Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007361.1 Hibiscus syriacus cultivar Beakdansim tig00019749_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: 152893
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:5165 original size:64 final size:65
Alignment explanation
Indices: 5090--5211 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 65
5080 AATAATGATT
*
5090 CCGTATCTGTAGAAGTGAAATATTATGTAATG-AAACTTTTTGTT-TCAATGGAAGTTGAACTAA
1 CCGTATCTGTAGAAATGAAATATTATGTAATGAAAACTTTTTGTTAT-AATGGAAGTTGAACTAA
5153 G
65 G
* *
5154 CCGTATTTGTAGAAATGAACTATTATGTAATGAAAACTTTTTGTTATAATGGAAGTTG
1 CCGTATCTGTAGAAATGAAATATTATGTAATGAAAACTTTTTGTTATAATGGAAGTTG
5212 TTCTATGACA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 29 0.55
65 23 0.43
66 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (65 bp):
CCGTATCTGTAGAAATGAAATATTATGTAATGAAAACTTTTTGTTATAATGGAAGTTGAACTAAG
Found at i:7263 original size:14 final size:14
Alignment explanation
Indices: 7244--7271 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7234 GTTTGCACAA
7244 CAGAAAATTCCAAG
1 CAGAAAATTCCAAG
7258 CAGAAAATTCCAAG
1 CAGAAAATTCCAAG
7272 ACAATGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
CAGAAAATTCCAAG
Found at i:9071 original size:6 final size:6
Alignment explanation
Indices: 9060--9086 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9050 GGCCATCATT
9060 ATTTTC ATTTTC ATTTTC ATTTTC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATT
9087 CTTTATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTC
Found at i:12651 original size:16 final size:16
Alignment explanation
Indices: 12630--12690 Score: 122
Period size: 16 Copynumber: 3.8 Consensus size: 16
12620 AAATGAATGA
12630 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAAGTG
12646 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAAGTG
12662 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAAGTG
12678 AAAAAATGAAAAA
1 AAAAAATGAAAAA
12691 AAATGAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAGTG
Found at i:12703 original size:32 final size:30
Alignment explanation
Indices: 12616--12728 Score: 124
Period size: 32 Copynumber: 3.7 Consensus size: 30
12606 AAGAGAAAAA
**
12616 GAAAAAATGAATGAAAA-AAATGAAAAAGT
1 GAAAAAATGAAAAAAAATAAATGAAAAAGT
12645 GAAAAAATGAAAAAGTGAAA-AAATGAAAAAGT
1 GAAAAAATGAAAAA---AAATAAATGAAAAAGT
*
12677 GAAAAAATGAAAAAAAATGAACATGAAAAAGA
1 GAAAAAATGAAAAAAAAT-AA-ATGAAAAAGT
*
12709 GAAAAAA-GAAAACAAATAAA
1 GAAAAAATGAAAAAAAATAAA
12729 AAATGAAAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
29 16 0.22
30 2 0.03
31 11 0.15
32 45 0.61
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.11
Consensus pattern (30 bp):
GAAAAAATGAAAAAAAATAAATGAAAAAGT
Found at i:12735 original size:32 final size:32
Alignment explanation
Indices: 12630--12744 Score: 123
Period size: 32 Copynumber: 3.7 Consensus size: 32
12620 AAATGAATGA
* *
12630 AAAAAATGAAAAAGTGAAAAAATG-AAAAAGT
1 AAAAAATGAAAAAGAGAAAAAATGAAAAAAAT
*
12661 GAAAAAATGAAAAAGTGAAAAAATGAAAAAAA-
1 -AAAAAATGAAAAAGAGAAAAAATGAAAAAAAT
* *
12693 ATGAACATGAAAAAGAGAAAAAA-GAAAACAAAT
1 A-AAAAATGAAAAAGAGAAAAAATGAAAA-AAAT
12726 AAAAAATG-AAAAGA-AAAAA
1 AAAAAATGAAAAAGAGAAAAA
12745 GAGGGTTCGA
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.07
31 12 0.16
32 50 0.68
33 6 0.08
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.10
Consensus pattern (32 bp):
AAAAAATGAAAAAGAGAAAAAATGAAAAAAAT
Found at i:13846 original size:138 final size:138
Alignment explanation
Indices: 13598--14512 Score: 1431
Period size: 138 Copynumber: 6.6 Consensus size: 138
13588 ACCCTAGAAG
* * *
13598 GAGGGATTAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGT
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
* * *
13663 TCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGTATATGGAGTTCAATCAGCAACA
66 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
13728 CCTCAATC
131 CCTCAATC
*
13736 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGGAGAAGAAGT
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
* *
13801 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGTATATGGAGTTGAATCAGCAATA
66 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
13866 CCTCAATC
131 CCTCAATC
*
13874 GAGGGATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCATCC-AACAAAGGGAGAAGAAG
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAA-AAAGGGAGAAGAAG
* * *
13938 TTAATAAGGAGAAGAACTTGTTCAACCTAAGCTCGATTCATCGCATATGGAGTTGAATCAGCAAC
65 TTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAAC
*
14003 ACCTAAATC
130 ACCTCAATC
* *
14012 GAGGGATCATCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGT
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
14077 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
66 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
14142 CCTCAATC
131 CCTCAATC
* *
14150 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCCGAAAAAAGGAGAAGAAGT
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
* *
14215 TCATAATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCGCATATAGAGTTGAATCAGCAACA
66 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
* *
14280 CCTGAATT
131 CCTCAATC
* * * *
14288 GAGGGATTAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCATTCGACAAAGGGAGAAGAAGT
1 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
* * **
14353 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGTATAAGGAGTTGAATCAATAACA
66 TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
*
14418 CCTCACTC
131 CCTCAATC
* * * ** * *
14426 GAGGGATCAATATTTTCAGTGGAA-AGTTTATAATGAGAAGAACTCATCCG-ATGAGGTAAAAGA
1 GAGGGATCAACATTTCCA---GAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGA
14489 AGTTCATAATGAGAAGAACTTGTT
63 AGTTCATAATGAGAAGAACTTGTT
14513 TCCATCGCAT
Statistics
Matches: 716, Mismatches: 56, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
137 2 0.00
138 654 0.91
139 33 0.05
140 24 0.03
