Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001781.1 Hibiscus syriacus cultivar Beakdansim tig00003598_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: 123647
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1558 original size:57 final size:58
Alignment explanation
Indices: 1472--1667 Score: 285
Period size: 57 Copynumber: 3.4 Consensus size: 58
1462 ATGACACTTT
* *
1472 GTGTGCTAAAATGATAAGAAA-AATCACTGAGTGTATAGATTTTCATATGGAGCACTAA
1 GTGTGCTAAAATGATAAGAAATCAT-ACTGAGTGTATAGATTTTCATATGGAGCACTGA
1530 GTGTGCT-AAATGATAAGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
* * *
1587 GTGTGCTAAAATGATAAGAAAATCATACTGATTGTATATA-TTTCATATGGAACACTGA
1 GTGTGCTAAAATGATAAG-AAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
*
1645 GTGTGCT--AATGATAAGGAATCAT
1 GTGTGCTAAAATGATAAGAAATCAT
1668 TTGAAATAGG
Statistics
Matches: 129, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
55 6 0.05
56 9 0.07
57 52 0.40
58 43 0.33
59 19 0.15
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (58 bp):
GTGTGCTAAAATGATAAGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
Found at i:1948 original size:17 final size:18
Alignment explanation
Indices: 1923--1956 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1913 GATTGTATAT
1923 ATTCATTGGA-ATTAAAG
1 ATTCATTGGAGATTAAAG
*
1940 ATTCCTTGGAGATTAAA
1 ATTCATTGGAGATTAAA
1957 TCAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
ATTCATTGGAGATTAAAG
Found at i:10679 original size:24 final size:26
Alignment explanation
Indices: 10652--10711 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 26
10642 GTTATGAAAG
*
10652 ATTTAAGTGAAAGAGTTT-TAA-TGA
1 ATTTAAGTAAAAGAGTTTATAAGTGA
**
10676 ATTTCTGTAAAAGAGTTTATAAGTTGA
1 ATTTAAGTAAAAGAGTTTATAAG-TGA
10703 ATTTGAAGT
1 ATTT-AAGT
10712 TAATTTCGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 15 0.56
25 3 0.11
27 7 0.26
28 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (26 bp):
ATTTAAGTAAAAGAGTTTATAAGTGA
Found at i:13127 original size:59 final size:59
Alignment explanation
Indices: 13064--13266 Score: 372
Period size: 59 Copynumber: 3.5 Consensus size: 59
13054 ATGGCACTTT
13064 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
13123 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
* *
13182 GTGTGCTAAAATGATAAGAAAATCATACTGACTGTATATATTTTCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
*
13241 GTGTGCT-AAATGATAAGGAAATCATA
1 GTGTGCTAAAATGATAAGAAAATCATA
13267 TTGAAAATAT
Statistics
Matches: 141, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
58 18 0.13
59 123 0.87
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
Found at i:13343 original size:118 final size:118
Alignment explanation
Indices: 13064--13336 Score: 322
Period size: 118 Copynumber: 2.3 Consensus size: 118
13054 ATGGCACTTT
*
13064 GTGTGCTAAAATGATAAGAAAATCATACTGA-GTGTATAGATTTTCATATGGAGCACTGAGTGTG
1 GTGTGCTAAAATGATAAGAAAATCATACTAATG-GTATAGATTTTCATATGGAGCACTGAGTGTG
*** * *
13128 CTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
65 CTAAAATGATAAGAAAATCATACTGAAAATATAGATTTCCAAATGGAGCACTGA
* *
13182 GTGTGCTAAAATGATAAGAAAATCATACTGACT-GTATATATTTTCATATGGAGCACTGAGTGTG
1 GTGTGCTAAAATGATAAGAAAATCATACT-AATGGTATAGATTTTCATATGGAGCACTGAGTGTG
* * * * *
13246 CT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGG-GCATTTTA
65 CTAAAATGATAAGAAAATCATACTGAAAATATAGATTTCCAAAT-GGAGCA-CTGA
* * *
13300 -TTTGCTAAAATGGTAACAAAAATCATACTAATGGTAT
1 GTGTGCTAAAATGATAA-GAAAATCATACTAATGGTAT
13337 GAATTTTTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
117 52 0.39
118 80 0.61
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (118 bp):
GTGTGCTAAAATGATAAGAAAATCATACTAATGGTATAGATTTTCATATGGAGCACTGAGTGTGC
TAAAATGATAAGAAAATCATACTGAAAATATAGATTTCCAAATGGAGCACTGA
Found at i:13558 original size:17 final size:18
Alignment explanation
Indices: 13533--13566 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13523 ATTGTAGTAT
13533 ATTCATTGGA-ATTAAAG
1 ATTCATTGGAGATTAAAG
*
13550 ATTCCTTGGAGATTAAA
1 ATTCATTGGAGATTAAA
13567 TATAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
ATTCATTGGAGATTAAAG
Found at i:20824 original size:2 final size:2
Alignment explanation
Indices: 20817--20841 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20807 GGATTATAGA
20817 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 A
20842 AAAAGAGGGT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22962 original size:21 final size:21
Alignment explanation
Indices: 22935--23090 Score: 120
Period size: 21 Copynumber: 7.6 Consensus size: 21
22925 GCGTTGCATT
22935 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
22956 TCACGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
22976 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
22997 TCGCGTTGCAAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
23017 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
23038 TCGCGTTGCGCT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
23058 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
23079 TCGCGTTGCGAT
1 TCGCGTTGCGAT
23091 TTTCCATTTC
Statistics
Matches: 94, Mismatches: 38, Indels: 6
0.68 0.28 0.04
Matches are distributed among these distances:
20 41 0.44
21 53 0.56
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:22978 original size:41 final size:41
Alignment explanation
Indices: 22931--23113 Score: 330
Period size: 41 Copynumber: 4.5 Consensus size: 41
22921 ATTCGCGTTG
*
22931 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
22972 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
23013 CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGCTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
23054 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
23095 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
23114 CTACAGTTGT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:22984 original size:20 final size:20
Alignment explanation
Indices: 22959--23110 Score: 115
Period size: 20 Copynumber: 7.5 Consensus size: 20
22949 TTGAAAATCA
22959 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
22979 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
*
23000 CGTTGCAATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* * ** **
23020 CGTTACGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
*
23041 CGTTGCGCTTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
23061 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
23082 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
23102 CGTTGCGAT
1 CGTTGCGAT
23111 AGTCTACAGT
Statistics
Matches: 93, Mismatches: 36, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
20 51 0.55
21 42 0.45
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:23130 original size:22 final size:22
Alignment explanation
Indices: 23102--23195 Score: 131
