Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000531.1 Hibiscus syriacus cultivar Beakdansim tig00001026_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: 115027
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:43 original size:24 final size:24
Alignment explanation
Indices: 1--48 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1 AATTTGAAAATTAACATTTTTTTT
1 AATTTGAAAATTAACATTTTTTTT
25 AATTTCGAAAATTAA-ATTTTTTTT
1 AATTT-GAAAATTAACATTTTTTTT
49 GGAAAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTTGAAAATTAACATTTTTTTT
Found at i:11844 original size:18 final size:18
Alignment explanation
Indices: 11821--11856 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11811 ATAAACACTA
11821 GTAAATATTCTCATTTCT
1 GTAAATATTCTCATTTCT
*
11839 GTAAATATTCTTATTTCT
1 GTAAATATTCTCATTTCT
11857 AAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.53
Consensus pattern (18 bp):
GTAAATATTCTCATTTCT
Found at i:11861 original size:16 final size:17
Alignment explanation
Indices: 11821--11863 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11811 ATAAACACTA
11821 GTAAATATTCTCATTTC
1 GTAAATATTCTCATTTC
*
11838 TGTAAATATTCTTATTTC
1 -GTAAATATTCTCATTTC
11856 -TAAATATT
1 GTAAATATT
11864 TTTTTGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.33
18 16 0.67
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (17 bp):
GTAAATATTCTCATTTC
Found at i:16130 original size:14 final size:14
Alignment explanation
Indices: 16111--16140 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16101 TCCTTTAATA
*
16111 TTTTTATTTATTAT
1 TTTTTAATTATTAT
16125 TTTTTAATTATTAT
1 TTTTTAATTATTAT
16139 TT
1 TT
16141 CACAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTAATTATTAT
Found at i:20232 original size:65 final size:65
Alignment explanation
Indices: 20073--20252 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 65
20063 TTGGACCCTT
*
20073 AGTGCATCGGTGCACTAAG-A-GTGCATCGATGCATCAAGTGCATTTGATG-TTTCAAAATAGCC
1 AGTGCATCGGTGCA-T-AGTATGTGCATCGATGCATCAAATGCATTTGATGTTTTCAAAATAGCC
*
20135 AG
64 AC
* * * *
20137 AGTACATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-ATCC
1 AGTGCATCGGTGCATAGTAT-GTGCATCGATGCATCAAATGCATTTGATGTTTTCA-AAATAGCC
*
20200 TC
64 AC
* * *
20202 AGTGCATCGGTGCATAGTATGTGCAACGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATAGTATGTGCATCGATGCATCAAATGCATTTGATGTT
20253 CAATTTAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 40 0.41
65 51 0.53
66 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (65 bp):
AGTGCATCGGTGCATAGTATGTGCATCGATGCATCAAATGCATTTGATGTTTTCAAAATAGCCAC
Found at i:20291 original size:65 final size:63
Alignment explanation
Indices: 20093--20291 Score: 165
Period size: 65 Copynumber: 3.1 Consensus size: 63
20083 TGCACTAAGA
* * * * * *
20093 GTGCATCGATGCATCAAGTGCATTTGATGTTTCA-AAATAGC-CAGAGTACATCGATGCATGGTT
1 GTGCAACGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATAGTT
20156 G
63 G
* * *
20157 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATAGTAT
1 GTGCAACGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATAGT-T
20222 -
63 G
* **
20222 GTGCAACGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATAGAT
1 GTGCAACGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATAG-T
20285 TG
62 TG
20287 GTGCA
1 GTGCA
20292 TCCGTGCATC
Statistics
Matches: 114, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 49 0.43
65 53 0.46
66 5 0.04
67 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCAACGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATAGTTG
Found at i:28892 original size:74 final size:73
Alignment explanation
Indices: 28758--28910 Score: 202
Period size: 74 Copynumber: 2.1 Consensus size: 73
28748 GAGTGCAGCG
* *
28758 ATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTGCATCGA
1 ATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGCATCGA
28823 TGCATCAA
66 TGCATCAA
* * * *
28831 ATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-TATGTGCAT
1 ATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGCT-GGTGCAT
*
28894 CGATGCATGAA
63 CGATGCATCAA
28905 ATGCAT
1 ATGCAT
28911 TCGATGTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 21 0.30
74 46 0.66
75 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (73 bp):
ATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGCATCGA
TGCATCAA
Found at i:35534 original size:12 final size:12
Alignment explanation
Indices: 35517--35551 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35507 TACAAATTAC
35517 AAAAAAAGAAAA
1 AAAAAAAGAAAA
35529 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
35541 GAAAAAAGAAA
1 AAAAAAAGAAA
35552 GAATCGGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:37277 original size:22 final size:21
Alignment explanation
Indices: 37239--37281 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
37229 TTTTTAACGT
37239 TGAATATGAATTTATGTATTTA
1 TGAATATGAATTTATGT-TTTA
*
37261 TGAATAT-TATTTAATGTTTTA
1 TGAATATGAATTT-ATGTTTTA
37282 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (21 bp):
TGAATATGAATTTATGTTTTA
Found at i:37699 original size:11 final size:11
Alignment explanation
Indices: 37621--37707 Score: 60