141 3 0.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (138 bp):
GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACA
CCTCAATC
Found at i:16183 original size:15 final size:16
Alignment explanation
Indices: 16158--16188 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16148 AATATTTACT
16158 TTACTTGTATTATATA
1 TTACTTGTATTATATA
16174 TTACTT-TATTATATA
1 TTACTTGTATTATATA
16189 CATAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TTACTTGTATTATATA
Found at i:24515 original size:29 final size:29
Alignment explanation
Indices: 24480--24544 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
24470 ATAATAATTG
*
24480 TAATATTTTTATTTATAAAATT-ATAGAAA
1 TAATATTTTTA-TAATAAAATTGATAGAAA
* *
24509 TAATATTTTTATAATAATATTGATATAAA
1 TAATATTTTTATAATAAAATTGATAGAAA
24538 TAATATT
1 TAATATT
24545 AAATTATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TAATATTTTTATAATAAAATTGATAGAAA
Found at i:24524 original size:14 final size:15
Alignment explanation
Indices: 24506--24544 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24496 AAAATTATAG
**
24506 AAATAATATTTTTAT
1 AAATAATATTGATAT
24521 -AATAATATTGATAT
1 AAATAATATTGATAT
24535 AAATAATATT
1 AAATAATATT
24545 AAATTATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
AAATAATATTGATAT
Found at i:24952 original size:14 final size:15
Alignment explanation
Indices: 24935--24967 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24925 ATAGATATAC
*
24935 TATTTTTAT-AATAA
1 TATTTATATAAATAA
24949 TATTTATATAAATAA
1 TATTTATATAAATAA
24964 TATT
1 TATT
24968 AAATTATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTATATAAATAA
Found at i:24967 original size:29 final size:28
Alignment explanation
Indices: 24886--24967 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
24876 TTAATAAAAA
*
24886 TATAATAATAATA-ATAAA-AATATTTT
1 TATAATAATATTATATAAATAATATTTT
* * * * *
24912 TATTTATAAAATTATAGATATACTATTTT
1 TA-TAATAATATTATATAAATAATATTTT
24941 TATAATAATATTTATATAAATAATATT
1 TATAATAATA-TTATATAAATAATATT
24968 AAATTATTCT
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
26 2 0.05
27 8 0.20
28 9 0.22
29 22 0.54
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATAATAATATTATATAAATAATATTTT
Found at i:25010 original size:423 final size:416
Alignment explanation
Indices: 24223--25057 Score: 1302
Period size: 423 Copynumber: 2.0 Consensus size: 416
24213 GTTAGGGGTT
* * * *
24223 CAACACATCTCAACCATACATTTTCCCATTTTTAAAATTTCTATAGACCATAAAAATAGACAATT
1 CAACACATCTCAACCAAACATTTTACCATTTTTAAAATTTCTATAGACAATAAAAAGAGACAATT
* * * * * *
24288 TAGGTTTAAGTCCCTAAACTTCCCACAAGTTCAAAATTGAGCTGCAAGTTTCTAAAACTTGCAAT
66 CAGGGTTAAGTCCCTAAACTTCCCACAAGGTCAAAACTAAGCTGCAAGTTTCGAAAACTTGCAAT
* *
24353 TTAGACCCTAAATTGATTTATTAATACTTAATAAAGCTCAAGAATTTTTGGGTGTGACATTATTC
131 TTAGACCCTAAATTGATTAATTAATACTTAATAAAGCTCAAGAATTTTTGGGTGTGACACTATTC
*
24418 TTATTTTAATAAATAATTAATATAATTTATTATAATTTTATTTTAATAAAATATAATAATTGTAA
196 TTATTTTAATAAATAATTAATATAATTTATTATAATTTTATTTTAATAAAATATAATAATTATAA
24483 TATTTTTATTTATAAAATTATAGAAATAATATTTTTATAATAATATTGATATAAATAATATTAAA
261 TATTTTTATTTATAAAATTATAGAAATAATATTTTTATAATAATATTGATATAAATAATATTAAA
24548 TTATTCTAATATTTTAAAAGTAATATTATTGCTTTGTTAATAAATAATATTATTTTATTGTATAT
326 TTATTCTAATATTTTAAAAGTAATATTATTGCTTTGTTAATAAATAATATTA-TTTATTGTATAT
24613 GATGTTTATAATAAAGAATTTTAGGTC
390 GATGTTTATAATAAAGAATTTTAGGTC
* * * *
24640 CAACACCTCTCAACCAAACATTTTACCATTTTTAAATTTTCTA-CGA-AATAGAAAAAGAGATAA
1 CAACACATCTCAACCAAACATTTTACCATTTTTAAAATTTCTATAGACAAT--AAAAAGAGACAA
*
24703 TTCAGGGTTAAGTCCCT-AACTTCCCACATGGTCAAAACTAAGCTGCAAGTTTCGAAAACTTGCA
64 TTCAGGGTTAAGTCCCTAAACTTCCCACAAGGTCAAAACTAAGCTGCAAGTTTCGAAAACTTGCA
**
24767 ATGTT-GTTCCTAAATTGATTAAATTAATACTTAATAAAGCTCAAGAATTTTTGGG-GTGACACT
129 AT-TTAGACCCTAAATTGATT-AATTAATACTTAATAAAGCTCAAGAATTTTTGGGTGTGACACT
* *
24830 ATTCTTATTTTAATAAATATTTAATATGATTTATTATAATTTTATTTTAATAAAAATATAATAAT
192 ATTCTTATTTTAATAAATAATTAATATAATTTATTATAATTTTATTTTAAT-AAAATATAATAAT
* * *
24895 AATAATAAAAATATTTTTATTTATAAAATTATAGATATACTATTTTTATAATAATATTTATATAA
256 --T-AT---AATATTTTTATTTATAAAATTATAGAAATAATATTTTTATAATAATATTGATATAA
24960 ATAATATTAAATTATTCTAATATTTTAAAAGTAATATTATTGCTTTGTTAATAAATAATATTATT
315 ATAATATTAAATTATTCTAATATTTTAAAAGTAATATTATTGCTTTGTTAATAAATAATATTATT
25025 TATTGTATATGATGTTTATAATAAAGAATTTTA
380 TATTGTATATGATGTTTATAATAAAGAATTTTA
25058 AAAATATTTA
Statistics
Matches: 382, Mismatches: 25, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
415 2 0.01
416 115 0.30
417 112 0.29
419 1 0.00
420 1 0.00
422 35 0.09
423 116 0.30
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (416 bp):
CAACACATCTCAACCAAACATTTTACCATTTTTAAAATTTCTATAGACAATAAAAAGAGACAATT
CAGGGTTAAGTCCCTAAACTTCCCACAAGGTCAAAACTAAGCTGCAAGTTTCGAAAACTTGCAAT
TTAGACCCTAAATTGATTAATTAATACTTAATAAAGCTCAAGAATTTTTGGGTGTGACACTATTC
TTATTTTAATAAATAATTAATATAATTTATTATAATTTTATTTTAATAAAATATAATAATTATAA
TATTTTTATTTATAAAATTATAGAAATAATATTTTTATAATAATATTGATATAAATAATATTAAA
TTATTCTAATATTTTAAAAGTAATATTATTGCTTTGTTAATAAATAATATTATTTATTGTATATG
ATGTTTATAATAAAGAATTTTAGGTC
Found at i:27168 original size:3 final size:3
Alignment explanation
Indices: 27160--27208 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
27150 TGTAACTTTA
27160 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27208 A
1 A
27209 TAAGTTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37821 original size:13 final size:13
Alignment explanation
Indices: 37805--37838 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
37795 AAAGATTTTA
*
37805 TTTGAAAATCATT
1 TTTGAAAATCAAT
37818 TTTG-AAATCAAT
1 TTTGAAAATCAAT
37830 TTTGAAAAT
1 TTTGAAAAT
37839 TACTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:37864 original size:74 final size:74
Alignment explanation
Indices: 37770--37917 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 74
37760 CCCCTTTTTG
* *
37770 ATATAATAAAATATTTAAGTAATTTAAAGATTTTATTTGAAAATCATTTTTGAAATCAATTTTGA
1 ATATAACAAAACATTTAAGTAATTTAAAGATTTTATTTGAAAATCATTTTTGAAATCAATTTTGA
*
37835 AAATTACTC