Period size: 22 Copynumber: 4.4 Consensus size: 22
23092 TTCCATTTCG
23102 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
23124 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
23143 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
23165 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
23187 CGTTGCGAT
1 CGTTGCGAT
23196 TTTCCAAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 10 0.16
20 5 0.08
21 5 0.08
22 41 0.67
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:23147 original size:41 final size:41
Alignment explanation
Indices: 22959--23173 Score: 165
Period size: 41 Copynumber: 5.2 Consensus size: 41
22949 TTGAAAATCA
* * * *
22959 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
* * * * * *
23000 CGTTGCAATTTTCCATTTCGCGTTACGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
* * * * *
23041 CGTTGCGCTTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
*
23082 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
23124 CGTTGCGATTTTCCAAATT-CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGT
23165 CGTTGCGAT
1 CGTTGCGAT
23174 AGTCTACAGT
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
41 143 0.89
42 15 0.09
43 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGT
Found at i:23147 original size:82 final size:81
Alignment explanation
Indices: 22931--23154 Score: 308
Period size: 82 Copynumber: 2.7 Consensus size: 81
22921 ATTCGCGTTG
* *
22931 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGTTGAAA
22996 ATCGCGTTGCAATTTTC
65 ATCGCGTTGCAATTTTC
*
23013 CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGTTGAAA
*
23078 ATCGCGTTGCGATTTTC
65 ATCGCGTTGCAATTTTC
* * * * *
23095 CATTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT-CGTTGCGATAGT
1 CATTTCGCGTTACGATAGT-TGAAAATCG-CGTTGCGATTTTCC-ATTTCCGTTGCGATAGT
23155 CTACAGTTGT
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
82 112 0.87
83 14 0.11
84 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (81 bp):
CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCCGTTGCGATAGTTGAAAA
TCGCGTTGCAATTTTC
Found at i:23951 original size:22 final size:22
Alignment explanation
Indices: 23921--23995 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
23911 TTTTTTTTTA
23921 ACTATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
* * *
23943 ACTACCGCAACG--AA-TTTGG
1 ACTATCGCAACGACAACTGTAG
**
23962 AAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
23984 ACTATCGCAACG
1 ACTATCGCAACG
23996 CGAAATGGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 12 0.30
20 2 0.05
21 2 0.05
22 24 0.60
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAG
Found at i:23981 original size:41 final size:41
Alignment explanation
Indices: 23924--24015 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
23914 TTTTTTAACT
*
23924 ATCGCAACGACAACTGTAGACTACCGCAA-CGAATTTGGAAA
1 ATCGCAACGACAACTGTAGACTACCGCAACCGAA-ATGGAAA
*
23965 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAACTGTAGACTACCGCAAC-CGAAATGGAAA
24007 ATCGCAACG
1 ATCGCAACG
24016 CGAAATGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 28 0.60
42 15 0.32
43 4 0.09
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (41 bp):
ATCGCAACGACAACTGTAGACTACCGCAACCGAAATGGAAA
Found at i:24012 original size:20 final size:20
Alignment explanation
Indices: 23987--24042 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
23977 ACTGTAGACT
23987 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
24007 ATCGCAACGCGAAATGTAAA
1 ATCGCAACGCGAAATGGAAA
24027 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
24043 CAACGCGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:25531 original size:14 final size:13
Alignment explanation
Indices: 25497--25525 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25487 TAAAACACAT
25497 GGGCTGCTAAGGG
1 GGGCTGCTAAGGG
25510 GGGCTGCTAAGGG
1 GGGCTGCTAAGGG
25523 GGG
1 GGG
25526 GTTGCTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.59, T:0.14
Consensus pattern (13 bp):
GGGCTGCTAAGGG
Found at i:26714 original size:15 final size:16
Alignment explanation
Indices: 26694--26725 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26684 TGGCAGATCC
26694 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
26709 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
26725 A
1 A
26726 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:30020 original size:15 final size:13
Alignment explanation
Indices: 29985--30013 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
29975 TAAAACACAT
29985 GGGCTGCTAAGGG
1 GGGCTGCTAAGGG
29998 GGGCTGCTAAGGG
1 GGGCTGCTAAGGG
30011 GGG
1 GGG
30014 GGCTGCTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.59, T:0.14
Consensus pattern (13 bp):
GGGCTGCTAAGGG
Found at i:33153 original size:2 final size:2
Alignment explanation
Indices: 33146--33171 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33136 TGTATTCTCT
33146 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
33172 GGCAAGATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36176 original size:33 final size:33
Alignment explanation
Indices: 36094--36177 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
36084 CAGGCCTCGA
* *
36094 CACAAGCATGTATGAGCAGACTTTGCCCATCGC
1 CACAAGCATGTATGAGGAGACTTTACCCATCGC
* *
36127 TACAAGCATGTATGAGGAGACTTTACCCATCTC
1 CACAAGCATGTATGAGGAGACTTTACCCATCGC
*
36160 CACGAGCATGTATGAGGA
1 CACAAGCATGTATGAGGA
36178 AACATTGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (33 bp):
CACAAGCATGTATGAGGAGACTTTACCCATCGC
Found at i:36621 original size:60 final size:59
Alignment explanation
Indices: 36526--36993 Score: 412
Period size: 60 Copynumber: 7.9 Consensus size: 59
36516 TGACCTTAGA
** ** *
36526 AGAAGAAAATCCTAGTATTCCCAGAACCTCAGGTGAAGAAACTCCAGCTATTCCCTCGGTC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCCT-GG-C
* *
36587 -GAAGAAACCCCTATTGTTCCCAGAACCTTGGGTGAAGAAACTCCAGCCA-TCCCTGTGGC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCC--TGGC
* * * * * *
36646 AGAAGAAACCCCTAGTACTCCCACAACCTTAGGTGAAGAAACTACTGCTATTCCCTTGGC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCC-TGGC
* * * * * * * *
36706 GGATGAAGCCACTAGTATTCCCAGAACCTTGGTTGAAGAAACGCCAACTATTCCACTGGC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCC-CTGGC
* * * * * * * * *
36766 CGAAGAAGCCCGTAGTATTTCCAGAA-C----G-AAAGAAACACCAGTCATTTCCATGGA
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCA-TTCCCTGGC
** * * *
36820 AGAAGACTCCCCTAGCATTCCCAGAACCTTGGCTGAAGAAACTCCTGCCATTCCCTTGGC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCC-TGGC
* *
36880 AGAAGAAACCCCCAGTATTCCCAGAACCTTGAGTGAAGAAACTCCAGCCATTCCCTTGGC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCC-TGGC
* * * * * *
36940 AGAAGAAACCCTTAGTATTCCTAGAATCTTAGGCGAAGAAACACCAGCCATTCC
1 AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCC
36994 TGAAACTTTC
