Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 20
Found at i:2106308 original size:24 final size:26
Alignment explanation
Indices: 2106279--2106347 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
2106269 AAAAACTCAC
*
2106279 TCACACA-TATTTCATATTAAAAT-AG
1 TCACACACCATTT-ATATTAAAATAAG
*
2106304 -CACACACCCTTTATATTAAAATAAG
1 TCACACACCATTTATATTAAAATAAG
2106329 TCACACACACATTTCATAT
1 TCACACAC-CATTT-ATAT
2106348 ATGCATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 16 0.44
25 5 0.14
26 7 0.19
27 4 0.11
28 4 0.11
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (26 bp):
TCACACACCATTTATATTAAAATAAG
Found at i:2106308 original size:54 final size:53
Alignment explanation
Indices: 2106225--2106347 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 53
2106215 TATTATAAAA
2106225 ACTCACAC-ATTTCATATTAACAACACACACACCCTTTATATTATAAA-AACTC
1 ACTCACACAATTTCATATTAACAACACACACACCCTTTATATTA-AAATAACTC
* *
2106277 ACTCACACATATTTCATATTAA-AATAGCACACACCCTTTATATTAAAATAAGTC
1 ACTCACACA-ATTTCATATTAACAACA-CACACACCCTTTATATTAAAATAACTC
*
2106331 ACACACAC-ATTTCATAT
1 ACTCACACAATTTCATAT
2106348 ATGCATTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
52 17 0.27
53 6 0.09
54 41 0.64
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (53 bp):
ACTCACACAATTTCATATTAACAACACACACACCCTTTATATTAAAATAACTC
Found at i:2106413 original size:25 final size:26
Alignment explanation
Indices: 2106330--2106413 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 26
2106320 TAAAATAAGT
*
2106330 CACACACACATTTCATATATGCATTAAA
1 CACACACACATTACATATAT--ATTAAA
* *
2106358 CACACACACGCATTGCATA-ATA-AAAA
1 CACACACA--CATTACATATATATTAAA
2106384 GCACACACACA-TACATATATATTAAA
1 -CACACACACATTACATATATATTAAA
2106410 CACA
1 CACA
2106414 TACATGTACT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
24 5 0.11
25 9 0.19
26 6 0.13
27 9 0.19
28 8 0.17
29 2 0.04
30 8 0.17
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.21
Consensus pattern (26 bp):
CACACACACATTACATATATATTAAA
Found at i:2106458 original size:56 final size:54
Alignment explanation
Indices: 2106320--2106493 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 54
2106310 CCCTTTATAT
* * * * *
2106320 TAAAATAAGTCACACACACATTTCATATATGCATTAAACACACACACGCATTGCATAA
1 TAAAAAAAG-CACACACACA-TACATATAT--ATTAAACACACACATGTACTGCATAA
*
2106378 T--AAAAAGCACACACACATACATATATATTAAACACATACATGTACTGCATAA
1 TAAAAAAAGCACACACACATACATATATATTAAACACACACATGTACTGCATAA
* * *
2106430 TAAAAAAAGCATACACACATAAATATATATTAAATACACACACACT-TACTGCTTAA
1 TAAAAAAAGCACACACACATACATATATATT-AA-ACACACACA-TGTACTGCATAA
2106486 TAAAAAAA
1 TAAAAAAA
2106494 TAAACACACA
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
52 23 0.23
54 34 0.34
55 12 0.12
56 30 0.30
57 1 0.01
58 1 0.01
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.24
Consensus pattern (54 bp):
TAAAAAAAGCACACACACATACATATATATTAAACACACACATGTACTGCATAA
Found at i:2106501 original size:30 final size:29
Alignment explanation
Indices: 2106461--2106603 Score: 131
Period size: 30 Copynumber: 5.1 Consensus size: 29
2106451 AATATATATT
* *
2106461 AAATACACACACACTTACTGCTTAATAAAA
1 AAATAAACACACACTTACTGCAT-ATAAAA
*
2106491 AAATAAACACACACTTACTGC--ATAATA
1 AAATAAACACACACTTACTGCATATAAAA
* **
2106518 AAA-AAACACACAC--A-TGAATATATATT
1 AAATAAACACACACTTACTGCATATA-AAA
2106544 AAAT--ACACACACTTACTGCATAATAAAA
1 AAATAAACACACACTTACTGCAT-ATAAAA
*
2106572 AAATACACACACACTTACTGCATGATAAAA
1 AAATAAACACACACTTACTGCAT-ATAAAA
2106602 AA
1 AA
2106604 TCTTTTATAT
Statistics
Matches: 95, Mismatches: 8, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
23 2 0.02
24 1 0.01
25 11 0.12
26 15 0.16
27 9 0.09
28 9 0.09
29 3 0.03
30 45 0.47
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (29 bp):
AAATAAACACACACTTACTGCATATAAAA
Found at i:2106568 original size:81 final size:84
Alignment explanation
Indices: 2106406--2106603 Score: 294
Period size: 81 Copynumber: 2.3 Consensus size: 84
2106396 ACATATATAT
*
2106406 TAAACACATACATGTACTGCATAATAAAAAAAGCATACACACATAAATATATATTAAATACACAC
1 TAAACACACAC-T-TACTGCATAATAAAAAAAGCA-ACACACATAAATATATATTAAATA-ACAC
*
2106471 ACACTTACTGCTTAATAAAAAAA
62 ACACTTACTGCATAATAAAAAAA
*
2106494 TAAACACACACTTACTGCATAATAAAAAAA-C-ACACACATGAATATATATTAAAT-ACACACAC
1 TAAACACACACTTACTGCATAATAAAAAAAGCAACACACATAAATATATATTAAATAACACACAC
2106556 TTACTGCATAATAAAAAAA
66 TTACTGCATAATAAAAAAA
* *
2106575 TACACACACACTTACTGCATGATAAAAAA
1 TAAACACACACTTACTGCATAATAAAAAA
2106604 TCTTTTATAT
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
81 53 0.50
83 22 0.21
85 1 0.01
86 18 0.17
87 1 0.01
88 10 0.10
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.23
Consensus pattern (84 bp):
TAAACACACACTTACTGCATAATAAAAAAAGCAACACACATAAATATATATTAAATAACACACAC
TTACTGCATAATAAAAAAA
Found at i:2112746 original size:21 final size:22
Alignment explanation
Indices: 2112722--2112767 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
2112712 CCGAAAATGA
2112722 AGCAAG-GGAAGCAGAGAGAGC
1 AGCAAGCGGAAGCAGAGAGAGC
*
2112743 AGC-AGCGGAAGCAGCGAGAGC
1 AGCAAGCGGAAGCAGAGAGAGC
2112764 AGCA
1 AGCA
2112768 TTGGAAGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.39, C:0.20, G:0.41, T:0.00
Consensus pattern (22 bp):
AGCAAGCGGAAGCAGAGAGAGC
Found at i:2112774 original size:21 final size:21
Alignment explanation
Indices: 2112728--2112767 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2112718 ATGAAGCAAG
2112728 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
2112749 GGAAGCAGCGAGAGCAGCA
1 GGAAGCAGAGAGAGCAGCA
2112768 TTGGAAGTAG
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:0.38, C:0.20, G:0.42, T:0.00
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:2113256 original size:44 final size:43
Alignment explanation
Indices: 2113188--2113270 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 43
2113178 GTATAAGCCG
2113188 CTATAAACCAGACCTTTAGCGGCGTTTGTATCCTAAAAACAGCA
1 CTATAAACCAGACCTTTAGCGGCGTTTGTATCC-AAAAACAGCA
* * *
2113232 CTATATACCAGATCTTTAGTGGCGTTTGTATCCAAAAAC
1 CTATAAACCAGACCTTTAGCGGCGTTTGTATCCAAAAAC
2113271 GCCGCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 6 0.17
44 30 0.83
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