66 AAATCACTC
* *
37844 ATATAACAAAACATTTAAGTAATTTAAAGATTTTCTTTGAAAATCATTTTTTAAATCAATTTTGA
1 ATATAACAAAACATTTAAGTAATTTAAAGATTTTATTTGAAAATCATTTTTGAAATCAATTTTGA
37909 AAATCACTC
66 AAATCACTC
37918 CCCCTTACTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (74 bp):
ATATAACAAAACATTTAAGTAATTTAAAGATTTTATTTGAAAATCATTTTTGAAATCAATTTTGA
AAATCACTC
Found at i:39687 original size:12 final size:13
Alignment explanation
Indices: 39670--39702 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
39660 ATGGGCAAAG
*
39670 TTTGAAAATAAT-
1 TTTGAAAACAATA
39682 TTTGAAAACAATA
1 TTTGAAAACAATA
39695 TTTGAAAA
1 TTTGAAAA
39703 ATCATAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATA
Found at i:39759 original size:17 final size:16
Alignment explanation
Indices: 39739--39773 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
39729 AACAACATAA
39739 TTAAATAAAAAACATTT
1 TTAAA-AAAAAACATTT
*
39756 TTAAAACAAAACATTT
1 TTAAAAAAAAACATTT
39772 TT
1 TT
39774 TTTTATTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAAAAAAACATTT
Found at i:55554 original size:20 final size:20
Alignment explanation
Indices: 55529--55578 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
55519 TTGAAGAAGA
55529 ATCGATACCATGGTAAGGGT
1 ATCGATACCATGGTAAGGGT
55549 ATCGATACCATGGTAAGGGT
1 ATCGATACCATGGTAAGGGT
*
55569 ATCAATACCA
1 ATCGATACCA
55579 AGCAAACATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
ATCGATACCATGGTAAGGGT
Found at i:55731 original size:95 final size:95
Alignment explanation
Indices: 55547--55731 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 95
55537 CATGGTAAGG
* *
55547 GTATCGATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAATATAATTTCAGTATCGGTAC
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAACATAATTTCAGTATCGATAC
* ***
55612 CGTAACGGGGTATCGGTACCATAGTATGGTA
66 CGGAAC-AAATATCGGTACCATAGTATGGTA
* * *
55643 GTATCGATACCATGGTAAGGGTATCAATACC-AGGAAACATCGAACCTAATTAT-GGTATCGATA
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAACATAATT-TCAGTATCGATA
*
55706 CCCGGAGA-AAATATTGGTACCATAGT
65 -CCGGA-ACAAATATCGGTACCATAGT
55732 GTTGAAGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
95 39 0.51
96 36 0.47
97 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (95 bp):
GTATCGATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAACATAATTTCAGTATCGATAC
CGGAACAAATATCGGTACCATAGTATGGTA
Found at i:56251 original size:45 final size:45
Alignment explanation
Indices: 56158--56408 Score: 272
Period size: 45 Copynumber: 5.6 Consensus size: 45
56148 TGAAAATAAT
*** * * * * *
56158 AATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCATACTTAA
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATACTATAGTTGA
* * *
56203 AATGCATATGGGAGCATTGTCAATAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
56248 AATGCATATGGGTTCATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* * * * *
56293 AATACATATGGGTGCGTTGTCAACAGAAAGGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* * *
56338 AATGCATATGGGTGCATTATCAGCAGAAAAGTATGCTATAGTTAA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
56383 TAATGCATAAT-GGTGCATTATAAACA
1 -AATGCAT-ATGGGTGCATTATCAACA
56409 TGAATGAAGG
Statistics
Matches: 174, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
44 1 0.01
45 151 0.87
46 20 0.11
47 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
Found at i:62615 original size:95 final size:96
Alignment explanation
Indices: 62441--62620 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 96
62431 GAAGGGTATC
* * * *
62441 GATACCATGGTAAGGGTATCGATACGAAGCAAACATCAAATCTAATTTCGGTATTGATACCGTAA
1 GATACCATGGTAAAGGTATCGATACGAAGCAAACATCAAACCTAATTTCGGTATCGATACCCTAA
**
62506 GGGGGTATAAGTACCATAGTATGGTAATATT
66 GGAAGTATAAGTACCATAGTATGGTAATATT
* * * *
62537 GATACCATGGTAAAGGTATCGATAC-CAGGAAACATCAAACCTAATTTTGGTATCGATACCCTGA
1 GATACCATGGTAAAGGTATCGATACGAAGCAAACATCAAACCTAATTTCGGTATCGATACCCTAA
* **
62601 GTAAGTATCGGTACCATAGT
66 GGAAGTATAAGTACCATAGT
62621 GTTGAAGTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 47 0.66
96 24 0.34
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (96 bp):
GATACCATGGTAAAGGTATCGATACGAAGCAAACATCAAACCTAATTTCGGTATCGATACCCTAA
GGAAGTATAAGTACCATAGTATGGTAATATT
Found at i:63155 original size:45 final size:45
Alignment explanation
Indices: 63106--63434 Score: 462
Period size: 45 Copynumber: 7.3 Consensus size: 45
63096 GGATGCCATT
* *
63106 GTTGAAATGTATATGGGTGCATTGTCAACAGAAAAGTACACTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
* * *
63151 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGCTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
* **
63196 ATTGAAATGCATATGGGTATATTGTCAACAGAAAAGTATACTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
* * **
63241 GTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTATGTTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
*
63286 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATATTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
* * *
63331 GTTGAAATGCATATGGGTGCATTGTTAACAGAAATGTATGCTATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
* *
63376 GTTGAAATGCATATGGGTGCATTATCAGCAGAAAAGTATGA-TATA
1 GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTAT-ACTATA
*
63421 GTTAATAATGCATA
1 GTTGA-AATGCATA
63435 ATGGTGGATT
Statistics
Matches: 251, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
45 243 0.97
46 8 0.03
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (45 bp):
GTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATACTATA
Found at i:63220 original size:90 final size:90
Alignment explanation
Indices: 63066--63451 Score: 499
Period size: 90 Copynumber: 4.3 Consensus size: 90
63056 TAAAAATAAT
* *** * * * *
63066 AATGCATATGGGTGCGTTATTGGCATG-AAAGGATGCCATTGTTGAAATGTATATGGGTGCATTG
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTG
*
63130 TCAACAGAAAAGTACACTATAGTTGA
65 TCAACAGAAAAGTATACTATAGTTGA
* * **