Statistics
Matches: 325, Mismatches: 69, Indels: 27
0.77 0.16 0.06
Matches are distributed among these distances:
54 34 0.10
55 5 0.02
59 10 0.03
60 270 0.83
61 6 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (59 bp):
AGAAGAAACCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCCAGCCATTCCCTGGC
Found at i:36872 original size:33 final size:33
Alignment explanation
Indices: 36835--36934 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
36825 ACTCCCCTAG
*
36835 CATTCCCAGAACCTTGGCTGAAGAAACTCCTGC
1 CATTCCCAGAACCTTGGCTGAAGAAACTCCAGC
* *
36868 CATT--C----CCTTGGCAGAAGAAACCCCCAG-
1 CATTCCCAGAACCTTGGCTGAAGAAA-CTCCAGC
*
36895 TATTCCCAGAACCTTGAG-TGAAGAAACTCCAGC
1 CATTCCCAGAACCTTG-GCTGAAGAAACTCCAGC
36928 CATTCCC
1 CATTCCC
36935 TTGGCAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
27 17 0.33
28 4 0.08
29 1 0.02
31 1 0.02
32 5 0.10
33 22 0.43
34 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
CATTCCCAGAACCTTGGCTGAAGAAACTCCAGC
Found at i:36944 original size:27 final size:27
Alignment explanation
Indices: 36846--36948 Score: 75
Period size: 27 Copynumber: 3.6 Consensus size: 27
36836 ATTCCCAGAA
* *
36846 CCTTGGCTGAAGAAACTCCTGCCATTC
1 CCTTGGCAGAAGAAACTCCAGCCATTC
* *
36873 CCTTGGCAGAAGAAACCCCCAG-TATTCCC
1 CCTTGGCAGAAGAAA-CTCCAGCCATT--C
*
36902 AGAACCTTGAG-TGAAGAAACTCCAGCCATTC
1 ----CCTTG-GCAGAAGAAACTCCAGCCATTC
36933 CCTTGGCAGAAGAAAC
1 CCTTGGCAGAAGAAAC
36949 CCTTAGTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
26 1 0.02
27 30 0.52
28 4 0.07
29 1 0.02
31 1 0.02
32 5 0.09
33 15 0.26
34 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.19
Consensus pattern (27 bp):
CCTTGGCAGAAGAAACTCCAGCCATTC
Found at i:37392 original size:33 final size:33
Alignment explanation
Indices: 37311--37381 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
37301 GAAGAATCTG
37311 CAACTAT-TCCGACAACCTTGGCCGAGGGAACTT
1 CAACTATCT-CGACAACCTTGGCCGAGGGAACTT
**
37344 CAACTATCTCGACAACCTTGGGTGA-GGAAGCTT
1 CAACTATCTCGACAACCTTGGCCGAGGGAA-CTT
37377 CAACT
1 CAACT
37382 GTTCTCACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 29 0.85
34 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (33 bp):
CAACTATCTCGACAACCTTGGCCGAGGGAACTT
Found at i:40567 original size:24 final size:23
Alignment explanation
Indices: 40515--40568 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
40505 TAGTATATAA
*
40515 AATAATAATCAAATTATATTTTT
1 AATAATAATCAAATTATATTGTT
*
40538 AGATAATAATTAATATTAT-TATGTT
1 A-ATAATAATCAA-ATTATAT-TGTT
40563 AATAAT
1 AATAAT
40569 TTTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
AATAATAATCAAATTATATTGTT
Found at i:44673 original size:17 final size:17
Alignment explanation
Indices: 44651--44684 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44641 AGATGATCGT
*
44651 GATTCAATATATATGAA
1 GATTCAACATATATGAA
44668 GATTCAACATATATGAA
1 GATTCAACATATATGAA
44685 AAAGGATTAC
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:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (17 bp):
GATTCAACATATATGAA
Found at i:45805 original size:20 final size:20
Alignment explanation
Indices: 45780--45870 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
45770 TAAATTAAAT
*
45780 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
45800 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
45820 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
45832 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
45852 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
45871 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:45857 original size:52 final size:52
Alignment explanation
Indices: 45779--45926 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
45769 CTAAATTAAA
*
45779 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
45831 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
45884 TATTAGATAGGATCATTTTTAATTAAATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
45927 TTGTTGCTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.38
53 50 0.54
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:45913 original size:20 final size:20
Alignment explanation
Indices: 45885--45924 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45875 TCTATTAGTT
* *
45885 ATTAGATAGGATCATTTTTA
1 ATTAAATAGAATCATTTTTA
45905 ATTAAATAGAATCATTTTTA
1 ATTAAATAGAATCATTTTTA
45925 TTTTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTAAATAGAATCATTTTTA
Found at i:52599 original size:20 final size:20
Alignment explanation
Indices: 52574--52612 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52564 TAAATTAAAT
*
52574 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
52594 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
52613 TATTCTATTA
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:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:52651 original size:52 final size:52
Alignment explanation
Indices: 52573--52720 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
52563 CTAAATTAAA
*
52573 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
*
52625 TATTAGATAGGATCTTTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
52678 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
52721 TTGTTGCTAA
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 8 0.09
52 34 0.37
53 50 0.54
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:52664 original size:20 final size:20
Alignment explanation
Indices: 52626--52664 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52616 TCTATTAGTT
* **
52626 ATTAGATAGGATCTTTTTTA
1 ATTAGATAGAATCAGTTTTA
52646 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
52665 TTATTCTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:52704 original size:20 final size:20
Alignment explanation
Indices: 52679--52718 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
52669 TCTATTAGTT
*
52679 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
52699 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
52719 TTTTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:57340 original size:31 final size:31
Alignment explanation
Indices: 57302--57370 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
57292 TAACCATGAA
* * *
57302 ATATTTGCAATTTCTGCATTGATGTCATCTT
1 ATATTTGCAATTACAGCATTGATGCCATCTT
*
57333 ATATTTGCAATTACAGTATTGATGCCATCTT
1 ATATTTGCAATTACAGCATTGATGCCATCTT
57364 ATATTTG
1 ATATTTG
57371 TTCAAATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (31 bp):
ATATTTGCAATTACAGCATTGATGCCATCTT
Found at i:61425 original size:21 final size:20
Alignment explanation
Indices: 61339--61496 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
61329 AAATGACCAA
**
61339 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
61358 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
61378 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