CTATAAACCAGACCTTTAGCGGCGTTTGTATCCAAAAACAGCA
Found at i:2113487 original size:42 final size:43
Alignment explanation
Indices: 2113435--2113597 Score: 127
Period size: 42 Copynumber: 3.8 Consensus size: 43
2113425 TTTGTGAGAA
* * **
2113435 AAACACCGCTAATTATCAATACCTATTGCGGCATTT-TGGGGA-
1 AAACGCCGCTAAATATCAATACCTATTGCGGCATTTAT-AAGAC
* ** * *
2113477 AAACGTCGCTAAACCTTAATACCTATTGCGGCGTTTATAAGAC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCATTTATAAGAC
* * * *
2113520 AAACGCCGCTAAATATCGATACCTATTGCGGCGTTTGT-TGAAC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCATTTATAAG-AC
* * **
2113563 AAACGCAG-TTAATATCGCTACCTATTGCGGCATTT
1 AAACGCCGCTAAATATCAATACCTATTGCGGCATTT
2113598 TGTGTGACCA
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 56 0.57
43 42 0.43
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAATATCAATACCTATTGCGGCATTTATAAGAC
Found at i:2113542 original size:43 final size:43
Alignment explanation
Indices: 2113419--2113615 Score: 168
Period size: 43 Copynumber: 4.6 Consensus size: 43
2113409 ATGGTATATA
* * *
2113419 GCGGCGTTTGTGAGAAAAACACCGCTAATTATCAATACCTATT
1 GCGGCGTTTGTGAGACAAACGCCGCTAAATATCAATACCTATT
* * * ** *
2113462 GCGGCATTT-TGGGGA-AAACGTCGCTAAACCTTAATACCTATT
1 GCGGCGTTTGT-GAGACAAACGCCGCTAAATATCAATACCTATT
* * *
2113504 GCGGCGTTTATAAGACAAACGCCGCTAAATATCGATACCTATT
1 GCGGCGTTTGTGAGACAAACGCCGCTAAATATCAATACCTATT
* * **
2113547 GCGGCGTTTGTTGA-ACAAACGCAG-TTAATATCGCTACCTATT
1 GCGGCGTTTG-TGAGACAAACGCCGCTAAATATCAATACCTATT
* *
2113589 GCGGCATTTTGTGTGACCAAACGCCGC
1 GCGGC-GTTTGTGAGA-CAAACGCCGC
2113616 GATTTTTAGC
Statistics
Matches: 122, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
42 55 0.45
43 57 0.47
44 10 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGTGAGACAAACGCCGCTAAATATCAATACCTATT
Found at i:2114201 original size:3 final size:3
Alignment explanation
Indices: 2114195--2114222 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2114185 ATAATAATAC
2114195 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2114223 AAGGAGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2114558 original size:13 final size:13
Alignment explanation
Indices: 2114540--2114566 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2114530 ACATCACAAT
2114540 TGTAAAATAAACA
1 TGTAAAATAAACA
2114553 TGTAAAATAAACA
1 TGTAAAATAAACA
2114566 T
1 T
2114567 ATAATTAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (13 bp):
TGTAAAATAAACA
Found at i:2121585 original size:15 final size:17
Alignment explanation
Indices: 2121553--2121591 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
2121543 AAATGAACTA
2121553 AATAAATATTATAAATT
1 AATAAATATTATAAATT
*
2121570 ACTAAA-ATTA-AAATT
1 AATAAATATTATAAATT
2121585 AATAAAT
1 AATAAAT
2121592 TATGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATATTATAAATT
Found at i:2121599 original size:22 final size:22
Alignment explanation
Indices: 2121555--2121606 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
2121545 ATGAACTAAA
2121555 TAAATATTATAAATTACTAAAAT
1 TAAA-ATTATAAATTACTAAAAT
*
2121578 TAAAATTAATAAATTA-TGAAAT
1 TAAAATT-ATAAATTACTAAAAT
2121600 TAAAATT
1 TAAAATT
2121607 TATTCATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAATTATAAATTACTAAAAT
Found at i:2121601 original size:16 final size:16
Alignment explanation
Indices: 2121553--2121602 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
2121543 AAATGAACTA
2121553 AATAAATATTATAAATT
1 AATAAA-ATTATAAATT
*
2121570 ACTAAAATTA-AAATT
1 AATAAAATTATAAATT
2121585 AAT-AAATTATGAAATT
1 AATAAAATTAT-AAATT
2121601 AA
1 AA
2121603 AATTTATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 11 0.38
17 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AATAAAATTATAAATT
Found at i:2126181 original size:18 final size:18
Alignment explanation
Indices: 2126137--2126183 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2126127 AAAATAAAAT
*
2126137 AAAATAAAATATAAAGCTC
1 AAAATAAAA-ATAAAGCAC
2126156 AAAATAAAAAT-AAGCAC
1 AAAATAAAAATAAAGCAC
2126173 AAAAGTAAAAA
1 AAAA-TAAAAA
2126184 CTGAAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 8 0.31
19 9 0.35
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATAAAGCAC
Found at i:2126233 original size:29 final size:28
Alignment explanation
Indices: 2126173--2126240 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
2126163 AAATAAGCAC
* * *
2126173 AAAAGTAAAAACTGAAATGTAAATGCTG
1 AAAATTAAAAACTGAAATGGAAATGCTA
2126201 AAAATTAAAGAACTGAAATGGAAATGAC-A
1 AAAATTAAA-AACTGAAATGGAAATG-CTA
2126230 AAAACTTAAAA
1 AAAA-TTAAAA
2126241 GGTAGAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 8 0.24
29 20 0.59
30 6 0.18
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (28 bp):
AAAATTAAAAACTGAAATGGAAATGCTA
Found at i:2128195 original size:24 final size:22
Alignment explanation
Indices: 2128153--2128197 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
2128143 TTTTTGTGTA
2128153 ATAATTAATTAATAATTTAAAT
1 ATAATTAATTAATAATTTAAAT
*
2128175 ATAATTTAATATAATATTTTAAA
1 ATAA-TTAAT-TAATAATTTAAA
2128198 ATATCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATTAATTAATAATTTAAAT
Found at i:2132170 original size:21 final size:21
Alignment explanation
Indices: 2132131--2132197 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
2132121 TTTTAGAGAC
* * *
2132131 ACTTAGCAAGGCACTTCATCT
1 ACTTACCAAGGTACCTCATCT
* *
2132152 ATTTACTAAGGTACCTCATCT
1 ACTTACCAAGGTACCTCATCT
*
2132173 ACTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACCTCATCT
2132194 ACTT
1 ACTT
2132198 GCACTTAGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (21 bp):
ACTTACCAAGGTACCTCATCT
Found at i:2134136 original size:21 final size:20
Alignment explanation
Indices: 2134112--2134150 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2134102 TTCACTTTGA
2134112 TGTTCTTGCTTTTTTTTGTTT
1 TGTTCTTG-TTTTTTTTGTTT
*
2134133 TGTTTTTGTTTTTTTTGT
1 TGTTCTTGTTTTTTTTGT
2134151 CATACTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.00, C:0.05, G:0.15, T:0.79
Consensus pattern (20 bp):
TGTTCTTGTTTTTTTTGTTT
Found at i:2138449 original size:29 final size:30
Alignment explanation
Indices: 2138409--2138469 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