63156 AATGCATATGGGTGCATTATCAACAGAAAAATATGCTATAATTGAAATGCATATGGGTATATTGT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGT
63221 CAACAGAAAAGTATACTATAGTTGA
66 CAACAGAAAAGTATACTATAGTTGA
* *
63246 AATGCATATGGGTGCATTATCAATAGAAAAGTATGTTATAGTTGAAATGCATATGGGTGCATTGT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGT
*
63311 CAACAGAAAAGTATATTATAGTTGA
66 CAACAGAAAAGTATACTATAGTTGA
* * * *
63336 AATGCATATGGGTGCATTGTTAACAGAAATGTATGCTATAGTTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGT
* *
63401 CAGCAGAAAAGTATGA-TATAGTTAA
66 CAACAGAAAAGTAT-ACTATAGTTGA
* *
63426 TAATGCATAAT-GGTGGATTATAAACA
1 -AATGCAT-ATGGGTGCATTATCAACA
63452 TGAATGGAGG
Statistics
Matches: 261, Mismatches: 31, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
89 1 0.00
90 238 0.91
91 20 0.08
92 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (90 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGT
CAACAGAAAAGTATACTATAGTTGA
Found at i:65851 original size:20 final size:20
Alignment explanation
Indices: 65823--65895 Score: 51
Period size: 20 Copynumber: 3.5 Consensus size: 20
65813 ATTAACAAAT
*
65823 TATTAAAAATAATTTAATAA
1 TATTTAAAATAATTTAATAA
65843 TATTTAAAAATAACTTTTAATAA
1 TATTT-AAAATAA--TTTAATAA
* ** *
65866 AAAATAAAA-ATATTTTAT-A
1 TATTTAAAATA-ATTTAATAA
65885 TATTTAAAATA
1 TATTTAAAATA
65896 TTCATATCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 7 0.17
20 10 0.25
21 8 0.20
22 5 0.12
23 10 0.25
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTTAAAATAATTTAATAA
Found at i:65865 original size:23 final size:22
Alignment explanation
Indices: 65825--65893 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
65815 TAACAAATTA
65825 TTAAAAATAA-TTTAATAATAT
1 TTAAAAATAATTTTAATAATAT
* *
65846 TTAAAAATAACTTTTAATAAAAA
1 TTAAAAATAA-TTTTAATAATAT
*
65869 ATAAAAAT-ATTTT-AT-ATAT
1 TTAAAAATAATTTTAATAATAT
65888 TTAAAA
1 TTAAAA
65894 TATTCATATC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
21 14 0.35
22 1 0.03
23 16 0.40
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAAATAATTTTAATAATAT
Found at i:66603 original size:12 final size:12
Alignment explanation
Indices: 66586--66612 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
66576 GATATTTCTC
66586 ATATACATACAT
1 ATATACATACAT
66598 ATATACATACAT
1 ATATACATACAT
66610 ATA
1 ATA
66613 ATTTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATACATACAT
Found at i:67232 original size:2 final size:2
Alignment explanation
Indices: 67225--67265 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
67215 TTTCAATAAT
67225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67266 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:70130 original size:50 final size:52
Alignment explanation
Indices: 70061--70198 Score: 145
Period size: 59 Copynumber: 2.6 Consensus size: 52
70051 GACACTCCAA
* *
70061 TTTGACTTTTCATCGCGACTAGGAGGGTTG-G-TTAGAGCCATATTATCGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGGTTGAGATTAGAGCCATATTATCGAG
* *
70111 TTTGCCTTTTCATTACGACTAGGAGGGTTTGATAAGACAATTAGAGCCATATTATTGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGG-TTG---AG---ATTAGAGCCATATTATCGAG
* *
70170 TTTACCTTTTCATTGGGACTAGGAGGGTT
1 TTTGCCTTTTCATTGCGACTAGGAGGGTT
70199 CGATAGGACA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
50 24 0.33
51 3 0.04
55 1 0.01
58 2 0.03
59 42 0.58
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (52 bp):
TTTGCCTTTTCATTGCGACTAGGAGGGTTGAGATTAGAGCCATATTATCGAG
Found at i:70190 original size:59 final size:59
Alignment explanation
Indices: 70092--70208 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
70082 GGAGGGTTGG
* *
70092 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTACGACTAGGAGGGTTTGATAAGACAA
1 TTAGAGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGAGGGTTCGATAAGACAA
* ** *
70151 TTAGAGCCATATTATTGAGTTTACCTTTTCATTGGGACTAGGAGGGTTCGATAGGACA
1 TTAGAGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGAGGGTTCGATAAGACA
70209 CTTATCCATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGAGGGTTCGATAAGACAA
Found at i:78293 original size:56 final size:56
Alignment explanation
Indices: 78197--78528 Score: 468
Period size: 56 Copynumber: 5.9 Consensus size: 56
78187 ATAATTCCTA
** * *
78197 TACGGTTATTCATCAACTCATGATGAATTTTGTGGATTTGCACATATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * * *
78253 TACAGTTATTCATCAATTCATGATGAGTTCCGTAGTTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * * * *
78309 TACGATTATTCATTAACTCATGGTGAATTCTGTGATTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* *
78365 TACGGTTATTCATCAACTCATGATGAATTTCGTGGTTTTGCACACATAGTGTCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* *
78421 TACGGTTATTCATCAACTCATGATGAATTTCGTGATTTTGCACACATAGTGCCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
* * **
78477 TATGGTTA-TCATCAACTCATGATGAATTCCATGGTTTTGCACATTTAGTGCC
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCC
78529 TATTTGGTAA
Statistics
Matches: 244, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
55 39 0.16
56 205 0.84
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (56 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCCCTG
Found at i:79069 original size:94 final size:95
Alignment explanation
Indices: 78848--79048 Score: 244
Period size: 94 Copynumber: 2.1 Consensus size: 95
78838 ACAAGTTTAA
* * * * * * *
78848 TAGTATCGATACTAC-TACCATGGTACCGATACTTCTATACTATGGTACCGATACCCCCTTTTGG
1 TAGTATCGATAC-CCTTACCATGGTATCGATACTACCATACAATGGTACCAATACCCCCTTCTGG
* * *
78912 TATTGATACCCATTTTAGGTTCGATGTTACC
65 TATCGATACCAATTTTAGATTCGATGTTACC
* *
78943 TAGTATCGATACCCTTACCATGGTGTCGATACTACCATACAATGGTATCAATA-CCCCTTCTGGT
1 TAGTATCGATACCCTTACCATGGTATCGATACTACCATACAATGGTACCAATACCCCCTTCTGGT
* *
79007 ATCGTTACCAATTTTAGATTCGATGTTTCC
66 ATCGATACCAATTTTAGATTCGATGTTACC
*
79037 TGGTATCGATAC
1 TAGTATCGATAC
79049 TACCTCGCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
94 47 0.52
95 43 0.48
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (95 bp):
