATTTA
* * * * * *
55860 TTTTGAAAATTATATACTATATGTTTTCAAGATTATTTT-AAACCATATATTACATGTTTTTCAA
1 TTTTAAAAATTATATATTATATGTTTTCAAAATTATTTTAAAACTATATATTATATATTTTTCAA
55924 AATCG
66 AATCG
* **
55929 TTTTAAAAATTATATATTATATGTTTTCAAAATTACTTTAAAAACTATATACCATATA-TTTTCA
1 TTTTAAAAATTATATATTATATGTTTTCAAAATTA-TTTTAAAACTATATATTATATATTTTTCA
55993 AAATCG
65 AAATCG
*
55999 TTTTAAAAAAATTATATATTATATGTTTT-AAAATTATTTTAAAAATTATATATTATATATTTTT
1 TTTT--AAAAATTATATATTATATGTTTTCAAAATTATTTT-AAAACTATATATTATATATTTTT
*
56063 TAAAATCG
63 CAAAATCG
*
56071 TTTTAAAAATTATATATTATATATTTTCAAAAGTTATATTTAAAA
1 TTTTAAAAATTATATATTATATGTTTTCAAAA-TTAT-TTTAAAA
56116 TTATTATACA
Statistics
Matches: 163, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
69 32 0.20
70 44 0.27
71 38 0.23
72 46 0.28
73 3 0.02
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (70 bp):
TTTTAAAAATTATATATTATATGTTTTCAAAATTATTTTAAAACTATATATTATATATTTTTCAA
AATCG
Found at i:57818 original size:15 final size:15
Alignment explanation
Indices: 57798--57826 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57788 CCTAAGTTGT
57798 ACTTATAATTTGATC
1 ACTTATAATTTGATC
57813 ACTTATAATTTGAT
1 ACTTATAATTTGAT
57827 GAGTGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTTATAATTTGATC
Found at i:59976 original size:20 final size:21
Alignment explanation
Indices: 59951--59993 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
59941 GATCGAGATG
59951 ATCATTTTCATCTT-TTTTTA
1 ATCATTTTCATCTTCTTTTTA
* *
59971 ATCATTTTCTTTTTCTTTTTA
1 ATCATTTTCATCTTCTTTTTA
59992 AT
1 AT
59994 ATTCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
ATCATTTTCATCTTCTTTTTA
Found at i:60814 original size:20 final size:20
Alignment explanation
Indices: 60789--60826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60779 ATTGTGAAGG
*
60789 GATGCACCGATGCACTCATT
1 GATGCACAGATGCACTCATT
*
60809 GATGCATAGATGCACTCA
1 GATGCACAGATGCACTCA
60827 CCATATCGAA
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:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACAGATGCACTCATT
Found at i:60904 original size:64 final size:63
Alignment explanation
Indices: 60831--60987 Score: 230
Period size: 64 Copynumber: 2.5 Consensus size: 63
60821 CACTCACCAT
*
60831 ATCGAATGCATTTCT-TGCATCGATTCACTACCATGCATCGATGCACTCAGG-TT-TTATGAAAA
1 ATCGAATGCATTT-TATGCATCGATGCACTACCATGCATCGATGCACTCAGGCTTGTT-TG--AA
60893 AC
62 AC
*
60895 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
1 ATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
60959 ATCGAATGCATTTTATGCATCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACT
60988 CTTAGTGCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.66
65 22 0.26
66 4 0.05
67 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
Found at i:61002 original size:64 final size:62
Alignment explanation
Indices: 60831--61006 Score: 214
Period size: 64 Copynumber: 2.7 Consensus size: 62
60821 CACTCACCAT
*
60831 ATCGAATGCATTTCT-TGCATCGATTCACTACCATGCATCGATGCACTCAGGTTTTATGAAAAAC
1 ATCGAATGCATTT-TATGCATCGATGCACT-CCATGCATCGATGCACTCAGGTTTTATG-AAAAC
*
60895 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-TG-AAA
1 ATCGAATGCATTTTATGCATCGATGCAC--TCCATGCATCGATGCACTCAGG-TT-TTATGAAAA
60958 C
62 C
* *
60959 ATCGAATGCATTTTATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACTC-CA-TGCATCGATGCACT
61007 AAGGGTCCAA
Statistics
Matches: 100, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 70 0.70