2138399 GCAGAAAAGT
* * **
2138409 AAAAATTGAAATGTAAA-TGCTGAAAATTA
1 AAAAACTGAAATGGAAATTGCAAAAAATTA
2138438 AAAAACTGAAATGGAAATTGCAAAAAATTA
1 AAAAACTGAAATGGAAATTGCAAAAAATTA
2138468 AA
1 AA
2138470 GGGTAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (30 bp):
AAAAACTGAAATGGAAATTGCAAAAAATTA
Found at i:2139416 original size:32 final size:32
Alignment explanation
Indices: 2139375--2139440 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
2139365 TGAAAATCAG
2139375 TTGGAAATCTCGGCGTCTTAGGGTGAATTCCC
1 TTGGAAATCTCGGCGTCTTAGGGTGAATTCCC
*
2139407 TTGGAAATCTCGGTGTCTTAGGGTGAATTCCC
1 TTGGAAATCTCGGCGTCTTAGGGTGAATTCCC
2139439 TT
1 TT
2139441 AAAAATCCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (32 bp):
TTGGAAATCTCGGCGTCTTAGGGTGAATTCCC
Found at i:2139447 original size:32 final size:32
Alignment explanation
Indices: 2139379--2139457 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
2139369 AATCAGTTGG
**
2139379 AAATCTCGGCGTCTTAGGGTGAATTCCCTTGG
1 AAATCTCGGCGTCTTAGGGTGAATTCCCTTAA
*
2139411 AAATCTCGGTGTCTTAGGGTGAATTCCCTTAA
1 AAATCTCGGCGTCTTAGGGTGAATTCCCTTAA
* *
2139443 AAATCCCGACGTCTT
1 AAATCTCGGCGTCTT
2139458 TAGGATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (32 bp):
AAATCTCGGCGTCTTAGGGTGAATTCCCTTAA
Found at i:2143831 original size:16 final size:15
Alignment explanation
Indices: 2143795--2143860 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
2143785 AATTTAAGTG
2143795 TAATGATT-AT-ATA
1 TAATGATTAATAATA
*
2143808 -AATTATTAATAATA
1 TAATGATTAATAATA
*
2143822 TTAATGATTAACT-A-C
1 -TAATGATTAA-TAATA
2143837 TAATGATTTAATAATA
1 TAATGA-TTAATAATA
2143853 TAATGATT
1 TAATGATT
2143861 TGATTTAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
12 6 0.15
13 2 0.05
14 10 0.24
15 7 0.17
16 15 0.37
17 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (15 bp):
TAATGATTAATAATA
Found at i:2143875 original size:8 final size:8
Alignment explanation
Indices: 2143837--2143885 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
2143827 GATTAACTAC
2143837 TAATGATT
1 TAATGATT
* *
2143845 TAATAATA
1 TAATGATT
2143853 TAATGA-T
1 TAATGATT
2143860 T--TGATT
1 TAATGATT
*
2143866 TAATGTTT
1 TAATGATT
2143874 TAATGATT
1 TAATGATT
2143882 TAAT
1 TAAT
2143886 AATTATTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 1 0.03
8 26 0.81
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (8 bp):
TAATGATT
Found at i:2143914 original size:16 final size:14
Alignment explanation
Indices: 2143897--2143942 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
2143887 ATTATTAAAT
2143897 TTTAACTACTAATTA
1 TTTAACTA-TAATTA
2143912 TTTAA-TAATAA-TA
1 TTTAACT-ATAATTA
*
2143925 TTTAACTATAATGA
1 TTTAACTATAATTA
2143939 TTTA
1 TTTA
2143943 TTAATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (14 bp):
TTTAACTATAATTA
Found at i:2143966 original size:26 final size:26
Alignment explanation
Indices: 2143874--2143999 Score: 101
Period size: 26 Copynumber: 4.6 Consensus size: 26
2143864 TTTAATGTTT
*
2143874 TAATGATTTAATAATTATTAAATTTTAA
1 TAATGATTTATTAATTA-TAAA-TTTAA
* * *
2143902 CTACT-AATTATTTAATAATAATATTTAACTA
1 -TAATGATTTA-TTAATTATAA-ATTT-A--A
2143933 TAATGATTTATTAATTATAAATTTAA
1 TAATGATTTATTAATTATAAATTTAA
* * *
2143959 TAATGATTTATTAATTATTAATATGA
1 TAATGATTTATTAATTATAAATTTAA
*
2143985 TAATGATTTAGTAAT
1 TAATGATTTATTAAT
2144000 GATTAGTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
26 38 0.47
28 11 0.14
29 14 0.17
30 12 0.15
31 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (26 bp):
TAATGATTTATTAATTATAAATTTAA
Found at i:2144004 original size:26 final size:26
Alignment explanation
Indices: 2143932--2144014 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
2143922 ATATTTAACT
* *
2143932 ATAATGATTTATTAATTATAAATTTA
1 ATAATGATTTATTAATTATTAATATA
*
2143958 ATAATGATTTATTAATTATTAATATG
1 ATAATGATTTATTAATTATTAATATA
* * *
2143984 ATAATGATTTAGTAATGATTAGTAATA
1 ATAATGATTTATTAATTATTAAT-ATA
2144011 ATAA
1 ATAA
2144015 CTACTAATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 43 0.88
27 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
ATAATGATTTATTAATTATTAATATA
Found at i:2144058 original size:11 final size:11
Alignment explanation
Indices: 2143953--2144121 Score: 53
Period size: 11 Copynumber: 14.5 Consensus size: 11
2143943 TTAATTATAA
2143953 ATTTAATAATG
1 ATTTAATAATG
* *
2143964 ATTTATTAATT
1 ATTTAATAATG
2143975 ATTAATATGATAATG
1 ATT--TA--ATAATG
*
2143990 ATTTAGTAATG
1 ATTTAATAATG
2144001 ATTAGTAATAAT-
1 ATT--TAATAATG
** *
2144013 AACTACTAATG
1 ATTTAATAATG
2144024 A-TT--TAATG
1 ATTTAATAATG
*
2144032 ATTTGATACAAATG
1 ATTT-A-A-TAATG
2144046 ATTTAATAATG
1 ATTTAATAATG
2144057 ATTTGAAATAATG
1 ATTT--AATAATG
*
2144070 AAATTATAATAATT
1 --ATT-TAATAATG
*
2144084 A-CTAATAATG
1 ATTTAATAATG
* *
2144094 ATTTACTAATT
1 ATTTAATAATG
2144105 ATTACTAAT-ATG
1 ATT--TAATAATG
2144117 ATTTA
1 ATTTA
2144122 GTACTAAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 43
0.65 0.11 0.24
Matches are distributed among these distances:
8 6 0.05
9 2 0.02
10 17 0.15
11 38 0.32
12 8 0.07
13 21 0.18
14 14 0.12
15 10 0.09
16 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:2144090 original size:24 final size:24
Alignment explanation
Indices: 2144063--2144114 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2144053 AATGATTTGA
2144063 AATAATGAAATTA-TAATAATTACT
1 AATAATG-AATTACTAATAATTACT
* *
2144087 AATAATGATTTACTAATTATTACT
1 AATAATGAATTACTAATAATTACT
2144111 AATA
1 AATA
2144115 TGATTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AATAATGAATTACTAATAATTACT
Found at i:2146182 original size:16 final size:16
Alignment explanation
Indices: 2146161--2146191 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2146151 AATAAATAAA
2146161 TAAATGATTTTTGATT
1 TAAATGATTTTTGATT
2146177 TAAATGATTTTTGAT
1 TAAATGATTTTTGAT
2146192 GTTTGGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TAAATGATTTTTGATT
Found at i:2146616 original size:21 final size:22
Alignment explanation
Indices: 2146591--2146632 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2146581 TAAATATTAA
2146591 TAAAACATTTA-TTAAAAATAG
1 TAAAACATTTATTTAAAAATAG
*
2146612 TAAAATATTTATTTAAAAATA