TAGTATCGATACCCTTACCATGGTATCGATACTACCATACAATGGTACCAATACCCCCTTCTGGT
ATCGATACCAATTTTAGATTCGATGTTACC
Found at i:80016 original size:36 final size:36
Alignment explanation
Indices: 79927--80030 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 36
79917 CCTTTTCGTC
79927 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCT-AAAATAGGATAGAATT
* ** *
79964 TTGTTAGGATTCAAACTCCTAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
* * *
80000 CTACTATGATTTAAACTCTTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAA-ATAGGAT
80031 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 32 0.57
37 24 0.43
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (36 bp):
CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
Found at i:80442 original size:2 final size:2
Alignment explanation
Indices: 80437--80463 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
80427 TTAGTGTTAT
80437 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
80464 TTCCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:80551 original size:20 final size:20
Alignment explanation
Indices: 80526--80563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80516 ATTATTATTA
80526 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
80546 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
80564 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:81291 original size:38 final size:40
Alignment explanation
Indices: 81220--81297 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
81210 TAATTTCCCA
81220 ATTTCTTAAATTTTGCTACCATAAAATTCTAAATT-TTTT
1 ATTTCTTAAATTTTGCTACCATAAAATTCTAAATTATTTT
* * *
81259 ATTTCTTAAATTATTTC-A-CATAACATTTTAAATTATTTT
1 ATTTCTTAAATT-TTGCTACCATAAAATTCTAAATTATTTT
81298 TTAGAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.41
39 17 0.50
40 3 0.09
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.53
Consensus pattern (40 bp):
ATTTCTTAAATTTTGCTACCATAAAATTCTAAATTATTTT
Found at i:81654 original size:106 final size:106
Alignment explanation
Indices: 81471--81756 Score: 493
Period size: 106 Copynumber: 2.7 Consensus size: 106
81461 TTATGAATCA
* *
81471 GGTACTCGTGAACCGAAAATATAGGTACCCGGATGTAATGGGCTAGTACACT-GGCCGACATTTT
1 GGTACACGTGAACCGAAAATACAGGTACCCGGATGTAATGGGCTAGTACA-TGGGCCGACATTTT
*
81535 GGTTTTGAACACCCCTGCTAAAAATGGGTAGTTTTTGAATTG
65 GGTTTTGAACACCCCTGCTAAAAATGGGTAGTATTTGAATTG
81577 GGTACACGTGAACCGAAAATACAGGTACCCGGATGTAATGGGCTAGTACATGGGCCGACATTTTG
1 GGTACACGTGAACCGAAAATACAGGTACCCGGATGTAATGGGCTAGTACATGGGCCGACATTTTG
*
81642 GTTTTGATCACCCCTGCTAAAAATGGGTAGTATTTGAATTG
66 GTTTTGAACACCCCTGCTAAAAATGGGTAGTATTTGAATTG
* * *
81683 GGTACCCGTGAACCGAAAATACAGGTACCCAGATGTAATGGGCTAGTACACGGGCCGACATTTTG
1 GGTACACGTGAACCGAAAATACAGGTACCCGGATGTAATGGGCTAGTACATGGGCCGACATTTTG
81748 GTTTTGAAC
66 GTTTTGAAC
81757 TTAAAATGGG
Statistics
Matches: 171, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
105 1 0.01
106 170 0.99
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (106 bp):
GGTACACGTGAACCGAAAATACAGGTACCCGGATGTAATGGGCTAGTACATGGGCCGACATTTTG
GTTTTGAACACCCCTGCTAAAAATGGGTAGTATTTGAATTG
Found at i:87467 original size:21 final size:21
Alignment explanation
Indices: 87441--87492 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
87431 TTAATTAAGT
87441 AGTATCGATACTAATTCAATC
1 AGTATCGATACTAATTCAATC
87462 AGTATCGATACTAATTCAATC
1 AGTATCGATACTAATTCAATC
87483 AGTATCGATA
1 AGTATCGATA
87493 TCGAAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
AGTATCGATACTAATTCAATC
Found at i:88136 original size:59 final size:59
Alignment explanation
Indices: 88038--88497 Score: 710
Period size: 59 Copynumber: 7.8 Consensus size: 59
88028 ATTACCAAAT
* **
88038 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTTTATTG
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
88098 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
88157 GGCACTATGTGTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * *
88216 GGCACTAAGTGTGCTAAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGCATTG
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
88276 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTAAT-AATTTTCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGT-ATGAATTTCCGTATTG
* * * * *
88335 GGCACTATGTGTGGTAAAATGTGAAGAAATCCATGCTAAGTGTATAAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
88394 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATAC-AAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
88452 GGCACTTTTGTGTGC-AAACATGTTAAGAAATTCATACTATGTGTAT
1 GGCAC-TATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTAT
88498 AGATTTTCGT
Statistics
Matches: 370, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
58 31 0.08
59 261 0.71
60 78 0.21
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (59 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:88337 original size:178 final size:177
Alignment explanation
Indices: 88038--88509 Score: 745
Period size: 178 Copynumber: 2.7 Consensus size: 177
88028 ATTACCAAAT
**
88038 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTTTATTGGGCAC
1 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
88103 TATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATTGGGCACTATGT
66 TATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTAT-AATTTTC-GTATTGGGCACTATGT
* * *
88167 GTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
129 GTGCTAAAATATGAAGAAATCCATACTAAGTGTATAAATTTCCGTATTG
* *
88216 GGCACTAAGTGTGCTAAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGCATTGGGCAC
1 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
88281 TATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTAATAATTTTCGTATTGGGCACTATGTG
66 TATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGT-ATAATTTTCGTATTGGGCACTATGTG
* * *
88346 TGGTAAAATGTGAAGAAATCCATGCTAAGTGTATAAATTTCCGTATTG
130 TGCTAAAATATGAAGAAATCCATACTAAGTGTATAAATTTCCGTATTG
*
88394 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATAC-AAGTGTATGAATTTCCGTATTGGGCAC