Period size: 11 Copynumber: 8.4 Consensus size: 11
37611 TTTAATTTTA
37621 TTTATT-TTAT
1 TTTATTATTAT
*
37631 TTCATTATTAT
1 TTTATTATTAT
*
37642 TTGTAATA-TA-
1 TT-TATTATTAT
*
37652 TTTA-TATTAC
1 TTTATTATTAT
*
37662 TTTA--AATAT
1 TTTATTATTAT
* *
37671 TTTAATATTAC
1 TTTATTATTAT
*
37682 TTAATTATTAT
1 TTTATTATTAT
37693 TTTATTATTAT
1 TTTATTATTAT
37704 TTTA
1 TTTA
37708 GTCTTATAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
8 2 0.03
9 11 0.18
10 11 0.18
11 33 0.55
12 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:38484 original size:7 final size:7
Alignment explanation
Indices: 38472--38515 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
38462 TTCAAAATTT
38472 TTTATTA
1 TTTATTA
38479 TTTATTA
1 TTTATTA
38486 TTTTTATTA
1 --TTTATTA
38495 TTTATTA
1 TTTATTA
*
38502 TTTTTTTA
1 -TTTATTA
38510 TTTATT
1 TTTATT
38516 TTATTCAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 19 0.59
8 6 0.19
9 7 0.22
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATTA
Found at i:38489 original size:16 final size:16
Alignment explanation
Indices: 38470--38515 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
38460 CTTTCAAAAT
38470 TTTTTATTATTTATTA
1 TTTTTATTATTTATTA
38486 TTTTTATTATTTATTA
1 TTTTTATTATTTATTA
38502 TTTTT-TTATTTATT
1 TTTTTATTATTTATT
38516 TTATTCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATTATTTATTA
Found at i:40082 original size:13 final size:14
Alignment explanation
Indices: 40063--40099 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
40053 ATTTTAAATA
40063 ATTTACATTTACAT
1 ATTTACATTTACAT
*
40077 -TTTACATTTGCAT
1 ATTTACATTTACAT
40090 ATTTACATTT
1 ATTTACATTT
40100 GGCATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:45018 original size:93 final size:90
Alignment explanation
Indices: 44618--45268 Score: 934
Period size: 93 Copynumber: 7.4 Consensus size: 90
44608 TTGGCATAAC
44618 CAATCATTGAA-TTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
*
44682 GATCTGGTTTGG-------CAGAAC
66 GATCTGGTTTGGTATAACCCAGAAT
44700 CAATCATTGAA-TTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
*
44764 GATCTGGTTTGG-------CAGAAC
66 GATCTGGTTTGGTATAACCCAGAAT
*
44782 CAATCATTGAATTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
*
44847 GATCTGGTTTGG-------CAGAAC
66 GATCTGGTTTGGTATAACCCAGAAT
44865 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
44930 GATCTGGTTTGGTATAAAACCACAGAAT
66 GATCTGGTTTGGTAT--AACC-CAGAAT
44958 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
45023 GATCTGGTTTGGTATAAAACCACAGAAT
66 GATCTGGTTTGGTAT--AACC-CAGAAT
*
45051 CAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
45116 GATCTGGTTTGGTATAAAACCACAGAAT
66 GATCTGGTTTGGTAT--AACC-CAGAAT
* *
45144 CAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCT
1 CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
* *
45209 GATCTGATTTGGTATGAACTCCAAAAT
66 GATCTGGTTTGGTAT-AAC-CCAGAAT
* * *
45236 CAATCATTGGATTTGAAAGATGAATTTGCTCAT
1 CAATCATTGAATTTGGAAGATGAATATGCTCAT
45269 GGTAGAAATA
Statistics
Matches: 546, Mismatches: 11, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
82 93 0.17
83 146 0.27
92 38 0.07
93 269 0.49
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (90 bp):
CAATCATTGAATTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
GATCTGGTTTGGTATAACCCAGAAT
Found at i:47837 original size:22 final size:22
Alignment explanation
Indices: 47809--47882 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
47799 TACACTTTTT
47809 AAAGATGATAGATTTTCACTTC
1 AAAGATGATAGATTTTCACTTC
* * * ** *
47831 AGAGATGACAAATTTTCTTTTT
1 AAAGATGATAGATTTTCACTTC
* **
47853 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTTTCACTTC
47875 AAAGATGA
1 AAAGATGA
47883 AAACTTTATG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
AAAGATGATAGATTTTCACTTC
Found at i:48668 original size:166 final size:164
Alignment explanation
Indices: 48385--48706 Score: 488
Period size: 166 Copynumber: 1.9 Consensus size: 164
48375 AGAATGAGCA
* * *
48385 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGACATGTTACCCAATCAACAGGTTATTT-AAAAACATAATGAGAAAACGA
* **
48450 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAA-TGA-TTT
65 TTTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACT-ATTTT
*
48513 TCTTAGTTTTTTTACTTATTAAACTATTTCCAACAACC
129 TCTTAG-TTTTTTACTTAGTAAAC-ATTTCCAACAACC
*
48551 TTATCTGGAGATTGGGACATGTTACCCAATCAACAGGTTATCTT-GAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGACATGTTACCCAATCAACAGGTTAT-TTAAAAACATAATGAGAAAACGA
*
48615 TTTCCAAAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGACAAGTAAGAAAACTATTTT
65 TTTCCAAAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACTATTTT
48680 TCTTAGTTTTTTACTTAGTAAACATTT
129 TCTTAGTTTTTTACTTAGTAAACATTT
48707 TCCTTCGAAA
Statistics
Matches: 143, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
165 49 0.34
166 82 0.57
167 12 0.08
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (164 bp):
TTATCTGGAGATTGGGACATGTTACCCAATCAACAGGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACTATTTTTC
TTAGTTTTTTACTTAGTAAACATTTCCAACAACC
Found at i:49090 original size:73 final size:73
Alignment explanation
Indices: 48711--49083 Score: 692