61398 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
61419 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
61440 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
61460 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
61481 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
61497 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:61528 original size:20 final size:20
Alignment explanation
Indices: 61463--61672 Score: 201
Period size: 20 Copynumber: 10.5 Consensus size: 20
61453 CGATTTTCCA
* ** *
61463 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
61483 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
61503 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61523 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61543 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61563 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61583 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
61603 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
61623 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
61643 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
61663 AAATCACAAC
1 AAATCGCAAC
61673 ACTGAAATTT
Statistics
Matches: 158, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 154 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:62586 original size:12 final size:12
Alignment explanation
Indices: 62569--62593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62559 CATATATCCT
62569 GAAGAAGAAAAA
1 GAAGAAGAAAAA
62581 GAAGAAGAAAAA
1 GAAGAAGAAAAA
62593 G
1 G
62594 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:64958 original size:19 final size:19
Alignment explanation
Indices: 64918--65014 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
64908 GATTCTCTCG
64918 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
64938 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
64957 TTGCGA---TC-TCTCG--
1 TTGCGATTTTCATTTCGCA
64970 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
64989 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
65008 TTGCGAT
1 TTGCGAT
65015 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
13 6 0.09
15 4 0.06
16 4 0.06
17 4 0.06
19 36 0.52
20 15 0.22
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:65007 original size:51 final size:52
Alignment explanation
Indices: 64899--65014 Score: 216
Period size: 51 Copynumber: 2.2 Consensus size: 52
64889 GAAATGAAAA
64899 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
64952 TCGCATTGCGATCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
65003 TCGCATTGCGAT
1 TCGCATTGCGAT
65015 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 30 0.48
52 22 0.35
53 11 0.17
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:65125 original size:33 final size:33
Alignment explanation
Indices: 65073--65234 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
65063 CCATTACATT
65073 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
65107 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
65139 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
65178 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
65211 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
65235 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 54 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:65129 original size:19 final size:19
Alignment explanation
Indices: 65073--65240 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
65063 CCATTACATT
65073 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
65093 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
65107 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
65126 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
65145 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
65159 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
65178 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
65197 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
65211 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
65230 TCGCATTGCGA
1 TCGCAATGCGA
65241 TTCTCCCATT
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 71 0.57
20 6 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:65152 original size:52 final size:52
Alignment explanation
Indices: 65073--65240 Score: 309
Period size: 52 Copynumber: 3.2 Consensus size: 52
65063 CCATTACATT
65073 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
65126 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
65178 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
65230 TCGCATTGCGA
1 TCGCAATGCGA
65241 TTCTCCCATT
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 104 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:65289 original size:19 final size:19
Alignment explanation
Indices: 65247--65346 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
65237 GCGATTCTCC
65247 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
65267 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
65286 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
65302 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
65319 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
65338 CATTGCGAT
1 CATTGCGAT
65347 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:65343 original size:52 final size:53
Alignment explanation
Indices: 65230--65346 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
65220 GAAATTAAAA
65230 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
65283 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
65335 TCGCATTGCGAT
1 TCGCATTGCGAT
65347 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:65471 original size:14 final size:14
Alignment explanation
Indices: 65452--65488 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
65442 CATCAATTAC
65452 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
65466 ACAAATCATCTTTT
1 ACAAATCAACTTTT
65480 ACAAATCAA
1 ACAAATCAA
65489 TTAAACAATC
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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:65570 original size:11 final size:11
Alignment explanation
Indices: 65554--65587 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65544 AACTTTTACA
65554 AATCAATAAAC
1 AATCAATAAAC
*
65565 AATCAAAAAAC
1 AATCAATAAAC
65576 AATCAATTAAAC
1 AATCAA-TAAAC
65588 TATTGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (11 bp):
AATCAATAAAC
Found at i:67475 original size:14 final size:14
Alignment explanation
Indices: 67456--67512 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
67446 GCGAAATGAA
*
67456 AATCGCAACGACAG
1 AATCGCAACGAAAG
67470 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
67487 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
67503 AATCGCAACG
1 AATCGCAACG