1 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
* *
88457 TTTTGTGTGC-AAACATGTTAAGAAATTCATACTATGTGTATAGATTTTCGTAT
66 -TATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATA-ATTTTCGTAT
88510 GAGAAATATG
Statistics
Matches: 274, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
176 32 0.12
177 62 0.23
178 174 0.64
179 6 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (177 bp):
GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
TATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATAATTTTCGTATTGGGCACTATGTGT
GCTAAAATATGAAGAAATCCATACTAAGTGTATAAATTTCCGTATTG
Found at i:90092 original size:19 final size:21
Alignment explanation
Indices: 90068--90107 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90058 GCATTGGTTG
90068 ATAA-TTATTA-AAAATTAAT
1 ATAATTTATTATAAAATTAAT
*
90087 ATAATTTTTTATAAAATTAAT
1 ATAATTTATTATAAAATTAAT
90108 TTGTACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATTTATTATAAAATTAAT
Found at i:94952 original size:21 final size:21
Alignment explanation
Indices: 94926--94965 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94916 GTTAAAATAA
94926 AAAATAAGAATTAAATAAAAG
1 AAAATAAGAATTAAATAAAAG
*
94947 AAAATAATAATTAAATAAA
1 AAAATAAGAATTAAATAAA
94966 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAAGAATTAAATAAAAG
Found at i:95649 original size:19 final size:19
Alignment explanation
Indices: 95593--95655 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
95583 CTATTTAAAC
**
95593 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
95613 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
95633 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
95652 TAAA
1 TAAA
95656 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:95700 original size:75 final size:76
Alignment explanation
Indices: 95613--95777 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 76
95603 AAAAAATAAT
* *
95613 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAA-AT
95677 AAAAT-ATAAAA
65 AAAATGATAAAA
* * *
95688 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTGAACTAAAATAAAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAAATA
* * *
95753 TAATGTTTAAA
66 AAATGATAAAA
*
95764 ATATTATCCTAAAT
1 ATAATATCCTAAAT
95778 TTGAGTTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 32 0.41
76 46 0.59
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAAATA
AAATGATAAAA
Found at i:103128 original size:48 final size:49
Alignment explanation
Indices: 103076--103173 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 49
103066 ATATGTGTAC
*
103076 CACTAAATTTTATAAGTTC-TATTTAGATTTCTTCATTCACATATAACA
1 CACTAAATTTTATAAGTTCATATTTAGATTTCTCCATTCACATATAACA
* *
103124 CACTAAGTTTTGTAAGTTCAGTATTTAGATTTCTCCATTCACATATAACA
1 CACTAAATTTTATAAGTTCA-TATTTAGATTTCTCCATTCACATATAACA
103174 GGTTCGTGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 17 0.38
50 28 0.62
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (49 bp):
CACTAAATTTTATAAGTTCATATTTAGATTTCTCCATTCACATATAACA
Found at i:107463 original size:18 final size:18
Alignment explanation
Indices: 107417--107463 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
107407 TAAAATAATA
107417 AAAATAAATAATAAATGG
1 AAAATAAATAATAAATGG
* **
107435 ATAATGGATAAT-AATGAG
1 AAAATAAATAATAAATG-G
107453 AAAATAAATAA
1 AAAATAAATAA
107464 AGTAAATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (18 bp):
AAAATAAATAATAAATGG
Found at i:108606 original size:3 final size:3
Alignment explanation
Indices: 108598--108628 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
108588 ATGAGGAGTA
*
108598 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
108629 TGCATTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:109770 original size:11 final size:11
Alignment explanation
Indices: 109754--109778 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
109744 TTTAATATTC
109754 ATTAAAGGTAA
1 ATTAAAGGTAA
109765 ATTAAAGGTAA
1 ATTAAAGGTAA
109776 ATT
1 ATT
109779 TAGCATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTAAAGGTAA
Found at i:117630 original size:30 final size:31
Alignment explanation
Indices: 117580--117639 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
117570 TTGACTTATT
117580 GAAGATGATAAGGTTTAGGTGTCATGGTTTG
1 GAAGATGATAAGGTTTAGGTGTCATGGTTTG
*
117611 GAAGATGATAAGG-TTAGGTGTCTTGGTTT
1 GAAGATGATAAGGTTTAGGTGTCATGGTTT
117640 AATGGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.25, C:0.03, G:0.35, T:0.37
Consensus pattern (31 bp):
GAAGATGATAAGGTTTAGGTGTCATGGTTTG
Found at i:117636 original size:25 final size:27
Alignment explanation
Indices: 117580--117636 Score: 64
Period size: 31 Copynumber: 2.0 Consensus size: 27
117570 TTGACTTATT
117580 GAAGATGATAAGGTTTAGGTGTCATGGTTTG
1 GAAGATGATAAGGTTTAGGTGTC---G-TTG
117611 GAAGATGATAAGG-TTAGGTGTC-TTG
1 GAAGATGATAAGGTTTAGGTGTCGTTG
117636 G
1 G
117637 TTTAATGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.15
30 9 0.35
31 13 0.50
ACGTcount: A:0.26, C:0.04, G:0.37, T:0.33
Consensus pattern (27 bp):
GAAGATGATAAGGTTTAGGTGTCGTTG
Found at i:117722 original size:11 final size:11
Alignment explanation
Indices: 117706--117730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
117696 TTTAATATTC
117706 ATTAAAGGTAA
1 ATTAAAGGTAA
117717 ATTAAAGGTAA
1 ATTAAAGGTAA
117728 ATT
1 ATT
117731 TAGCATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTAAAGGTAA
Found at i:118379 original size:30 final size:31
Alignment explanation
Indices: 118343--118402 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
118333 AGCAAAATAT
*
118343 GGGGACC-ATTCTATAAATTTT-GAAAAGTTG
1 GGGGACCAATTCGAT-AATTTTGGAAAAGTTG
*
118373 GGGGACCAATTCGGTAATTTTGGAAAAGTT
1 GGGGACCAATTCGATAATTTTGGAAAAGTT
118403 ATGAATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (31 bp):
GGGGACCAATTCGATAATTTTGGAAAAGTTG
Found at i:120826 original size:54 final size:54
Alignment explanation
Indices: 120756--121123 Score: 348
Period size: 54 Copynumber: 6.8 Consensus size: 54