65 21 0.21
66 4 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (62 bp):
ATCGAATGCATTTTATGCATCGATGCACTCCATGCATCGATGCACTCAGGTTTTATGAAAAC
Found at i:61079 original size:21 final size:21
Alignment explanation
Indices: 61053--61103 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
61043 TAGTGTACTG
*
61053 ATGCACTAGCCTTATGCATCA
1 ATGCACCAGCCTTATGCATCA
*
61074 ATGCACCAGCCTTATGCATCG
1 ATGCACCAGCCTTATGCATCA
61095 ATGCACCAG
1 ATGCACCAG
61104 ACGCTCCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (21 bp):
ATGCACCAGCCTTATGCATCA
Found at i:67201 original size:103 final size:103
Alignment explanation
Indices: 66981--67193 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
66971 GGGTCTACGC
*
66981 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
***
67046 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCAAGCATATGTATATGATTCTTAAGGAATGATATGT
*
67084 GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
*
67149 CCCAAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCAAGCATATGTATATGATTCTTAAGGAATGATATGT
67187 GGTCCTT
1 GGTCCTT
67194 ATGGACATTA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
CCCAAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:67237 original size:23 final size:23
Alignment explanation
Indices: 67210--67277 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
67200 ATTATTATAT
67210 GGCACTATGGTGCAATTCTACGC
1 GGCACTATGGTGCAATTCTACGC
** *
67233 GGCACTCCGGTGCAATTCTACGT
1 GGCACTATGGTGCAATTCTACGC
* *
67256 GGCACTTTGGTGCAATTATACG
1 GGCACTATGGTGCAATTCTACG
67278 AGCTGTGGTG
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:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTATGGTGCAATTCTACGC
Found at i:67656 original size:16 final size:16
Alignment explanation
Indices: 67605--67657 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
67595 TGTATGTGAT
67605 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
67623 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
67639 ATATGATATATGTGTG
1 ATATGATATATGTGTG
67655 ATA
1 ATA
67658 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:70135 original size:23 final size:23
Alignment explanation
Indices: 70063--70144 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
70053 ACACTAAATA
* *
70063 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CTCATTGAAT
*
70087 GTGCATCGATACA-TCA-TGAA-
1 GTGCATCGATGCACTCATTGAAT
*
70107 GATGCACCGATGCACTCATTGAAT
1 G-TGCATCGATGCACTCATTGAAT
70131 GTGCATCGATGCAC
1 GTGCATCGATGCAC
70145 ACTGTCATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
22 4 0.08
23 16 0.33
24 13 0.27
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACTCATTGAAT
Found at i:72810 original size:20 final size:20
Alignment explanation
Indices: 72785--72822 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72775 ACTGTGAAGG
*
72785 GATGCACCGTTGCACTCATT
1 GATGCACCGATGCACTCATT
*
72805 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
72823 CCATATCGAA
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:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:72898 original size:64 final size:63
Alignment explanation
Indices: 72827--72983 Score: 228
Period size: 64 Copynumber: 2.5 Consensus size: 63
72817 CACTCACCAT
* *
72827 ATCGAATGCATTTCATGCATCGATGCACTACCATGCATCGATGCACTC-AGGTT-TTATGAAAAA
1 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAAGCTTGTT-TG--AAA
72890 C
63 C
* *