1 TAAAACATTTATTTAAAAATA
2146633 TCAGAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAACATTTATTTAAAAATAG
Found at i:2146833 original size:11 final size:11
Alignment explanation
Indices: 2146815--2146846 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2146805 TTATATGACT
2146815 AAATAATAATA
1 AAATAATAATA
*
2146826 ACATAATAATA
1 AAATAATAATA
2146837 AAATAATAAT
1 AAATAATAAT
2146847 TTAAACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:2148391 original size:3 final size:3
Alignment explanation
Indices: 2148383--2148414 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
2148373 ATTTATTTTT
2148383 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T
2148415 TAAATGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2148919 original size:32 final size:32
Alignment explanation
Indices: 2148881--2148972 Score: 175
Period size: 32 Copynumber: 2.9 Consensus size: 32
2148871 GGTCCAAAGC
*
2148881 TTATTTCAAATTATGTAACAACATATAAATTA
1 TTATTTCAAAGTATGTAACAACATATAAATTA
2148913 TTATTTCAAAGTATGTAACAACATATAAATTA
1 TTATTTCAAAGTATGTAACAACATATAAATTA
2148945 TTATTTCAAAGTATGTAACAACATATAA
1 TTATTTCAAAGTATGTAACAACATATAA
2148973 TCATAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (32 bp):
TTATTTCAAAGTATGTAACAACATATAAATTA
Found at i:2149138 original size:33 final size:33
Alignment explanation
Indices: 2149096--2149163 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
2149086 TTTTGAAAAC
*
2149096 GATGATCGATATCCTTTCACTCTCTTTGCTTCT
1 GATGATCGATATCCTCTCACTCTCTTTGCTTCT
2149129 GATGATCGATATCCTCTCACTCTCTTTGCTTCT
1 GATGATCGATATCCTCTCACTCTCTTTGCTTCT
2149162 GA
1 GA
2149164 AATTGAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.16, C:0.28, G:0.13, T:0.43
Consensus pattern (33 bp):
GATGATCGATATCCTCTCACTCTCTTTGCTTCT
Found at i:2149307 original size:32 final size:33
Alignment explanation
Indices: 2149266--2149340 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
2149256 ATTCTGCTGC
* *
2149266 TGAAGAAGACGCCAATACATCC-CCCTCCC-ATG
1 TGAAGAAGACGCCAAGAAATCCACCC-CCCAATG
* *
2149298 TGAAGAAGACGTCGAGAAATCCACCCCCCAATG
1 TGAAGAAGACGCCAAGAAATCCACCCCCCAATG
2149331 TGAAGAAGAC
1 TGAAGAAGAC
2149341 ATCGAGAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 21 0.57
33 16 0.43
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.13
Consensus pattern (33 bp):
TGAAGAAGACGCCAAGAAATCCACCCCCCAATG
Found at i:2160939 original size:18 final size:19
Alignment explanation
Indices: 2160916--2160962 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
2160906 AATGATTTTC
* *
2160916 TTTTGAAAGCTAAAATG-A
1 TTTTGAAAACCAAAATGAA
2160934 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATG-AA
2160954 TTTTGAAAA
1 TTTTGAAAA
2160963 ATGATTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (19 bp):
TTTTGAAAACCAAAATGAA
Found at i:2162558 original size:21 final size:21
Alignment explanation
Indices: 2162532--2162607 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
2162522 TAACAAAGGT
*
2162532 AGTACCGATACTCCCTATAGG
1 AGTACCGATACCCCCTATAGG
2162553 AGTACCGATACCCCCTATAGG
1 AGTACCGATACCCCCTATAGG
*
2162574 AGTATCGATACCCCCTATAGG
1 AGTACCGATACCCCCTATAGG
*
2162595 AGTATCGATACCC
1 AGTACCGATACCC
2162608 TCTGTACTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (21 bp):
AGTACCGATACCCCCTATAGG
Found at i:2164552 original size:49 final size:48
Alignment explanation
Indices: 2164474--2164667 Score: 280
Period size: 49 Copynumber: 4.0 Consensus size: 48
2164464 CTACTCTATA
* * * *
2164474 ATGAAAGTTAAATGCATAACAGTGTATTTCAGCTTAAAAGGTGCCACT
1 ATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
*
2164522 GATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCAACT
1 -ATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* *
2164571 AAGAAAAGTAAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
1 ATG-AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* *
2164620 AATGAAAGTTAAATGCATAACGGTGCATTTCGACGTAAAAGGTGCCAC
1 -ATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCAC
2164668 ACATGGTATT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 2 0.02
49 127 0.97
50 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
ATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
Found at i:2165578 original size:14 final size:14
Alignment explanation
Indices: 2165559--2165587 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2165549 TAGTGAAAGT
2165559 TATGAGGAGAATAG
1 TATGAGGAGAATAG
2165573 TATGAGGAGAATAG
1 TATGAGGAGAATAG
2165587 T
1 T
2165588 GAGTATCCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (14 bp):
TATGAGGAGAATAG
Found at i:2169368 original size:22 final size:22
Alignment explanation
Indices: 2169338--2169389 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2169328 ATTCGACTTT
* * *
2169338 TTTAATTTGAAAATTGTTCAAA
1 TTTATTTTGAAAACTATTCAAA
2169360 TTTATTTTGAAAACTATTCAAA
1 TTTATTTTGAAAACTATTCAAA
*
2169382 TTTGTTTT
1 TTTATTTT
2169390 TATTTGCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (22 bp):
TTTATTTTGAAAACTATTCAAA
Found at i:2174873 original size:2 final size:2
Alignment explanation
Indices: 2174866--2174898 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
2174856 ATGTATTGCT
2174866 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T
2174899 TTAGTATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2174959 original size:2 final size:2
Alignment explanation
Indices: 2174952--2174984 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2174942 TCAATCTACA
*
2174952 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2174985 ATTCACGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2175149 original size:85 final size:85
Alignment explanation
Indices: 2175006--2175169 Score: 283
Period size: 85 Copynumber: 1.9 Consensus size: 85
2174996 ACAATCACGG
* * *
2175006 CACACGAATGTGTGTCATTTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
1 CACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
*
2175071 TGCGTGTCATAAATTTATGA
66 TGCGCGTCATAAATTTATGA
*
2175091 CACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATAAA
1 CACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
2175156 TGCGCGTCATAAAT
66 TGCGCGTCATAAAT