Period size: 73 Copynumber: 5.1 Consensus size: 73
48701 ACATTTTCCT
48711 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
1 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
48776 AGTTTCAC
66 AGTTTCAC
*
48784 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCACTCGAGAC
1 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
48849 AGTTTCAC
66 AGTTTCAC
*
48857 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCACTCGAGAC
1 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
48922 AGTTTCAC
66 AGTTTCAC
*
48930 TCGAAACAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
1 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
48995 AGTTTCAC
66 AGTTTCAC
* * *
49003 TCGAAACAGCAATTTATCTCACTTGAAATTGTTTTCCTTAAAACAAAATTTGTCTCGCTCGAGAC
1 TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
49068 AGTTTCAC
66 AGTTTCAC
49076 TCGAAACA
1 TCGAAACA
49084 TAAATTTCCA
Statistics
Matches: 295, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 295 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (73 bp):
TCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGAC
AGTTTCAC
Found at i:49288 original size:113 final size:113
Alignment explanation
Indices: 49090--49311 Score: 372
Period size: 113 Copynumber: 2.0 Consensus size: 113
49080 AACATAAATT
*
49090 TCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCTGAAGAAG
1 TCCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCTGAAGAAG
* *
49155 GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAA
66 GAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAA
* * *
49203 TCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TCCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCTGAAGAAG
* *
49268 GAAAAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCT
66 GAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
49312 AGATTTCATC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 101 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (113 bp):
TCCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCTGAAGAAG
GAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAA
Found at i:49596 original size:39 final size:39
Alignment explanation
Indices: 49552--49628 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
49542 CCCTCCATCC
*
49552 AGCAGCCCCTCCACACATCATTTCCAGCAGCTTCCAGCG
1 AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGCG
* *
49591 AGCAGCCCCTCCACGCATCAGTTGCAGCAGCTTCCAGC
1 AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGC
49629 ACTGCCAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.43, G:0.18, T:0.17
Consensus pattern (39 bp):
AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGCG
Found at i:51076 original size:12 final size:11
Alignment explanation
Indices: 51061--51137 Score: 84
Period size: 12 Copynumber: 6.7 Consensus size: 11
51051 ATTTCATTAT
51061 TTATTTGTAATA
1 TTATTT-TAATA
*
51073 TTATTTTATTA
1 TTATTTTAATA
51084 TTACTTTTAATA
1 TTA-TTTTAATA
51096 -TATTTTAATTA
1 TTATTTTAA-TA
*
51107 TTACTTTAATTA
1 TTATTTTAA-TA
*
51119 TTATTTTATTA
1 TTATTTTAATA
51130 TTATTTTA
1 TTATTTTA
51138 GTCTTATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
10 6 0.11
11 21 0.37
12 30 0.53
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:51106 original size:23 final size:23
Alignment explanation
Indices: 51049--51137 Score: 105
Period size: 23 Copynumber: 3.9 Consensus size: 23
51039 TTTATTTATT
*
51049 TTATTTCATTATTTA-TTTGTAATA
1 TTATTTTATTA-TTACTTT-TAATA
51073 TTATTTTATTATTACTTTTAATA
1 TTATTTTATTATTACTTTTAATA
51096 -TATTTTAATTATTAC-TTTAATTA
1 TTATTTT-ATTATTACTTTTAA-TA
51119 TTATTTTATTATTA-TTTTA
1 TTATTTTATTATTACTTTTA
51138 GTCTTATAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
22 11 0.19
23 29 0.49
24 19 0.32
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATTTTATTATTACTTTTAATA
Found at i:51144 original size:11 final size:11
Alignment explanation
Indices: 51061--51144 Score: 53
Period size: 11 Copynumber: 7.4 Consensus size: 11
51051 ATTTCATTAT
*
51061 TTATTTGTAATA
1 TTATTT-TAGTA
*
51073 TTATTTTATTA
1 TTATTTTAGTA
*
51084 TTACTTTTAATA
1 TTA-TTTTAGTA
*
51096 -TATTTTAATTA
1 TTATTTT-AGTA
* *
51107 TTACTTTAATTA
1 TTA-TTTTAGTA
*
51119 TTATTTTATTA
1 TTATTTTAGTA
*
51130 TTATTTTAGTC
1 TTATTTTAGTA
51141 TTAT
1 TTAT
51145 AAATATATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.07
11 32 0.52
12 22 0.36
13 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (11 bp):
TTATTTTAGTA
Found at i:55789 original size:14 final size:15
Alignment explanation
Indices: 55763--55791 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55753 TGAAAAATTG
55763 TAAAAATGAGGAAGA
1 TAAAAATGAGGAAGA
55778 TAAAAATG-GGAAGA
1 TAAAAATGAGGAAGA
55792 AATTGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (15 bp):
TAAAAATGAGGAAGA
Found at i:55954 original size:11 final size:11
Alignment explanation
Indices: 55938--55987 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
55928 TCAAAAATGA
55938 AAAAAAGCAAT
1 AAAAAAGCAAT
55949 AAAAAAGGC-AT
1 AAAAAA-GCAAT
*
55960 AAAAAA-CAAG
1 AAAAAAGCAAT
*
55970 AACCAAAGCAAT
1 AA-AAAAGCAAT
55982 AAAAAA
1 AAAAAA
55988 AAACAGAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