67513 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:67483 original size:33 final size:33
Alignment explanation
Indices: 67437--67529 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
67427 GCGAAACCAA
*
67437 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
67470 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
67503 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
67530 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:67494 original size:19 final size:19
Alignment explanation
Indices: 67400--67534 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
67390 TAGTTTACTT
* *
67400 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
67420 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
67439 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
67458 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
67472 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
67491 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
67505 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
67524 TCGCAATGCGA
1 TCGCAACGCGA
67535 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:67552 original size:19 final size:19
Alignment explanation
Indices: 67530--67658 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
67520 AAAATCGCAA
67530 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
67549 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
67563 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
67582 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
67596 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
67615 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
67634 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
67654 TGCGA
1 TGCGA
67659 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:67572 original size:33 final size:33
Alignment explanation
Indices: 67530--67621 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
67520 AAAATCGCAA
67530 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
67563 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
67596 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
67622 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:67859 original size:92 final size:93
Alignment explanation
Indices: 67702--68078 Score: 708
Period size: 92 Copynumber: 4.1 Consensus size: 93
67692 TTGAATGGAT
67702 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67766 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
67794 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67858 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
67886 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67949 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
67977 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
68042 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
68070 AAATTTACT
1 AAATTTACT
68079 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
91 90 0.32
92 130 0.47
93 58 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:69798 original size:14 final size:14
Alignment explanation
Indices: 69779--69868 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
69769 TTGAAATGAA
69779 AATCGCAACGAGAG
1 AATCGCAACGAGAG
69793 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
69810 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
69826 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
69845 AATCGCAACGAGAG
1 AATCGCAACGAGAG
69859 AATCGCAACG
1 AATCGCAACG
69869 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:69816 original size:33 final size:33
Alignment explanation
Indices: 69771--69885 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
69761 TCTTTTGGTT
69771 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
69804 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
69837 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
69870 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
69886 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:69817 original size:19 final size:18
Alignment explanation
Indices: 69778--69890 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
69768 GTTGAAATGA
69778 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
69793 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
69810 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
69826 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
69843 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
69859 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
69876 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
69891 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:69921 original size:14 final size:14
Alignment explanation
Indices: 69902--69955 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
69892 TTTGGTTTCG
69902 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
69916 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
69935 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
69949 CGTTGCG
1 CGTTGCG
69956 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:69934 original size:33 final size:33
Alignment explanation
Indices: 69886--69966 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
69876 AAAATCGCAA
**
69886 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
69919 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
69952 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
69967 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:70002 original size:41 final size:41
Alignment explanation
Indices: 69942--70019 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
69932 TCGCGTTGCG
* *
69942 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
69983 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
70020 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:70018 original size:21 final size:21
Alignment explanation
Indices: 69943--70018 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
69933 CGCGTTGCGA
*
69943 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
69964 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
69984 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
70005 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
70019 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:70151 original size:33 final size:33
Alignment explanation
Indices: 70098--70168 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
70088 AATACTAACT
* *
70098 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
70131 TGAAAATCGCAACGCCAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
70164 TGAAA
1 TGAAA
70169 TCTAAGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:70399 original size:22 final size:21
Alignment explanation
Indices: 70348--70401 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
70338 TGGTTGTGAG