2175170 GCGTGTCATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (85 bp):
CACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
TGCGCGTCATAAATTTATGA
Found at i:2175164 original size:13 final size:13
Alignment explanation
Indices: 2175148--2175195 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
2175138 CGCAATGTAA
*
2175148 GTCATAAATGCGC
1 GTCATAAATGCGT
2175161 GTCATAAATGCGT
1 GTCATAAATGCGT
2175174 GTCATAAATGCGT
1 GTCATAAATGCGT
2175187 GTCATAAAT
1 GTCATAAAT
2175196 TTATAACGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:2175170 original size:26 final size:26
Alignment explanation
Indices: 2175141--2175195 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
2175131 AATGACGCGC
*
2175141 AATGTAAGTCATAAATGCGCGTCATA
1 AATGCAAGTCATAAATGCGCGTCATA
** *
2175167 AATGCGTGTCATAAATGCGTGTCATA
1 AATGCAAGTCATAAATGCGCGTCATA
2175193 AAT
1 AAT
2175196 TTATAACGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (26 bp):
AATGCAAGTCATAAATGCGCGTCATA
Found at i:2175733 original size:19 final size:20
Alignment explanation
Indices: 2175709--2175756 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2175699 AATGATTTTC
* * *
2175709 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
2175728 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
2175748 TTTTGAAAA
1 TTTTGAAAA
2175757 ATGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:2177342 original size:21 final size:23
Alignment explanation
Indices: 2177316--2177369 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 23
2177306 TAACAAAGGT
2177316 AGTACCGATACT-CC-ATATAGG
1 AGTACCGATACTCCCTATATAGG
2177337 AGTACCGATACTCCCTATATAGG
1 AGTACCGATACTCCCTATATAGG
*
2177360 A-TATCGATAC
1 AGTACCGATAC
2177370 CCTCTGTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 12 0.40
22 10 0.33
23 8 0.27
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (23 bp):
AGTACCGATACTCCCTATATAGG
Found at i:2179328 original size:49 final size:49
Alignment explanation
Indices: 2179252--2179546 Score: 396
Period size: 49 Copynumber: 6.0 Consensus size: 49
2179242 AACTGCTCTA
* *
2179252 TAATGAAAGTTAAATGCATAACAGTGCATTTCAGCTTAAAAGGTGCCAC
1 TAATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
* * **
2179301 TGATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGAAAC
1 TAATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
* *
2179350 TAA-GAAAAGTAAAATGCATAACGGTGCATTTCTGCATAAAAGGTGCCAC
1 TAATG-AAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
* * * *
2179399 TAATGAAAGCTAAATGCATAGCGGTGCATTTCAACGTAAAAGGTGCCAC
1 TAATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
*
2179448 TAATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCAC
1 TAATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
* * * *
2179497 TAATGAAAGTTAAATGTATAACGATGTATTTTC-GACAAAAAAGGTGCCAC
1 TAATGAAAGTTAAATGCATAACGGTGCA-TTTCAG-CATAAAAGGTGCCAC
2179547 ACATGGTATT
Statistics
Matches: 216, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.00
49 196 0.91
50 19 0.09
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (49 bp):
TAATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCAC
Found at i:2184142 original size:22 final size:22
Alignment explanation
Indices: 2184116--2184162 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2184106 ACTTTTGTAA
* *
2184116 TTTGAAAATTGTTCAAATTTAT
1 TTTGAAAACTATTCAAATTTAT
*
2184138 TTTGAAAACTATTCAAATTTGT
1 TTTGAAAACTATTCAAATTTAT
2184160 TTT
1 TTT
2184163 TATTTGCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTGAAAACTATTCAAATTTAT
Found at i:2189321 original size:95 final size:97
Alignment explanation
Indices: 2189158--2189352 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 97
2189148 ACTGGCTGTG
2189158 CAAAATTTTGACATCTTTGTTTTATTTTACTTACCAATTGTTGATATTGTTTTGCATATTCTAAG
1 CAAAATTTTGACATCTTTGTTTTATTTTACTTACCAATTGTTGATATTGTTTTGCATATTCTAAG
2189223 CATCCTCA-TTTTTTTGCCAATA-ATGTTTGA
66 CATCCTCATTTTTTTTGCCAATACATGTTTGA
2189253 CAAAATTTTGACATCTTTGTTTTA-TTTACTTACCAATTGTTGATATTGTTTTTGCATATTCTAA
1 CAAAATTTTGACATCTTTGTTTTATTTTACTTACCAATTGTTGATATTG-TTTTGCATATTCTAA
2189317 GCATCCTCATTTTTTTTGCCAATACATGTTTGA
65 GCATCCTCATTTTTTTTGCCAATACATGTTTGA
2189350 CAA
1 CAA
2189353 CACTGCCTAT
Statistics
Matches: 97, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
94 24 0.25
95 48 0.49
96 14 0.14
97 11 0.11
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (97 bp):
CAAAATTTTGACATCTTTGTTTTATTTTACTTACCAATTGTTGATATTGTTTTGCATATTCTAAG
CATCCTCATTTTTTTTGCCAATACATGTTTGA
Found at i:2193176 original size:13 final size:13
Alignment explanation
Indices: 2193121--2193170 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
2193111 TTATAACGCG
2193121 CATTTATGACACA
1 CATTTATGACACA
2193134 CATTTATGACACA
1 CATTTATGACACA
**
2193147 CATTTATGATGCA
1 CATTTATGACACA
2193160 CATTTATGACA
1 CATTTATGACA
2193171 TTCATTGAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:2193400 original size:2 final size:2
Alignment explanation
Indices: 2193393--2193440 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2193383 ATAATACTAA
*
2193393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2193435 AT AT AT
1 AT AT AT
2193441 TCATACATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2201897 original size:20 final size:21
Alignment explanation
Indices: 2201872--2201931 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
2201862 GATTGGGTTC
2201872 GGGTTGACTCTAG-CCTGTTT
1 GGGTTGACTCTAGACCTGTTT
** *
2201892 GGGTTGACTC-AGTTCGGTTT
1 GGGTTGACTCTAGACCTGTTT
*
2201912 GAGTTGACT-TAGACCTGTTT
1 GGGTTGACTCTAGACCTGTTT
2201932 AAATCGGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.13, C:0.17, G:0.30, T:0.40
Consensus pattern (21 bp):
GGGTTGACTCTAGACCTGTTT
Found at i:2203671 original size:21 final size:21
Alignment explanation
Indices: 2203647--2203698 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
2203637 TAATTTCCCA
2203647 AATTGGCCATTT-AATATTTCG
1 AATTGGCCATTTAAAT-TTTCG
** * *
2203668 AATTATCCTTTTAAATTTTTG
1 AATTGGCCATTTAAATTTTCG
2203689 AATTGGCCAT
1 AATTGGCCAT
2203699 GCATTATAGC
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (21 bp):
AATTGGCCATTTAAATTTTCG
Found at i:2207830 original size:15 final size:17
Alignment explanation