120746 GATTACCAAA
*
120756 GGGCACTATGTATGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* ***
120810 GGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTATATAT
1 GGGCACTATGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * *
120865 GGGCTCTGTGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * *
120919 GGCCA-T-TGTGTGCAAAATAAGAGATTTATAATGAGTCTATGAATTTCCGTAAT
1 GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT-AT
* * * * * *
120972 -TGCATTGTGTGTG-TAACTTAAGAAATTCATAATTAGTTTATGAATTTCCATAT
1 GGGCACTATGTGTGCAAAC-TAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * * ***
121025 CGGCACTAAGTGTGCAACCCATGAAATTCATAATATGTTTATGAACGACCGTAT
1 GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
** * * *** *
121079 CAGCACTAAGTGTGCAACCCGCGAAATTCATAATATGTTTATGAA
1 GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAA
121124 CAACAGTATC
Statistics
Matches: 263, Mismatches: 44, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
52 40 0.15
53 8 0.03
54 164 0.62
55 51 0.19
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (54 bp):
GGGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
Found at i:121010 original size:106 final size:109
Alignment explanation
Indices: 120768--121069 Score: 334
Period size: 106 Copynumber: 2.8 Consensus size: 109
120758 GCACTATGTA
*
120768 TGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAA
1 TGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACATTGTGTGCAAAACTAA
*
120833 GAAATTCATAATAAGTTTATGAATTTATATATGGGCTCTGTGTG
66 GAAATTCATAATAAGTCTATGAATTTATATATGGGCTCTGTGTG
*
120877 TGCAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT-GGC-CATTGTGTGCAAAA-TAA
1 TGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACATTGTGTGCAAAACTAA
* * * * *
120939 GAGATTTATAATGAGTCTATGAATTTCCGTA-AT-TGCAT-TGTGTG
66 GAAATTCATAATAAGTCTATGAATTT--ATATATGGGC-TCTGTGTG
* * * * * * *
120983 TG-TAACTTAAGAAATTCATAATTAGTTTATGAATTTCCATATCGGCAC-TAAGTGTGC-AACCC
1 TGCAAAC-TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACAT-TGTGTGCAAAACT
* * *
121045 ATGAAATTCATAATATGTTTATGAA
64 AAGAAATTCATAATAAGTCTATGAA
121070 CGACCGTATC
Statistics
Matches: 164, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
105 3 0.02
106 67 0.41
107 22 0.13
108 31 0.19
109 41 0.25
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (109 bp):
TGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACATTGTGTGCAAAACTAA
GAAATTCATAATAAGTCTATGAATTTATATATGGGCTCTGTGTG
Found at i:121189 original size:54 final size:54
Alignment explanation
Indices: 120993--121194 Score: 230
Period size: 54 Copynumber: 3.7 Consensus size: 54
120983 TGTAACTTAA
** *
120993 GAAATTCATAAT-TAGTTTATGAATTTCCATATCGGCACTAAGTGTGCAACCCAT
1 GAAATTCATAATAT-GTTTATGAATGACCATATCGGCACTAAGTGTGCAACCCAC
* * * *
121047 GAAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCGC
1 GAAATTCATAATATGTTTATGAATGACCATATCGGCACTAAGTGTGCAACCCAC
* * *
121101 GAAATTCATAATATGTTTATGAA-CAACAGTATCGGCACTAAGTGTGCAACTCAC
1 GAAATTCATAATATGTTTATGAATGACCA-TATCGGCACTAAGTGTGCAACCCAC
* * * *
121155 AAAATTTATAATGA-GATTATGAATGACCACATCGGCACTA
1 GAAATTCATAAT-ATGTTTATGAATGACCATATCGGCACTA
121195 TGTCTGCACC
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 118 0.94
55 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (54 bp):
GAAATTCATAATATGTTTATGAATGACCATATCGGCACTAAGTGTGCAACCCAC
Found at i:122372 original size:227 final size:225
Alignment explanation
Indices: 121910--122799 Score: 970
Period size: 227 Copynumber: 3.9 Consensus size: 225
121900 AGGATCTTGT
* * * * *
121910 TACATAATGTAAAAGTTTTTTAGTTTTACACAAATTTAAGACAGCTGAATGAGTGAAAATAAATG
1 TACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACTGTTGAATGAGTGAAAATAAATG
* * *
121975 GTTGAGACTAATAATAGGAAATAAAAAGATATTAAC-TGAAAAAA-AACGAGTCAATCTCATCCA
66 GTTGAGACTAATAGTAGGAAATAAAAAGATATTAACAGGAAAAAACAAGGAGTCAATCTCA-CCA
* *
122038 TCTATTTTCACTCCTCCAACGATCAT-AA---GTGTAAAACTAAAAAGTTTTACATTGTGTAAGT
130 TCTATTTTCACTCATCCAACGATCCTAAATTTGTGTAAAACTAAAAAGTTTTACATTGTGTAAGT
*
122099 GGATCCTAACCCATACATAGATAGAATCATG
195 GGATCCTAACCCATATATAGATAGAATCATG
* * *
122130 TCACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACTGTTGGATAAGTGAAAATAGAT
1 T-ACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACTGTTGAATGAGTGAAAATAAAT
** * * * * *
122195 GACTAAGACTAATAGTAGGAAATAAGAAGATATTTACAGGAAAAAACAAGAAATCAATC-CTAGC
65 GGTTGAGACTAATAGTAGGAAATAAAAAGATATTAACAGGAAAAAACAAGGAGTCAATCTC-A-C
* * * ** * *
122259 CAGCTATTTTCACTCATCCAA-TAGTCCTAAATCTGCATAAAACTGAAACA-TTATACATTGTGT
128 CATCTATTTTCACTCATCCAACGA-TCCTAAATTTGTGTAAAACT-AAAAAGTTTTACATTGTGT
*
122322 AAGTGGATCCTAACCCATATATAGATAGAATCCTG
191 AAGTGGATCCTAACCCATATATAGATAGAATCATG
*
122357 CTACACAATGTAAAACTCTTTTAGTTTTAAAC-AATTTAAGAC-GTT-AGATGAGTGAAAATAAA
1 -TACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACTGTTGA-ATGAGTGAAAATAAA
** * * * *
122419 TTTTTGAGACTAATAGTAAGAAATAAAAAAAGTTATTCACTA--AATAAAATCAAGGACTCAATC
64 TGGTTGAGACTAATAGTAGGAAAT--AAAAAGATATTAAC-AGGAA-AAAA-CAAGGAGTCAATC
* * *
122482 TCATACATATATTTTCACTCATCCAATGAT-CTGAAATTTGTGTAAAACT-AAAAGTTTTACATT
124 TCA-CCATCTATTTTCACTCATCCAACGATCCT-AAATTTGTGTAAAACTAAAAAGTTTTACATT
*
122545 GTGTAAGTGGATCCTAACCCATATATAGATAGAATCTTG
187 GTGTAAGTGGATCCTAACCCATATATAGATAGAATCATG
** * * *
122584 TTACACGGTGTAAAACTCTTTTAGTTTTACAAAAATTTAAGATTCGTTGAATGAGTGAAAATAGA
1 -TACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACT-GTTGAATGAGTGAAAATAAA
* * * * *
122649 TGGTTGAGATTAATAGTAGGAAAGAAGAAGATATTAACTGGAAAAAAATAAGGAGTCAATCTCAA
64 TGGTTGAGACTAATAGTAGGAAATAAAAAGATATTAACAGG-AAAAAACAAGGAGTCAATCTC-A
* * * *
122714 CCATCTA-TTTCACTTATCCAACGAACCTAAATTTGTGCAAAAGTGAAAAA-TTTTACATTGTGT
127 CCATCTATTTTCACTCATCCAACGATCCTAAATTTGTGTAAAACT-AAAAAGTTTTACATTGTGT
* *
122777 AAGTAGATCCTTACCCATATATA
191 AAGTGGATCCTAACCCATATATA
122800 TGTGTGTGGG
Statistics
Matches: 557, Mismatches: 81, Indels: 56
0.80 0.12 0.08
Matches are distributed among these distances:
220 1 0.00
221 86 0.15
222 9 0.02