72891 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAAGCTTGTTTGAATC
1 ATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCAAGCTTGTTTGAAAC
72955 ATCGAATGCATTTTATGCATCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACT
72984 CTTAGTGCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
64 58 0.68
65 19 0.22
66 6 0.07
67 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAAGCTTGTTTGAAAC
Found at i:80277 original size:21 final size:21
Alignment explanation
Indices: 80251--80290 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80241 TCACCTTTGA
*
80251 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
80272 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
80291 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:84219 original size:227 final size:225
Alignment explanation
Indices: 83809--84225 Score: 593
Period size: 227 Copynumber: 1.8 Consensus size: 225
83799 AACATAACCG
* * * *
83809 GTTAATTACTAGAAACATTATCAACTATAATAACATAACAGGTAGCGCTTATGTAATGTAATATG
1 GTTAATTACCAGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAATGTAATAGG
** ** *
83874 TAGCGCATTTTTAAAGCTGATGGGCATTAAAAATTTGACGATAACAAAATAGATTAATTACTTGA
66 TAGCGCATTTTTAAAGCTGATGAACATTAAAAATCCGACGATAACAAAATAGATTAATTACTTAA
* *
83939 TTTGTTATCAATATTATCAACATATTAGGTTGCACCTAAAATGTTACCAAAGTTTAAGCTGATGG
131 TTTGTTATCAATATTATCAACATATTAGGATGCACCTAAAATATTACCAAAGTTTAAGCTGATGG
84004 AGCTTTAGAAATATGATGATAACAAAACAA
196 AGCTTTAGAAATATGATGATAACAAAACAA
* *
84034 GTTAATTACCGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGG
1 GTTAATTACCAGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAATGTAATAGG
* * * * * *
84099 TAGCTCTTTTTTTAAAGCTGATGAAACCTTAGAAATCCGACGATAACAAAATAGGTTAATTATTT
66 TAGCGC-ATTTTTAAAGCTGATG-AACATTAAAAATCCGACGATAACAAAATAGATTAATTACTT
** * *
84164 AATTTGTTATCAATATTATCAACATATTAGGCAT-CGTCTAAATTATTATCAAAGTTTAAGCT
129 AATTTGTTATCAATATTATCAACATATTAGG-ATGCACCTAAAATATTACCAAAGTTTAAGCT
84226 AATAGGGCCT
Statistics
Matches: 166, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
225 64 0.39
226 15 0.09
227 86 0.52
228 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (225 bp):
GTTAATTACCAGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAATGTAATAGG
TAGCGCATTTTTAAAGCTGATGAACATTAAAAATCCGACGATAACAAAATAGATTAATTACTTAA
TTTGTTATCAATATTATCAACATATTAGGATGCACCTAAAATATTACCAAAGTTTAAGCTGATGG
AGCTTTAGAAATATGATGATAACAAAACAA
Found at i:84302 original size:108 final size:108
Alignment explanation
Indices: 84125--84410 Score: 299
Period size: 108 Copynumber: 2.6 Consensus size: 108
84115 GCTGATGAAA
* * * * * *
84125 CCTTAGAAATCCGACGATAACAAAATAGGTTAATTATTTAATTTGTTATCAATATTATCAACATA
1 CCTTACAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAAAATTATTAACATA
* * * *
84190 TTAGGCATCGTCTAAATTATTATCAAAGTTTAAGCTAATAGGG
66 TTAGGCAGCGCCTAAAATATTACCAAAGTTTAAGCTAATAGGG
* * *
84233 CCTTACAAATCCGACGATAACAAAATAGGTCAATTACTTATTTTGTTATTAAAATTATTAACATG
1 CCTTACAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAAAATTATTAACATA
* * * * *
84298 TTAGGTAGCGCCTAAAATGTTACCAAATTTTAAGCTGATGGGG
66 TTAGGCAGCGCCTAAAATATTACCAAAGTTTAAGCTAATAGGG
* * * * * *
84341 CATT-CGAAATCTC-ACGACAA-TAAATATGTTAATTTCTTATTTTGTTATAAATAAATATTAAC
1 CCTTAC-AAATC-CGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAA-AATTATTAAC
*
84403 ATACTAGG
63 ATATTAGG
84411 TTGCACTCAA
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
107 27 0.18
108 120 0.81