Indices: 2207810--2207841 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2207800 GTTATATGTG
2207810 TTTTAAA-A-ATTAAAA
1 TTTTAAATATATTAAAA
2207825 TTTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
2207842 GTATCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:2208995 original size:2 final size:2
Alignment explanation
Indices: 2208988--2209022 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2208978 ATAATCAAAG
2208988 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 T
2209023 TAAGATTGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2212573 original size:39 final size:38
Alignment explanation
Indices: 2212492--2212822 Score: 428
Period size: 35 Copynumber: 8.7 Consensus size: 38
2212482 ATATATACAT
* *
2212492 AATATATAGAATATATAGTTTTGAAAATATTTTT-AAA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
2212529 AATATATATAATATCTAGTTTTGAAAACATTTTTG-AA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
2212566 AATATATAT--TATATAGTTTTGAAAACATTTTTGAATA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAA-A
* *
2212603 TGCATATTTATATATATATAGTTTTGAAAACATTTTTGAAAAA
1 --AATATATATA-ATATATAGTTTTGAAAACATTTTTG--AAA
*
2212646 AATATATATAATATATAGTTTTGTAAACATTTTTGAAA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
2212684 AATATATATAATATA-A--TTTGAAAACATTTTTGAAA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* * *
2212719 CATATATATAATATATAGTTTTGGAAACATTTTCGAAA
1 AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
2212757 AA-ATATATATATAATATAGTTTTGAAAACATTTTTCG-AA
1 AATATATATA-AT-ATATAGTTTTGAAAACATTTTT-GAAA
*
2212796 AATATATATAATATATAGTTTTAAAAA
1 AATATATATAATATATAGTTTTGAAAA
2212823 ATGATTTATA
Statistics
Matches: 260, Mismatches: 17, Indels: 33
0.84 0.05 0.11
Matches are distributed among these distances:
35 55 0.21
36 2 0.01
37 51 0.20
38 52 0.20
39 33 0.13
40 32 0.12
41 8 0.03
42 24 0.09
43 1 0.00
44 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (38 bp):
AATATATATAATATATAGTTTTGAAAACATTTTTGAAA
Found at i:2212865 original size:14 final size:13
Alignment explanation
Indices: 2212846--2212897 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 13
2212836 TACTTATTTC
2212846 TTTATTTATTTATT
1 TTTATTT-TTTATT
*
2212860 TTTATTCGTTTATT
1 TTTATT-TTTTATT
2212874 TTTATTTTTTAGTCT
1 TTTATTTTTTA-T-T
2212889 TTTATTTTT
1 TTTATTTTT
2212898 CTGGTTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 4 0.12
14 19 0.58
15 10 0.30
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:2212879 original size:20 final size:21
Alignment explanation
Indices: 2212854--2212897 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2212844 TCTTTATTTA
*
2212854 TTTA-TTTTTATTCGTTTATT
1 TTTATTTTTTAGTCGTTTATT
*
2212874 TTTATTTTTTAGTCTTTTATT
1 TTTATTTTTTAGTCGTTTATT
2212895 TTT
1 TTT
2212898 CTGGTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTATTTTTTAGTCGTTTATT
Found at i:2221261 original size:44 final size:44
Alignment explanation
Indices: 2221189--2221285 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
2221179 TCACGACAAA
*
2221189 TATTTC-TTC-TTACTTTATTTCATTTCCTTTTGAATTTAATTT
1 TATTTCATTCTTTACTTTATTTCATCTCCTTTTGAATTTAATTT
* *
2221231 TCTTTCATTCTTTACTTTGTTTCATCTCCTTTTGAATTTAATTT
1 TATTTCATTCTTTACTTTATTTCATCTCCTTTTGAATTTAATTT
2221275 TATTTCATTCT
1 TATTTCATTCT
2221286 ATGTGGGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 5 0.10
43 3 0.06
44 41 0.84
ACGTcount: A:0.18, C:0.16, G:0.03, T:0.63
Consensus pattern (44 bp):
TATTTCATTCTTTACTTTATTTCATCTCCTTTTGAATTTAATTT
Found at i:2226240 original size:24 final size:24
Alignment explanation
Indices: 2226211--2226262 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
2226201 ATGAATATTT
2226211 TACATTAATTAAAATCAATTAGTG
1 TACATTAATTAAAATCAATTAGTG
*
2226235 TACATTAATTAAAATCAATTAGTT
1 TACATTAATTAAAATCAATTAGTG
2226259 TACA
1 TACA
2226263 AAACATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (24 bp):
TACATTAATTAAAATCAATTAGTG
Found at i:2226870 original size:28 final size:28
Alignment explanation
Indices: 2226830--2226901 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2226820 ACGTAGGATT
* *
2226830 TGTCTCAAAGGACGACACATAACACATA
1 TGTCTCGAAGGACCACACATAACACATA
* *
2226858 TGTCTCGAAGGACCACATATAATACATA
1 TGTCTCGAAGGACCACACATAACACATA
* *
2226886 TGTCCCGAATGACCAC
1 TGTCTCGAAGGACCAC
2226902 TCCTTAAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (28 bp):
TGTCTCGAAGGACCACACATAACACATA
Found at i:2228418 original size:126 final size:124
Alignment explanation
Indices: 2228208--2228509 Score: 424
Period size: 126 Copynumber: 2.4 Consensus size: 124
2228198 ATGGTTGAAG
* * *
2228208 CCACATCATGTTGGGATGACCAAATTCATAACAAGTAGGCATTGAGAATGAGCCTTACAATTTGA
1 CCACATCATGTTGAGATGACCAGATTCAGAACAAGTAGGCATTGAGAATGAGCCTTACAATTTGA
* * *
2228273 GGTGATGGGGCATTTTGAAGGCCCGTACCGGTATAAAATAATGTTGGGGGCACGATTAAAC
66 GGTGATGGGACATTTTGAAGGCCCGTACCAGTAT-AAATAATGTT-GGGGCACGACTAAAC
* *
2228334 CCATATCATGTTGAGATGACCAGATTCAGAAGAAGTAGGCATTGAGAATGAGCCTTACAATTTGA
1 CCACATCATGTTGAGATGACCAGATTCAGAACAAGTAGGCATTGAGAATGAGCCTTACAATTTGA
* * * * *
2228399 GGTGATGTGACATTTTGAAGGCTCGTACCAGTGTAGATAATGTTGGGGCACGACTGAAC
66 GGTGATGGGACATTTTGAAGGCCCGTACCAGTATAAATAATGTTGGGGCACGACTAAAC
* * * **
2228458 CCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGTTATTGAGAATGAG
1 CCACATCATGTTGAGATGACCAGATTCAGAACAAGTAGGCATTGAGAATGAG
2228510 TCTCGCAACT
Statistics
Matches: 156, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 58 0.37
125 9 0.06
126 89 0.57
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (124 bp):
CCACATCATGTTGAGATGACCAGATTCAGAACAAGTAGGCATTGAGAATGAGCCTTACAATTTGA
GGTGATGGGACATTTTGAAGGCCCGTACCAGTATAAATAATGTTGGGGCACGACTAAAC
Found at i:2229292 original size:35 final size:37
Alignment explanation
Indices: 2229225--2229309 Score: 129
Period size: 36 Copynumber: 2.3 Consensus size: 37
2229215 GGGCAAGTCA
* *
2229225 ATCTTAATCCTTCACCGAAGAGTAGTGAAGCAAAC-C
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACTC
2229261 ATCTTAAGCCTTCACCAAAG-GTAGTGAAGCAAACTC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACTC
2229297 ATCTGTAAGCCTT
1 ATCT-TAAGCCTT
2229310 TAGGGCAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