**
70348 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
70369 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
70391 GGATTTCTTCG
1 GGATTTCTTCG
70402 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:70571 original size:20 final size:20
Alignment explanation
Indices: 70546--70739 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
70536 CTTTAAATAT
70546 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
70566 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
70588 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
70607 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
70627 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
70647 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
70667 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
70687 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
70707 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
70727 CGCGTTGCGATTT
1 CGCGTTGCGATTT
70740 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:70733 original size:60 final size:60
Alignment explanation
Indices: 70546--70739 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
70536 CTTTAAATAT
**
70546 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
70607 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
70667 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
70727 CGCGTTGCGATTT
1 CGCGTTGCGATTT
70740 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:70740 original size:20 final size:20
Alignment explanation
Indices: 70687--70781 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
70677 TTTACGGATA
* *
70687 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
70707 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
70727 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
70748 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
70768 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
70782 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:70756 original size:21 final size:21
Alignment explanation
Indices: 70726--70849 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
70716 ATTTTCATAT
*
70726 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
70747 TCGCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
70767 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
70788 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
70809 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
70830 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
70850 CTGATTTGCG
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 16 0.21
21 59 0.77
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:70765 original size:41 final size:41
Alignment explanation
Indices: 70712--70823 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
70702 GTGTTCGCGT
70712 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
70753 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
*
70794 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
70824 CAAGAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:87890 original size:29 final size:28
Alignment explanation
Indices: 87838--87919 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 28
87828 TTTTAAGTAC
87838 CTAAAGTATTTTTTTGGTCAAAATAAATAA
1 CTAAAGTA-TTTTTT-GTCAAAATAAATAA
* *
87868 CTAAAGTTATTTTTTGTCAAAATAAGTAT
1 CTAAAG-TATTTTTTGTCAAAATAAATAA
*
87897 CTAAAGTATTTTATGTCAAAATA
1 CTAAAGTATTTTTTGTCAAAATA
87920 GGTACCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
28 16 0.33
29 18 0.38
30 12 0.25
31 2 0.04
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (28 bp):
CTAAAGTATTTTTTGTCAAAATAAATAA
Found at i:87907 original size:28 final size:28
Alignment explanation
Indices: 87831--87934 Score: 127
Period size: 28 Copynumber: 3.6 Consensus size: 28
87821 CTTTTCATTT
87831 TAAGTACCTAAAGTATTTTTTTGGTCAAAA
1 TAAGTACCTAAAGTA-TTTTTT-GTCAAAA
* *
87861 TAAATAACTAAAGTTATTTTTTGTCAAAA
1 TAAGTACCTAAAG-TATTTTTTGTCAAAA
* *
87890 TAAGTATCTAAAGTATTTTATGTCAAAA
1 TAAGTACCTAAAGTATTTTTTGTCAAAA
* *
87918 TAGGTACCTAAACTATT
1 TAAGTACCTAAAGTATT
87935 CAAACTTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 28 0.43
29 18 0.28
30 17 0.26
31 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (28 bp):
TAAGTACCTAAAGTATTTTTTGTCAAAA
Found at i:92558 original size:17 final size:16
Alignment explanation
Indices: 92538--92572 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
92528 TACTTAAATT
*
92538 TATTTAATTTAATTATA
1 TATTTAAATTAA-TATA
92555 TATTTAAATTAATATA
1 TATTTAAATTAATATA
92571 TA
1 TA
92573 AATATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTAAATTAATATA
Found at i:97835 original size:17 final size:19
Alignment explanation
Indices: 97813--97863 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 19
97803 GGATGAAACC
97813 TTAAACAAATTATT-TGT-
1 TTAAACAAATTATTATGTA
97830 TTAAACAAATTATTATGTAA
1 TTAAACAAATTATTATGT-A
*
97850 TTAAATAAATTATT
1 TTAAACAAATTATT
97864 CACGACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 14 0.47
18 3 0.10
20 13 0.43
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (19 bp):
TTAAACAAATTATTATGTA
Found at i:98097 original size:99 final size:98
Alignment explanation
Indices: 97979--98224 Score: 323
Period size: 100 Copynumber: 2.5 Consensus size: 98
97969 TAACCGAACT
* * * * * * *
97979 AAATTAATTTGAAATTTATTAACTAAACCGAGTTAACCGTTTTTTTAAATTATTAGTCGAAGCAA
1 AAATTTATTTGAAAATTATTAACTGAACCGAATTAACCGTTTTTTT-AATTATTAATCAAAGAAA
98044 AAATTCGGTTAATTCGGCTC-GATTAATCGAACCA
65 AAATTCGGTTAATTCGGCTCAG-TTAATCGAACCA
* *
98078 AAATTTATTTGAAAATTATTAACCGAACCGAATTAACCGAATTTTTTTAATTATTAATTAAAGAA
1 AAATTTATTTGAAAATTATTAACTGAACCGAATTAACCG--TTTTTTTAATTATTAATCAAAGAA
* *
98143 AAAATTCGGTTAATTGGGTTCAGTTAATCGAACCA
64 AAAATTCGGTTAATTCGGCTCAGTTAATCGAACCA
* *
98178 AAATTTATTCGAAAATTATTAACTGGACCGAATTAACCAGTTTTTTT
1 AAATTTATTTGAAAATTATTAACTGAACCGAATTAACC-GTTTTTTT
98225 CTTTAACCAT
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
99 41 0.32
100 79 0.61
101 9 0.07
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (98 bp):
AAATTTATTTGAAAATTATTAACTGAACCGAATTAACCGTTTTTTTAATTATTAATCAAAGAAAA
AATTCGGTTAATTCGGCTCAGTTAATCGAACCA
Found at i:98788 original size:30 final size:30
Alignment explanation
Indices: 98754--98810 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
98744 AGAATATATA
* *
98754 AATATTAAGGATCAAATGTATAATTATACC
1 AATATTAAGGACCAAATATATAATTATACC
98784 AATATTAAGGACCAAATATATAATTAT
1 AATATTAAGGACCAAATATATAATTAT
98811 GCAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (30 bp):
AATATTAAGGACCAAATATATAATTATACC
Found at i:102278 original size:23 final size:23
Alignment explanation
Indices: 102234--102288 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
102224 GTATAGTATG
** *
102234 CACCGAAGTGCCTTGTATAAATA
1 CACCGAAGTGCCACGTAGAAATA
* *
102257 CACCGAAGTGTCACGTAGAAATG