109 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (108 bp):
CCTTACAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAAAATTATTAACATA
TTAGGCAGCGCCTAAAATATTACCAAAGTTTAAGCTAATAGGG
Found at i:84808 original size:23 final size:23
Alignment explanation
Indices: 84782--84832 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
84772 AGATAGCGCT
*
84782 TATTTAACGCAATAAGTAGAGCC
1 TATTTAACACAATAAGTAGAGCC
* *
84805 TATTTAACATAATAAGTAGCGCC
1 TATTTAACACAATAAGTAGAGCC
84828 TATTT
1 TATTT
84833 TATTTTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (23 bp):
TATTTAACACAATAAGTAGAGCC
Found at i:84905 original size:75 final size:75
Alignment explanation
Indices: 84826--85138 Score: 378
Period size: 75 Copynumber: 4.2 Consensus size: 75
84816 ATAAGTAGCG
* * * * * *
84826 CCTATTTTATTTTACCATTTACATTATTATTAAACTTTAAACAAATCGATAGCTAGTTTAACGTA
1 CCTATTTTATTTTACCGTTTACATTATTAGTAAACTTTAAATAAACCGGTAGGTAGTTTAACGTA
84891 ATATATAACA
66 ATATATAACA
**
84901 CCTATTTTATTTTACCGTTTACATTATTAGT-AACATTTAAATAAGTCGGTAGGTAGTTT-ACGT
1 CCTATTTTATTTTACCGTTTACATTATTAGTAAAC-TTTAAATAAACCGGTAGGTAGTTTAACGT
* * *
84964 AATAGACAATA
65 AATATATAACA
** * * ** *
84975 TTTATTTTATTTTACCGTTTATATTATTAGTAATCTTTAAATAAACCGGTATATATTTTAACGTA
1 CCTATTTTATTTTACCGTTTACATTATTAGTAAACTTTAAATAAACCGGTAGGTAGTTTAACGTA
* *
85040 ATATGTAACG
66 ATATATAACA
* * *
85050 CCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAATAAACCGGTAGGTAGTTTAACATA
1 CCTATTTTATTTTACCGTTTACATTATTAGTAAACTTTAAATAAACCGGTAGGTAGTTTAACGTA
* *
85115 ATATGTAGCA
66 ATATATAACA
85125 CCTATTTTATTTTA
1 CCTATTTTATTTTA
85139 ACCGATTAAG
Statistics
Matches: 201, Mismatches: 34, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
74 62 0.31
75 139 0.69
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (75 bp):
CCTATTTTATTTTACCGTTTACATTATTAGTAAACTTTAAATAAACCGGTAGGTAGTTTAACGTA
ATATATAACA
Found at i:85003 original size:149 final size:149
Alignment explanation
Indices: 84828--85109 Score: 420
Period size: 149 Copynumber: 1.9 Consensus size: 149
84818 AAGTAGCGCC
* * *
84828 TATTTTATTTTACCATTTACATTATTATTAAACTTTAAACAAATCGATAGCTAGTTTAACGTAAT
1 TATTTTATTTTACCATTTACATTATTAGTAAACTTTAAACAAACCGATAGATAGTTTAACGTAAT
* **
84893 ATATAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAATAAGTCGGTAGGTAGT
66 ATATAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTCAAATAAACCGGTAGGTAGT
84958 TTACGTAATAGACAATATT
131 TTACGTAATAGACAATATT
* * * * * * *
84977 TATTTTATTTTACCGTTTATATTATTAGTAATCTTTAAATAAACCGGTATATATTTTAACGTAAT
1 TATTTTATTTTACCATTTACATTATTAGTAAACTTTAAACAAACCGATAGATAGTTTAACGTAAT
* * *
85042 ATGTAACGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAATAAACCGGTAGGTAGT
66 ATATAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTCAAATAAACCGGTAGGTAGT
85107 TTA
131 TTA
85110 ACATAATATG
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
149 117 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (149 bp):
TATTTTATTTTACCATTTACATTATTAGTAAACTTTAAACAAACCGATAGATAGTTTAACGTAAT
ATATAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTCAAATAAACCGGTAGGTAGT
TTACGTAATAGACAATATT
Found at i:99324 original size:17 final size:17
Alignment explanation
Indices: 99302--99335 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99292 ATCTGGTTTG
99302 ACCGGATGGCACTTATC
1 ACCGGATGGCACTTATC
*
99319 ACCGGATGGTACTTATC
1 ACCGGATGGCACTTATC
99336 GACGCTGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (17 bp):
ACCGGATGGCACTTATC
Done.