35 14 0.31
36 23 0.51
37 8 0.18
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACTC
Found at i:2229735 original size:214 final size:214
Alignment explanation
Indices: 2229295--2230866 Score: 2375
Period size: 214 Copynumber: 7.3 Consensus size: 214
2229285 TGAAGCAAAC
* *
2229295 TCATCTGTAAGCCTTTAGGGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2229360 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
2229425 G--TGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
131 GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
*
2229488 GATGCTTAATTCTTTCGGG
196 GATGCTTAAATCTTTCGGG
* * * * *
2229507 TCATCTGTAAGCCTTTACAGCAAGATGATAAGCCCTTCAGGCCATCCGTAAAACCTTCAGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
* * *
2229572 ATGTTGTCACATGAATTTGAAAATGAAAAATGATGTTTTTAGAAGATGGAATTTTTGAAAACGAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
* * * *
2229637 GAATGCGATTTTCAAAATTTCACAATTTATAAATCCTTCGAGCCATCAGTAAGTCTTTCGAGTAT
131 GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* *
2229702 AATGCTTAATTCTTTCGGG
196 GATGCTTAAATCTTTCGGG
*
2229721 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
2229786 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
* * *
2229851 AAATGTAATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
131 GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGAGCA
*
2229916 TGATGCTTAAATCCTT-GGG
195 TGATGCTTAAATCTTTCGGG
* **
2229935 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAAACCTTCAAGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2230000 ATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
66 ATGTTTTCACATGAATTTGAAAATG--AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACG
* * *
2230065 AAGACTGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGT
129 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* *
2230130 ATGATGCTTAATTCCTTCGGG
194 ATGATGCTTAAATCTTTCGGG
* *
2230151 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTTGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2230216 ATGTTTTCACATGAATTTGAAAATTAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
* * *
2230281 AAATGTAATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
131 GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGAGCA
2230346 TGATGCTTAAATC-TTCGGG
195 TGATGCTTAAATCTTTCGGG
* * *
2230365 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCATCCATAAAACCTTCAGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2230430 ATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
66 ATGTTTTCACATGAATTTGAAAATG--AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACG
* * * ** *
2230495 AAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATTAGTAAGCCTTTAAATC
129 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
2230560 ATGATGCTTAAATCATTCGGG
194 ATGATGCTTAAATCTTTCGGG
* * * * * *
2230581 TCATCTGTAAGCTTTTTGAGCAAGATGACAAGTCCATCGGGCCATCCATAAGACCATT-GGGAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACC-TTCGGGTAG
*
2230645 GATGTTTTCACATGAATTTGAAAAT-AGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
65 GATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACG
* * * *
2230709 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCTTTCGAGCCATCAGTAAGTTTTTCGAGC
129 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
2230774 ATGATGCTTAAATCTTTTGGG
194 ATGATGCTTAAATCTTTCGGG
* * * * * * * * *
2230795 TCATTTGTGAGTCTCTCGAGCAAGA-GAATAAATCCTTCGGGTCATCCATAAGACCTTCGGGCAG
1 TCATCTGTAAGCCTTTAGAGCAAGATG-ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAG
*
2230859 GATATTTT
65 GATGTTTT
2230867 TCACCAAGAT
Statistics
Matches: 1237, Mismatches: 109, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
212 120 0.10
213 4 0.00
214 681 0.55
215 83 0.07
216 347 0.28
217 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (214 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGCTTAAATCTTTCGGG
Found at i:2229956 original size:41 final size:42
Alignment explanation
Indices: 2229879--2229980 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 42
2229869 TTCATAATTT
* * * * *
2229879 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCATGATG
1 ATAAATCCTTCGGGTCATCAGTAAGTCCTTTAGAGCAAGATG
* *
2229921 CTTAAATCCTT-GGGTCATCTGTAAG-CCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGTCATCAGTAAGTCCTTTAGAGCAAGATG
*
2229962 ATAAGTCCTTCGGGTCATC
1 ATAAATCCTTCGGGTCATC
2229981 CATAAAACCT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
40 8 0.16
41 21 0.43
42 12 0.24
43 8 0.16
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
ATAAATCCTTCGGGTCATCAGTAAGTCCTTTAGAGCAAGATG
Found at i:2230161 original size:42 final size:41
Alignment explanation
Indices: 2230095--2230201 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
2230085 TTCACAATTT
* * * *
2230095 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGTATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * * *
2230136 CTTAATTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
2230178 ATAAGTCCTTCGGGCCATCCGTAA
1 ATAAGTCCTTCGGGCCATCAGTAA
2230202 AACCTTCGGG
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 20 0.38
42 33 0.62
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:2230164 original size:430 final size:431
Alignment explanation
Indices: 2229295--2230866 Score: 2502
Period size: 430 Copynumber: 3.7 Consensus size: 431
2229285 TGAAGCAAAC
* *
2229295 TCATCTGTAAGCCTTTAGGGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2229360 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAAC--T
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
* *
2229423 AAGTGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGAGCA
131 AAATGTAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
* * * * *
2229487 TGATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTACAGCAAGATGATAAGCCCTTCAGGCCAT
196 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCAT
* * *
2229552 CCGTAAAACCTTCAGGTAGGATGTTGTCACATGAATTTGAAAATG--AAAAATGATGTTTTTAGA
261 CCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
* * *
2229615 AGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAATCCTTCGAGC
326 AGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