1 CACCGAAGTGCCACGTAGAAATA
102280 CACCGAAGT
1 CACCGAAGT
102289 TCCATATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAAATA
Found at i:102903 original size:12 final size:12
Alignment explanation
Indices: 102886--102955 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
102876 CTCGATCTTA
102886 ATAACTTAAGCT
1 ATAACTTAAGCT
* *
102898 ATAACTCAATCTT
1 ATAACTTAAGC-T
102911 AATAACTTAAGCT
1 -ATAACTTAAGCT
** *
102924 ATAACTCGATCTT
1 ATAACTTAAGC-T
102937 AATAACTTAAGCT
1 -ATAACTTAAGCT
102950 ATAACT
1 ATAACT
102956 CGATCTTAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
12 23 0.52
13 4 0.09
14 17 0.39
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (12 bp):
ATAACTTAAGCT
Found at i:102909 original size:26 final size:26
Alignment explanation
Indices: 102871--102977 Score: 205
Period size: 26 Copynumber: 4.1 Consensus size: 26
102861 TCCTAAACAT
102871 TATAACTCGATCTTAATAACTTAAGC
1 TATAACTCGATCTTAATAACTTAAGC
*
102897 TATAACTCAATCTTAATAACTTAAGC
1 TATAACTCGATCTTAATAACTTAAGC
102923 TATAACTCGATCTTAATAACTTAAGC
1 TATAACTCGATCTTAATAACTTAAGC
102949 TATAACTCGATCTTAATAACTTAAGC
1 TATAACTCGATCTTAATAACTTAAGC
102975 TAT
1 TAT
102978 TTGATGGACA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.36
Consensus pattern (26 bp):
TATAACTCGATCTTAATAACTTAAGC
Found at i:106502 original size:105 final size:105
Alignment explanation
Indices: 106320--106527 Score: 398
Period size: 105 Copynumber: 2.0 Consensus size: 105
106310 TTGAATTTAG
*
106320 GATCCCTTTTAAACACATACAAGTTAACATCTATTTCTAATGCATACAATGGACTAAATACAATC
1 GATCCCTTTTAAACACATACAAGTTAACATCTATTTCTAATGCATACAATGGAATAAATACAATC
106385 GATTAATTATCTTACCAACCTTTAATAAGAATAAGGACAT
66 GATTAATTATCTTACCAACCTTTAATAAGAATAAGGACAT
*
106425 GATCCCTTTTAAACACATACAAGTTAACGTCTATTTCTAATGCATACAATGGAATAAATACAATC
1 GATCCCTTTTAAACACATACAAGTTAACATCTATTTCTAATGCATACAATGGAATAAATACAATC
106490 GATTAATTATCTTACCAACCTTTAATAAGAATAAGGAC
66 GATTAATTATCTTACCAACCTTTAATAAGAATAAGGAC
106528 GTTCAGTTAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (105 bp):
GATCCCTTTTAAACACATACAAGTTAACATCTATTTCTAATGCATACAATGGAATAAATACAATC
GATTAATTATCTTACCAACCTTTAATAAGAATAAGGACAT
Found at i:116074 original size:185 final size:183
Alignment explanation
Indices: 115723--116097 Score: 599
Period size: 185 Copynumber: 2.0 Consensus size: 183
115713 ATAAAAATTA
*
115723 AATATTTTTTAATTCAAAAAAGTTTATAATTAATATAAATAATATATAATTATAAAATAAAAATT
1 AATATTTTTTAATTCAAAAAAGTTTACAATTAATATAAATAATATATAATTATAAAATAAAAATT
*
115788 TTAGATAAATTTTTTAATTAATTAATATTGGTTTAGGTTTAAAAGTTATTGAATCTTAAATTATT
66 TTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATT
* * * *
115853 AATTGGGTTTTAAATTATTTAGACTGAGCTCATATGTTATATATAATATATAT
131 AATTGAGTTTTAAATGATTTAGACTGACCCCATATGTTATATATAATATATAT
*
115906 AATATTTTTTAATTCAGAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTTTAATTC--AAAAA-AGTTTACAATTAATATAAATAATATATAATTATAAAATAAAA
* *
115971 ATTTTATAT-AATTTTTTAATTAATTAATATTTATTTAGGTTTAAAAGTTATTGAATCTTAAATT
63 ATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATT
* * * *
116035 ATTAATTGAGTTTTAAATGGTTTGGGCTGACCCCATATGTTATATATAATATATTT
128 ATTAATTGAGTTTTAAATGATTTAGACTGACCCCATATGTTATATATAATATATAT
116091 AATATTT
1 AATATTT
116098 AAAATTTAAT
Statistics
Matches: 176, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 15 0.09
185 113 0.64
186 48 0.27
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (183 bp):
AATATTTTTTAATTCAAAAAAGTTTACAATTAATATAAATAATATATAATTATAAAATAAAAATT
TTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATT
AATTGAGTTTTAAATGATTTAGACTGACCCCATATGTTATATATAATATATAT
Found at i:116759 original size:14 final size:14
Alignment explanation
Indices: 116722--116763 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
116712 TATTTATTTT
116722 AATAAATATAA-AAG
1 AATAAATA-AATAAG
116736 AATGAAATAAATAAG
1 AAT-AAATAAATAAG
116751 AATAAATAAATAA
1 AATAAATAAATAA
116764 ATATTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
AATAAATAAATAAG
Found at i:117036 original size:20 final size:21
Alignment explanation
Indices: 117011--117062 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
117001 TTTTCCCAAT
*
117011 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
117031 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
117052 TCGCAATGCGA
1 TCGCAATGCGA
117063 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:117076 original size:20 final size:20
Alignment explanation
Indices: 117051--117185 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
117041 AATTGGGAAA
117051 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
117071 ATCGCAATGTGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
117091 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
117112 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
117132 TTCACAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
117152 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
117172 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
117186 TTTCAAAGCG
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.04
20 62 0.67
21 24 0.26
22 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:117113 original size:61 final size:61
Alignment explanation
Indices: 117048--117185 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 61
117038 GCGAATTGGG
* * * * *
117048 AAAATCGCAATGCGATACTGACTATCGCAATGTGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
117109 AAAATCGCAACGAGATACTGACTTTCACAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
*
117170 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
117186 TTTCAAAGCG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:117381 original size:22 final size:22
Alignment explanation
Indices: 117353--117396 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
117343 CACTCTCTCA
117353 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
117375 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
117397 TATCTCCATC
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:118931 original size:33 final size:33
Alignment explanation
Indices: 118883--118957 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
118873 GAAACTGACT
* *
118883 ATCGTAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGAAACGAAAGAATCGCAATGCGAAATGAAA
118916 ATCGAAACGAAAGAATCGCAATGCGAAATGAAA
1 ATCGAAACGAAAGAATCGCAATGCGAAATGAAA
*
118949 ATCGCAACG
1 ATCGAAACG
118958 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGAAACGAAAGAATCGCAATGCGAAATGAAA
Found at i:118961 original size:52 final size:51
Alignment explanation
Indices: 118896--119022 Score: 161
Period size: 52 Copynumber: 2.5 Consensus size: 51
118886 GTAACGAGAG
* *
118896 AATCGCAATGCGAAATGAAAATCGAAACGA-AAGAATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAATGAAAATCGAAACGACAA-AATCGCAACGCGAAACT--A
* *
118948 AATCGCAACGCGAAATGAAAATTGCAACGACAAAATCGCAACGCGAAACTA