9 1 0.03
10 3 0.10
11 20 0.65
12 7 0.23
ACGTcount: A:0.72, C:0.12, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAGCAAT
Found at i:57075 original size:23 final size:23
Alignment explanation
Indices: 57042--57089 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
57032 TTATGATTCA
*
57042 AACTTTACTAATTTCTAACAACT
1 AACTTTACTAACTTCTAACAACT
* *
57065 AACTTTGCTAACTTCTAACCACT
1 AACTTTACTAACTTCTAACAACT
57088 AA
1 AA
57090 TCACTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (23 bp):
AACTTTACTAACTTCTAACAACT
Found at i:59273 original size:15 final size:15
Alignment explanation
Indices: 59253--59283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59243 TTAGTTACTC
59253 TATTTTAAGGATATT
1 TATTTTAAGGATATT
*
59268 TATTTTAAGGTTATT
1 TATTTTAAGGATATT
59283 T
1 T
59284 TCTGCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
TATTTTAAGGATATT
Found at i:73302 original size:21 final size:20
Alignment explanation
Indices: 73278--73554 Score: 131
Period size: 21 Copynumber: 13.3 Consensus size: 20
73268 CATATTCGCA
73278 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTT-GCG
** **
73299 TTGCGA-A-TCTGGAAACTGAT
1 TTGCGATAGTC--GAAGTTGCG
*
73319 TTGCGACAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTT-GCG
* *
73340 TTGCGATTTATTAC-AAATT-CG
1 TTGCGA--TAGT-CGAAGTTGCG
*
73361 TTGCGATAGTCCAAGTT-CG
1 TTGCGATAGTCGAAGTTGCG
*
73380 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCGAAGTT-GCG
* * *
73401 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCGAAGTTGCG
*
73422 TTGCGATAGTCGAAGTTCGCA
1 TTGCGATAGTCGAAGTT-GCG
* * *
73443 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCGAAGTTGCG
* *
73464 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA--TAGTCGAAGTTGCG
73485 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTT-GCG
* * *
73506 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCGAAGTTGCG
73527 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTT-GCG
73548 TTGCGAT
1 TTGCGAT
73555 TTATTCCAAG
Statistics
Matches: 199, Mismatches: 34, Indels: 46
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.01
19 52 0.26
20 12 0.06
21 101 0.51
22 2 0.01
23 30 0.15
24 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCGAAGTTGCG
Found at i:73378 original size:42 final size:40
Alignment explanation
Indices: 73319--73582 Score: 230
Period size: 42 Copynumber: 6.3 Consensus size: 40
73309 GGAAACTGAT
* * * *
73319 TTGCGACAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
* *
73361 TTGCGATAGTCCAAGTTCGTTGCGA--TAGTCGAAGTTCACG
1 TTGCGATAGTCCAAGTTCGTTGCGATTTATTCCAAGTT--CG
* * * *
73401 TTGCGATTTATTCCAAATTCGTTGCGA--TAGTCGAAGTTCG
1 TTGCGA--TAGTCCAAGTTCGTTGCGATTTATTCCAAGTTCG
* *
73441 CATTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAGTTCG
1 --TTGCGA--TAGTCCAAGTTCGTTGCGATTTATTCCAAGTTCG
* *
73485 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
*
73527 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
*
73569 TTGTGATAGTCCAA
1 TTGCGATAGTCCAA
73583 AATCGCAACG
Statistics
Matches: 195, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 7 0.04
40 26 0.13
42 151 0.77
44 11 0.06
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGTTGCGATTTATTCCAAGTTCG
Found at i:73479 original size:63 final size:62
Alignment explanation
Indices: 73338--73533 Score: 281
Period size: 63 Copynumber: 3.1 Consensus size: 62
73328 TCGAAGTTCG
* * * * *
73338 CGTTGCGATTTATTACAAATTCGTTGCGATAGTCCAAGTTCG-TTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCTTGCGATTTATTCCAAATT
73397 CACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGC-TTGCGATTTATTCCAAATT
*
73462 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGC-TTGCGATTTATTCCAAATT
73525 CGTTGCGAT
1 CGTTGCGAT
73534 AGTCGAAGTT
Statistics
Matches: 124, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
61 40 0.32
63 76 0.61
65 8 0.06
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (62 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCTTGCGATTTATTCCAAATT
Found at i:73521 original size:105 final size:103
Alignment explanation
Indices: 73278--73582 Score: 447
Period size: 105 Copynumber: 3.0 Consensus size: 103
73268 CATATTCGCA
** * *
73278 TTGCGATAGTCGAAGTTCGCGTTGCGA---ATCTGGAAACT-GATTTGCGACAGTCGAAGTTCGC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTAT-TCCAAATTCG--TTGCGATAGTCGAAGTTCGC
*
73339 GTTGCGATTTATTACAAATTCGTTGCGATAGTCCAAGTTCG
63 GTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
* *
73380 TTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCATT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
*
73445 GCGATTTATTCCAAATTCGTTGCGATTTATTCCAAGTTCG
66 GCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTCG
73485 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
* *
73550 GCGATTTATTCCAAGTTCGTTGTGATAGTCCAA
66 GCGATTTATTCCAAATTCGTTGCGATAGTCCAA
73583 AATCGCAACG
Statistics
Matches: 184, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
102 26 0.14
103 52 0.28
104 5 0.03
105 101 0.55
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (103 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
Found at i:73571 original size:63 final size:60