223 33 0.06
224 2 0.00
225 35 0.06
226 15 0.03
227 201 0.36
228 125 0.22
229 11 0.02
230 38 0.07
231 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (225 bp):
TACACAATGTAAAACTCTTTTAGTTTTACACAAATTTAAGACTGTTGAATGAGTGAAAATAAATG
GTTGAGACTAATAGTAGGAAATAAAAAGATATTAACAGGAAAAAACAAGGAGTCAATCTCACCAT
CTATTTTCACTCATCCAACGATCCTAAATTTGTGTAAAACTAAAAAGTTTTACATTGTGTAAGTG
GATCCTAACCCATATATAGATAGAATCATG
Found at i:123363 original size:18 final size:18
Alignment explanation
Indices: 123320--123363 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
123310 TGTGTACAGT
*
123320 TAGTTGTATAGTTAAGGA
1 TAGTTGTTTAGTTAAGGA
123338 TAGTTGTTTAGTTAAGGA
1 TAGTTGTTTAGTTAAGGA
123356 TAGTTGTT
1 TAGTTGTT
123364 AGATGTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (18 bp):
TAGTTGTTTAGTTAAGGA
Found at i:128986 original size:29 final size:30
Alignment explanation
Indices: 128942--129029 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 30
128932 ACTGAATATT
* *
128942 TGAGTTATTTTATTATTAAAAATTATAAAA
1 TGAGTTCTTTAATTATTAAAAATTATAAAA
* ***
128972 T-AGTTCTTTAATTA-TAAGATATTATTTTA
1 TGAGTTCTTTAATTATTAA-AAATTATAAAA
**
129001 TGAGTTCTTTGTTTATTAAAAATTATAAA
1 TGAGTTCTTTAATTATTAAAAATTATAAA
129030 TTTGTCACTC
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
28 3 0.07
29 19 0.44
30 18 0.42
31 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (30 bp):
TGAGTTCTTTAATTATTAAAAATTATAAAA
Found at i:130694 original size:60 final size:60
Alignment explanation
Indices: 130615--130755 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 60
130605 ACCCTCATTT
*
130615 TAAATTAGTCTCTAAACTTTTAAACAATCT-AATTTCATCCCTAAATTATGAT-TATAATTC
1 TAAATTAGTCTCTAAACTTTTAAAC-ATCTCAATTTCATCCCTAAACTATGATCT-TAATTC
* * * *
130675 TAAATTAGTC-CTTAAACTTTTGAACATTTCATTTTCATCCCTAAACTATGATCTTCATTC
1 TAAATTAGTCTC-TAAACTTTTAAACATCTCAATTTCATCCCTAAACTATGATCTTAATTC
* * *
130735 TAAATTGGTTTCCAAACTTTT
1 TAAATTAGTCTCTAAACTTTT
130756 TTGATATTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 63 0.91
61 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.43
Consensus pattern (60 bp):
TAAATTAGTCTCTAAACTTTTAAACATCTCAATTTCATCCCTAAACTATGATCTTAATTC
Found at i:130996 original size:29 final size:29
Alignment explanation
Indices: 130964--131056 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 29
130954 ATGAAATTAG
130964 AATGTTTAAAAGTTTAAGGACTAATTTAA
1 AATGTTTAAAAGTTTAAGGACTAATTTAA
** * * *
130993 AATG-AGAGACATAGTTTAGGGA-TGAAATTAG
1 AATGTTTA-A-A-AGTTTAAGGACT-AATTTAA
*
131024 AATGTTTAAAAGTTT-AGGAACCAATTTAA
1 AATGTTTAAAAGTTTAAGG-ACTAATTTAA
131053 AATG
1 AATG
131057 AGGGTCATAG
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
28 3 0.07
29 20 0.43
30 3 0.07
31 19 0.41
32 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.32
Consensus pattern (29 bp):
AATGTTTAAAAGTTTAAGGACTAATTTAA
Found at i:131010 original size:60 final size:60
Alignment explanation
Indices: 130944--131067 Score: 205
Period size: 60 Copynumber: 2.1 Consensus size: 60
130934 CTGAGATTTG
*
130944 TAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTTAAGG-ACTAATTTAAAATGAGAGACA
1 TAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTT-AGGAACCAATTTAAAATGAGAGACA
* *
131004 TAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTTAGGAACCAATTTAAAATGAGGGTCA
1 TAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTTAGGAACCAATTTAAAATGAGAGACA
131064 TAGT
1 TAGT
131068 GTGAGAGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 3 0.05
60 57 0.95
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
TAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTTAGGAACCAATTTAAAATGAGAGACA
Found at i:138735 original size:20 final size:20
Alignment explanation
Indices: 138700--138737 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
138690 TCTCTTAGGC
138700 AAGGGATCAATCCTTTTTGA
1 AAGGGATCAATCCTTTTTGA
138720 AAGGGTATCAAT-CTTTTT
1 AAGGG-ATCAATCCTTTTT
138738 AGTCAAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (20 bp):
AAGGGATCAATCCTTTTTGA
Found at i:142826 original size:19 final size:18
Alignment explanation
Indices: 142802--142837 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
142792 TTTTATCCCT
142802 TTTATTTCTTATCATTTCA
1 TTTATTTCTT-TCATTTCA
142821 TTTATTTCTTTCATTTC
1 TTTATTTCTTTCATTTC
142838 TTATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTCTTTCATTTCA
Found at i:143043 original size:6 final size:6
Alignment explanation
Indices: 143028--143069 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
143018 TGCTACAACA
*
143028 AAAAAC AAAAAG AAAAAAG AAAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAAG AAAAAG AAAAA
143070 AACTCCTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 5 0.15
6 15 0.45
7 13 0.39
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:143043 original size:13 final size:12
Alignment explanation
Indices: 143027--143071 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
143017 GTGCTACAAC
*
143027 AAAAAACAAAAA
1 AAAAAAGAAAAA
143039 GAAAAAAGAAAAA
1 -AAAAAAGAAAAA
143052 AGAAAAAGAAAAGA
1 A-AAAAAGAAAA-A
143066 AAAAAA
1 AAAAAA
143072 CTCCTACATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 1 0.03
13 26 0.90
14 2 0.07
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:143050 original size:20 final size:19
Alignment explanation
Indices: 143027--143072 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
143017 GTGCTACAAC
143027 AAAAAACAAAAAGAAAAAA
1 AAAAAACAAAAAGAAAAAA
* *
143046 GAAAAAAGAAAAAGAAAAGA
1 -AAAAAACAAAAAGAAAAAA
143066 AAAAAAC
1 AAAAAAC
143073 TCCTACATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAAAGAAAAAA
Found at i:143070 original size:7 final size:7
Alignment explanation
Indices: 143034--143063 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
143024 AACAAAAAAC
143034 AAAAAGA
1 AAAAAGA
143041 AAAAAGA
1 AAAAAGA
143048 AAAAAG-
1 AAAAAGA
143054 AAAAAGA
1 AAAAAGA
143061 AAA
1 AAA
143064 GAAAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Done.