1 AATCGCAACGCGAAATGAAAATCGAAACGACAAAATCGCAACGCGAAACTA
118999 AATCGCAACGCGAAACT-AAAATCG
1 AATCGCAACGCGAAA-TGAAAATCG
119023 CGTTGCGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
51 22 0.33
52 42 0.63
53 3 0.04
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (51 bp):
AATCGCAACGCGAAATGAAAATCGAAACGACAAAATCGCAACGCGAAACTA
Found at i:118975 original size:19 final size:19
Alignment explanation
Indices: 118896--119023 Score: 102
Period size: 19 Copynumber: 7.3 Consensus size: 19
118886 GTAACGAGAG
*
118896 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
118915 AATCG-AA-ACGAAA-G--
1 AATCGCAACGCGAAATGAA
*
118929 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
118948 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
118967 AATTGCAA--CG--A-CAA
1 AATCGCAACGCGAAATGAA
118981 AATCGCAACGCGAAACT--A
1 AATCGCAACGCGAAA-TGAA
118999 AATCGCAACGCGAAACT-AA
1 AATCGCAACGCGAAA-TGAA
119018 AATCGC
1 AATCGC
119024 GTTGCGATTT
Statistics
Matches: 91, Mismatches: 6, Indels: 24
0.75 0.05 0.20
Matches are distributed among these distances:
14 14 0.15
15 3 0.03
16 8 0.09
17 8 0.09
18 21 0.23
19 37 0.41
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:119030 original size:19 final size:18
Alignment explanation
Indices: 118980--119023 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
118970 TGCAACGACA
118980 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
118998 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
119016 AAAATCGC
1 -AAATCGC
119024 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAAACT
Found at i:119065 original size:33 final size:33
Alignment explanation
Indices: 119023--119149 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
119013 ACTAAAATCG
*
119023 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
119056 CGTTGCGATTTTGATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
**
119089 CGTTGCGATTTTCATTTCGCATTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
119122 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
119150 GGTCAAATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:119393 original size:20 final size:20
Alignment explanation
Indices: 119368--119418 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
119358 TTTTGATTGC
119368 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
119388 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
119408 CTTTCGCAACG
1 CTTTCGCAACG
119419 AGATAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:120185 original size:24 final size:24
Alignment explanation
Indices: 120158--120211 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
120148 GTATTCGAAA
*
120158 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
120182 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
120206 TTTGAT
1 TTTGAT
120212 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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:120403 original size:12 final size:12
Alignment explanation
Indices: 120386--120410 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
120376 ATATAATCCT
120386 GAAGAAGAAAAA
1 GAAGAAGAAAAA
120398 GAAGAAGAAAAA
1 GAAGAAGAAAAA
120410 G
1 G
120411 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:122682 original size:21 final size:19
Alignment explanation
Indices: 122658--122810 Score: 68
Period size: 19 Copynumber: 8.7 Consensus size: 19
122648 TCTTAATGTC
*
122658 TATCGCAACGCGGAAATTATA
1 TATCGCAACGC-GAAATGA-A
*
122679 TATCGCAATGCGAAATGAA
1 TATCGCAACGCGAAATGAA
* *
122698 AATCGCAA--CGAGA-G-A
1 TATCGCAACGCGAAATGAA
*
122713 -ATCGCAATGCGAAATGAA
1 TATCGCAACGCGAAATGAA
*
122731 AATCGCAACGC-----GAA
1 TATCGCAACGCGAAATGAA
*
122745 T-TCGCAATGCGAAATGAA
1 TATCGCAACGCGAAATGAA
* *
122763 AATCGCAA--CG-AGTG-A
1 TATCGCAACGCGAAATGAA
*
122778 -ATCGCAATGCGAAATGAAA
1 TATCGCAACGCGAAATG-AA
*
122797 AATCGCAACGCGAA
1 TATCGCAACGCGAA
122811 TTTAATTTCG
Statistics
Matches: 103, Mismatches: 12, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
13 8 0.08
14 17 0.17
15 2 0.02
16 10 0.10
17 10 0.10
18 4 0.04
19 24 0.23
20 18 0.17
21 10 0.10
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (19 bp):
TATCGCAACGCGAAATGAA
Found at i:122722 original size:33 final size:33
Alignment explanation
Indices: 122680--122806 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
122670 GAAATTATAT
122680 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
122713 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
122745 TTCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
122778 ATCGCAATGCGAAATGAAAAATCGCAACG
1 ATCGCAATGCGAAATG-AAAATCGCAACG
122807 CGAATTTAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.33
33 46 0.53
34 12 0.14
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:122785 original size:65 final size:66
Alignment explanation
Indices: 122681--122812 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 66
122671 AAATTATATA
122681 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAAATCGCAACGCGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAAATCGCAACGCGAA
122745 T
66 T
*
122746 TCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAATGAAAAATCGCAACGCGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAAATCGCAACGCGAA
122811 T
66 T
122812 T
1 T
122813 TAATTTCGCG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 47 0.72
66 18 0.28
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAAATCGCAACGCGAA
T
Found at i:122838 original size:14 final size:14
Alignment explanation
Indices: 122821--122877 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
122811 TTTAATTTCG
122821 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
122835 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
122854 CGTTGCGATTCTTT
1 CGTTGCGATTCTCT
122868 CGTTGCGATT
1 CGTTGCGATT
122878 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:122857 original size:33 final size:33
Alignment explanation
Indices: 122806--122895 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
122796 AAATCGCAAC
* *
122806 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
122839 GCGATTTTCATTTCGCGTTGCGATTCTTTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
122872 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
122896 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:122859 original size:19 final size:19
Alignment explanation
Indices: 122835--122895 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
122825 GCGATTCTCT
122835 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
122854 CGTTGCGA--TTC-TTT--
1 CGTTGCGATTTTCATTTCG
122868 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
122887 CATTGCGAT
1 CGTTGCGAT
122896 AGTACTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 8 0.22
16 6 0.17
17 6 0.17
19 16 0.44
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Done.