Alignment explanation
Indices: 73338--73571 Score: 213
Period size: 63 Copynumber: 3.7 Consensus size: 60
73328 TCGAAGTTCG
* * * * * *
73338 CGTTGCGATTTATTACAAATTCGTTGCGATAGTCCAAGTTCGTTGCGA--TAGTCGAAGTT
1 CGTTGCGA-TTAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGTTGCGATTTATTCCAAATT
* * *
73397 CACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATT
1 --CGTTGCGA-TTAGTCCAAGTTCGTTGCGATAGTCCAAGTTCG--TTGCGATTTATTCCAAATT
* *
73462 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGA-TTAGTCCAAGTTCGTTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAATT
* *
73525 CGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
1 CGTTGCGATTAGTCCAAGTT--CGTTGCGA--TAGTCCAAGTTCGTTG
73572 TGATAGTCCA
Statistics
Matches: 153, Mismatches: 10, Indels: 18
0.85 0.06 0.10
Matches are distributed among these distances:
61 49 0.32
63 85 0.56
65 19 0.12
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (60 bp):
CGTTGCGATTAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGTTGCGATTTATTCCAAATT
Found at i:74377 original size:6 final size:6
Alignment explanation
Indices: 74351--74398 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
74341 TCTCGTCTCG
74351 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
74396 GGT
1 GGT
74399 AATACGTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:74926 original size:95 final size:94
Alignment explanation
Indices: 74759--75038 Score: 380
Period size: 95 Copynumber: 3.0 Consensus size: 94
74749 GTACCATTAC
* * * *
74759 TCAGAGTATCGATACTAATAATCTAAGTAGTATCGATATCATATATGGTATCGGTACCATTCTAT
1 TCAGAGTATCGATACTATTACTCTAAGTAGTATCGATATCATATATGGTATCGGTACCATTTTAG
*
74824 CATTTTGTTTTGACAATATCGGTACTGCA
66 CATTTTGTTTTGACAGTATCGGTACTGCA
* * * *
74853 TCAGCAGTATCAATACTATTACTCTATGTAATATCGATATCATATATAGTATCGGTACCATTTTA
1 TCAG-AGTATCGATACTATTACTCTAAGTAGTATCGATATCATATATGGTATCGGTACCATTTTA
*
74918 GCATTTTGTTTTGACAGTATCGGTACTGCC
65 GCATTTTGTTTTGACAGTATCGGTACTGCA
* * * * * * *
74948 TGAGAATTATCGGTACTATAACTATAAGTAGTATTGATATCATATATGGTATCGGTACCAATTTA
1 TCAG-AGTATCGATACTATTACTCTAAGTAGTATCGATATCATATATGGTATCGGTACCATTTTA
*
75013 GCATTCTGTTTTGACAGTATCGGTAC
65 GCATTTTGTTTTGACAGTATCGGTAC
75039 CATAACTCAG
Statistics
Matches: 162, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 4 0.02
95 158 0.98
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (94 bp):
TCAGAGTATCGATACTATTACTCTAAGTAGTATCGATATCATATATGGTATCGGTACCATTTTAG
CATTTTGTTTTGACAGTATCGGTACTGCA
Found at i:77145 original size:20 final size:20
Alignment explanation
Indices: 77120--77157 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77110 CCTGACGGGT
77120 AGTATCGATACTACAAAGGG
1 AGTATCGATACTACAAAGGG
*
77140 AGTATCGATACTTCAAAG
1 AGTATCGATACTACAAAG
77158 AAAAAACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTACAAAGGG
Found at i:78911 original size:35 final size:36
Alignment explanation
Indices: 78841--78940 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
78831 GTGCTTGTGG
* * *
78841 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
78878 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
78913 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
78941 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:79752 original size:106 final size:105
Alignment explanation
Indices: 79459--80849 Score: 1413
Period size: 105 Copynumber: 13.3 Consensus size: 105
79449 AATATTGTTC
* * * *
79459 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGAAATTGTTTGTTGACA
** * * * * * *
79524 GTCAGTCGCCCCTTTGCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
79565 CGAGTCTAATATCCTTTGATGTGAAGATGAAATTGACTCTG-AA--CGAAA-T-CTTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
* *
79625 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * * *
79665 CGAGTCCAATATCCTTCGCTACGAAGTTGAGATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAATTGTTTGTTGACA
*
79730 ACCAGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * ** * * *
79771 TGAGTGGCACGATATCCTCCG-TCGTGGAGTTGAAATT-GCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAATTGGAAA-TTGTTTGT
79834 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
60 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
79880 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTT
* *
79944 GACAACCAGCCGTCCCTTTGCTGTGAAGTTGAACTTGTGTTGTCT
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
79989 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTC-------CGAAATTGCTTGTCGACAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
* * * * *
80047 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
80087 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAATTGTTTGTTGACA
*
80152 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
80193 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTC-------CGAAATTGCTTGTCGACAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
* * * * * *
80251 TCAGCTGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
80291 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAATTGTTTGTTGACA
*
80355 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
80396 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACA
* * * **
80460 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
80501 AGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACA
* * * *
80565 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
80606 -GAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAA--G-TTGTTGAC
1 CG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGA-AATTGTTTGTTGAC
* * * **
80666 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
64 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
80708 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACA
*
80773 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
80814 CGAGTGCCACAATATCCTCCG-TCGTGGAGTTGAAAT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAAT
80850 CGCGGATGGC
Statistics
Matches: 1100, Mismatches: 140, Indels: 87
0.83 0.11 0.07
Matches are distributed among these distances:
98 170 0.15
100 75 0.07
101 3 0.00
102 98 0.09
103 4 0.00
104 9 0.01
105 277 0.25
106 252 0.23
107 2 0.00
108 12 0.01
109 192 0.17
110 6 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:80241 original size:204 final size:203
Alignment explanation
Indices: 79462--80849 Score: 1463
Period size: 204 Copynumber: 6.7 Consensus size: 203
79452 ATTGTTCCGA
* * * * **
79462 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * * * * * * * *
79527 AGTCGCCCCTTTGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTTGATGTGAAGA
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* *
79592 TGAAATTGACTCTGAACGAAA-T-CTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACT
131 TGAAATTGGCTC----CGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACT
* * *
79655 TGTGTTATCTCGA
191 TGTGTTGTCTTGG
** * * * *
79668 GTCCAATATCCTTCGCTACGAAGTTGAGATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * * * *
79733 AGCCGTCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTGGCACGATATCCTCCG-TCGTG
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GTG
* * * **
79797 GAGTTGAAATTGCGGATGAAACTGAAAAGTTG-TTCGTTGACAACCAGCCGTCCCTTCGTTGTGA
127 AAGTTGAAATT--GGCT----CCG-AAA-TTGCTT-GTTGACAGTCAGCCGTCCCTTCG-TGTGA
*
79861 AGTTGAACTTGTGTTGTCTCGG
182 AGTTGAACTTGTGTTGTCTTGG
* * * * *
79883 GTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGAC
1 GT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
*
79947 AACCAGCCGTCCCTTTGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTG
62 AACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTG
* * * *
80012 AAGTTGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCT
127 AAGTTGAAATTGGCTCCGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACT
*
80077 TGTGCTGTCTTGG
191 TGTGTTGTCTTGG
* *
80090 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
80155 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
80220 TGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCTGCCCCTTCGCTGTGAAGTTGAGCTTGTG
131 TGAAATTGGCTCCGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTG
*
80285 CTGTCTTGG
195 TTGTCTTGG
* * *
80294 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * *
80358 AGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGT
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* *
80423 TGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG-CAGCGGTCCCTTCGTCGTGAAGTT
131 TGAAATTGGCTC--CGA-----AA-TTGCTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAGTT
** * *
80486 GAACTTGCATTGTCTAGA
186 GAACTTGTGTTGTCTTGG
* * * *
80504 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * *
80568 AGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTGAA
66 AGCCGTCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGCTGTGAA
* * *
80631 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGACAAG-CAGCGGTCCCTTCGTCGTGAAGTTGA
129 GTTGAAATTGGCTCCGAAATT--G--CTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAGTTGA
**
80695 ACTTGCATTGTC-TGG
188 ACTTGTGTTGTCTTGG
* * *
80710 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 -GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * *
80775 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTGCCACAATATCCTCCG-TCGT
65 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GT
*
80839 GGAGTTGAAAT
126 GAAGTTGAAAT
80850 CGCGGATGGC
Statistics
Matches: 1031, Mismatches: 103, Indels: 91
0.84 0.08 0.07
Matches are distributed among these distances:
202 2 0.00
203 87 0.08
204 242 0.23
205 4 0.00
206 91 0.09
207 147 0.14
208 58 0.06
209 27 0.03
210 168 0.16
211 31 0.03
212 3 0.00
213 3 0.00
214 3 0.00
215 73 0.07
216 2 0.00
217 2 0.00
218 88 0.09
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (203 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
TGAAATTGGCTCCGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCGTGTGAAGTTGAACTTGTGT
TGTCTTGG
Found at i:81689 original size:103 final size:102
Alignment explanation
Indices: 81498--81725 Score: 239
Period size: 102 Copynumber: 2.2 Consensus size: 102
81488 ATTTTGTTTT
* * * *
81498 AAGA-AAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAATTGTCTCACGGGGAGATGAA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
81562 TTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
66 TTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
* * * *
81599 AAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCA-AGAGAGACGA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AGAAACTGTCTCACAGAGAGACG-
* * ** * * * * *
81663 AATTCA-TTTCAAGGGAAATGTTTTCAATGTTTATGTTTC
64 AATT-AGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
*
81702 AAGAG-AAACTATCTCAAGAGAGAC
1 AAGAGAAAACTGTCTCAAGAGAGAC
81726 GGAATTCATT
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
101 4 0.04
102 54 0.52
103 45 0.43
104 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.25
Consensus pattern (102 bp):
AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
TTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
Found at i:81735 original size:65 final size:65
Alignment explanation
Indices: 81631--81811 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
81621 GACAAAATTT
*
81631 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATATTTTCAATGTTTA
* *
81696 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATATTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATATTTTCAATGTTTA
* * **
81761 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
81812 CTATCTCAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 92 0.87
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATATTTTCAATGTTTA
Found at i:81795 original size:167 final size:169
Alignment explanation
Indices: 81596--81913 Score: 552
Period size: 167 Copynumber: 1.9 Consensus size: 169
81586 AAGATGATGC
*
81596 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
81661 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAA-GAGAGA
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATG-GAGA
81725 CGGAA-TTCATTTCAAGGGAAATATTTTCAATGTTTATGT
130 CGGAATTTCATTTCAAGGGAAATATTTTCAATGTTTATGT
*
81764 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
81828 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATGGAGAC
**
81893 GGAATTTTGTTTCAAGGGAAA
131 GGAATTTCATTTCAAGGGAAA
81914 CTATCTCAAG
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
167 119 0.84
168 23 0.16
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATGGAGAC
GGAATTTCATTTCAAGGGAAATATTTTCAATGTTTATGT
Found at i:81802 original size:102 final size:102
Alignment explanation
Indices: 81696--82051 Score: 586
Period size: 102 Copynumber: 3.5 Consensus size: 102
81686 TCAATGTTTA
* ** *
81696 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATATTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
81761 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
81798 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
81863 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
81900 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
81965 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * **
82002 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
82052 CTGTCTCAAA
Statistics
Matches: 236, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 236 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:81812 original size:37 final size:37
Alignment explanation
Indices: 81761--82069 Score: 207
Period size: 37 Copynumber: 8.9 Consensus size: 37
81751 TCAATGTTTA
* *
81761 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
81798 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
81834 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* **
81862 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
81900 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
81936 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
81964 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
82002 TGTTTCAAGGGAAACTGTCTCAACAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
82038 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
82070 TGGTGAGCAC
Statistics
Matches: 207, Mismatches: 36, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
28 3 0.01
29 28 0.14
30 6 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 68 0.33
37 86 0.42
38 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:81871 original size:50 final size:50
Alignment explanation
Indices: 81817--81976 Score: 126
Period size: 50 Copynumber: 3.2 Consensus size: 50
81807 GGAAACTATC
81817 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
*** * ** * * * * *** * *
81867 TCAAGAGA-A-ACTGTCTCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAAT-TCATTTCA-AGGGAAATGT-TTTCAATGTTTA-TGTT
*
81919 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
81969 TCAAGAGA
1 TCAAGAGA
81977 AACTGTCTCA
Statistics
Matches: 73, Mismatches: 31, Indels: 12
0.63 0.27 0.10
Matches are distributed among these distances:
48 2 0.03
49 6 0.08
50 25 0.34
51 16 0.22
52 17 0.23
53 6 0.08
54 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (50 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:82047 original size:36 final size:36
Alignment explanation
Indices: 81965--82069 Score: 147
Period size: 36 Copynumber: 2.9 Consensus size: 36
81955 TCAATGTTTA
* ** * *
81965 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAAAGAG-ACAAAGTT
*
82002 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAGTT
82038 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAA
82070 TGGTGAGCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 37 0.60
37 25 0.40
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAGTT
Found at i:82947 original size:22 final size:22
Alignment explanation
Indices: 82922--82972 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
82912 TTGTGTTTGG
82922 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
82944 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
82966 TCAAAGG
1 TCAAAGG
82973 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:83699 original size:7 final size:7
Alignment explanation
Indices: 83610--83699 Score: 54
Period size: 8 Copynumber: 11.7 Consensus size: 7
83600 TTTTTGTCCC
83610 TTTTTCT
1 TTTTTCT
**
83617 TTTTGAT
1 TTTTTCT
*
83624 TTTTGCTT
1 TTTTTC-T
83632 TTTTTCCT
1 TTTTT-CT
83640 TTTGTTCT
1 TTT-TTCT
*
83648 TGTTTCT
1 TTTTTCT
*
83655 CTTTTCTT
1 TTTTTC-T
*
83663 TGTTTTTT
1 T-TTTTCT
83671 TTTTTGCT
1 TTTTT-CT
83679 TTTTTGCT
1 TTTTT-CT
83687 TCTTTTCT
1 T-TTTTCT
83695 TTTTT
1 TTTTT
83700 GTTCTTGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
7 26 0.39
8 29 0.44
9 11 0.17
ACGTcount: A:0.01, C:0.13, G:0.08, T:0.78
Consensus pattern (7 bp):
TTTTTCT
Found at i:84877 original size:8 final size:8
Alignment explanation
Indices: 84861--84899 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
84851 AATGTAGATG
84861 AAAATGCA
1 AAAATGCA
*
84869 AAAAGGCA
1 AAAATGCA
84877 AAAATGC-
1 AAAATGCA
84884 AAAATGCA
1 AAAATGCA
*
84892 AGAATGCA
1 AAAATGCA
84900 CGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:84887 original size:15 final size:15
Alignment explanation
Indices: 84861--84899 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
84851 AATGTAGATG
84861 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
84877 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
84892 AGAATGCA
1 AAAATGCA
84900 CGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:85443 original size:18 final size:18
Alignment explanation
Indices: 85420--85457 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
85410 ATTAGTCTTT
85420 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
85438 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
85456 CA
1 CA
85458 AACTTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (18 bp):
CAGAAGTGGATGTGAATC
Found at i:87496 original size:35 final size:36
Alignment explanation
Indices: 87426--87525 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
87416 GTGCTTGTGG
* * *
87426 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
87463 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
87498 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
87526 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:89641 original size:18 final size:18
Alignment explanation
Indices: 89620--89718 Score: 153
Period size: 18 Copynumber: 5.5 Consensus size: 18
89610 TTTGTCTAGT
89620 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
* *
89638 AGGACCACTGTGTCCTGA
1 AGGACCACTATGTCCCGA
* *
89656 ATGACCACTGTGTCCCGA
1 AGGACCACTATGTCCCGA
89674 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
89692 AAGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
89710 AGGACCACT
1 AGGACCACT
89719 GATAATCCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.18
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:105349 original size:12 final size:12
Alignment explanation
Indices: 105328--105357 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
105318 TGCTTAAATG
*
105328 AAATATAATCAT
1 AAATAAAATCAT
105340 AAATAAAATCAT
1 AAATAAAATCAT
105352 AAATAA
1 AAATAA
105358 CATAAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAAAATCAT
Found at i:107384 original size:104 final size:109
Alignment explanation
Indices: 107203--107434 Score: 258
Period size: 104 Copynumber: 2.2 Consensus size: 109
107193 ATATTGAACA
* * * * **
107203 AGTTCTACTCATTATGAACTTCTTCTAGATATGTTGGTTCACCTCATTCTACGATGGATTTTAAA
1 AGTTCTTCTCATTATGAACTTCTTCTAGAAATGTTGGTCCACCTCATTCTACGATGGAATCGAAA
* ** * *
107268 GGAACCCGTTCTTCTCATTATGAAC-TTTC-TCCT-TT-GGGTG
66 AGAACAAGTTCTTCTAATTATGAACTTTTCTTCCTCTTCGGATG
* * * *
107308 AGTTCTTCTCATTATGAAC-TCTTCTGGAAATGTTTGTCCACCTCTTTCTATGATGGAATCGAAA
1 AGTTCTTCTCATTATGAACTTCTTCTAGAAATGTTGGTCCACCTCATTCTACGATGGAATCGAAA
* *
107372 AGATCAAGTTCTTCTAATTATTAACTTTTTCTTCCTCTTCGGATG
66 AGAACAAGTTCTTCTAATTATGAAC-TTTTCTTCCTCTTCGGATG
*
107417 AGTTCTTCTTATTATGAA
1 AGTTCTTCTCATTATGAA
107435 TCATTCCATC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
104 55 0.53
105 18 0.17
106 4 0.04
107 4 0.04
108 2 0.02
109 21 0.20
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (109 bp):
AGTTCTTCTCATTATGAACTTCTTCTAGAAATGTTGGTCCACCTCATTCTACGATGGAATCGAAA
AGAACAAGTTCTTCTAATTATGAACTTTTCTTCCTCTTCGGATG
Found at i:108427 original size:19 final size:19
Alignment explanation
Indices: 108403--108444 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
108393 GAATTCCAAA
108403 ACCA-GGAAAAGGTATCGAT
1 ACCAGGGAAAA-GTATCGAT
*
108422 ACCAGGGAACAGTATCGAT
1 ACCAGGGAAAAGTATCGAT
108441 ACCA
1 ACCA
108445 CAGTAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (19 bp):
ACCAGGGAAAAGTATCGAT
Done.