* *
2229680 CATCAGTAAGTCTTTCGAGTATAATGCTTAATTCTTTCGGG
391 CATCAGTAAGTCTTTCGAGTATGATGCTTAATTCATTCGGG
*
2229721 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
2229786 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
*
2229851 AAATGTAATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
131 AAATGTAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
*
2229916 TGATGCTTAAATCCTT-GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCAT
196 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCAT
*
2229980 CCATAAAACCTTCAAGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
261 CCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
*
2230045 AGATGGAATTTTTGAAAACGAAGACTGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
326 AGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
*
2230110 CATCAGTAAGTCTTTCGAGTATGATGCTTAATTCCTTCGGG
391 CATCAGTAAGTCTTTCGAGTATGATGCTTAATTCATTCGGG
* *
2230151 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTTGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2230216 ATGTTTTCACATGAATTTGAAAATTAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
*
2230281 AAATGTAATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
131 AAATGTAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
2230346 TGATGCTTAAAT-CTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCAT
196 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCAT
2230410 CCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
261 CCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
2230475 AGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
326 AGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
* * * * *
2230540 CATTAGTAAGCCTTT-AAATCATGATGCTTAAATCATTCGGG
391 CATCAGTAAGTCTTTCGAGT-ATGATGCTTAATTCATTCGGG
* * * * * *
2230581 TCATCTGTAAGCTTTTTGAGCAAGATGACAAGTCCATCGGGCCATCCATAAGACCATT-GGGAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACC-TTCGGGTAG
*
2230645 GATGTTTTCACATGAATTTGAAAAT-AGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
65 GATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACG
* ** * *
2230709 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCTTTCGAGCCATCAGTAAGT-TTTTCGAG
129 AAAAATGTAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAG
* * * * * * * **
2230773 CATGATGCTTAAATCTTTTGGGTCATTTGTGAGTCTCTCGAGCAAGA-GAATAAATCCTTCGGGT
194 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-ATAAGCCCTTCGGGT
* * * *
2230837 CATCCATAAGACCTTCGGGCAGGATATTTT
258 CATCCATAAAACCTTCAGGTAGGATGTTTT
2230867 TCACCAAGAT
Statistics
Matches: 1073, Mismatches: 62, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
426 124 0.12
428 138 0.13
429 52 0.05
430 757 0.71
431 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (431 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAA
AAATGTAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCA
TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGCCCTTCGGGTCAT
CCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
AGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
CATCAGTAAGTCTTTCGAGTATGATGCTTAATTCATTCGGG
Found at i:2230678 original size:644 final size:641
Alignment explanation
Indices: 2229295--2230861 Score: 2410
Period size: 644 Copynumber: 2.4 Consensus size: 641
2229285 TGAAGCAAAC
*
2229295 TCATCTGTAAGCCTTTAGGGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
2229360 ATGTTTTCACATGAATTTGAAAAT-GAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATAG-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
*
2229424 AG-TGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
130 AGATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * *
2229488 GATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTACAGCAAGATGATAAGCCCTTCAGGCCATC
195 GATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
* *
2229553 CGTAAAACCTTCAGGTAGGATGTTGTCACATGAATTTGAAAATGAAAAATGATGTTTTTAGAAGA
260 CGTAAAACCTTCGGGTAGGATGTTGTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGA
* * *
2229618 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAATCCTTCGAGCCAT
325 TGAAATTTTTGAAAACGAAAAATGCAATTTTCAAAATTTCACAATTTATAAATCCTTCGAGCCAT
* *
2229683 CAGTAAGTCTTTCGAGTATAATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
390 CAGTAAGTCTTTCGAGCATAATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * *
2229748 ATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAA
455 ATAAGCCCTTCGGGCCATCCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAA
*
2229813 AAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAAAATGTAATTTTCAAAATTTCATAATT
520 AAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAAAATGTAATTTTCAAAATTTCACAATT
* ** *
2229878 TATAAGTCCTTCGGGCCATCAGTAAGTCTTTTCGAGCATGATGCTTAAATCCTTGGG
585 TATAAGTCCTTCGGGCCATCAGTAAGTCCTTTAAAGCATGATGCTTAAATCATTGGG
* * **
2229935 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAAACCTTCAAGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
* * *
2230000 ATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
66 ATGTTTTCACATGAATTTGAAAAT--AGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
*
2230065 AAGACTGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGT
129 AAGA-TGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
2230130 ATGATGCTTAATTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCA
193 ATGATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCA
* * *
2230195 TCCGTAAAACCTTCGGGTTGGATGTTTTCACATGAATTTGAAAATTAAAAATGATGTTTTAAGAA
258 TCCGTAAAACCTTCGGGTAGGATGTTGTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAA
* * * *
2230260 GATGAAATTTTTGAAAACGAAAAATGTAATTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCC
323 GATGAAATTTTTGAAAACGAAAAATGCAATTTTCAAAATTTCACAATTTATAAATCCTTCGAGCC
*
2230325 ATCAGTAAGTCTTTTCGAGCATGATGCTTAAATC-TTCGGGTCATCTGTAAGCCTTTAGAGCAAG
388 ATCAGTAAGTC-TTTCGAGCATAATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
2230389 ATGATAAGCCCTTCGGGTCATCCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAAT
452 ATGATAAGCCCTTCGGGCCATCCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAAT
* *
2230454 GAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATG-AGATTTTCAAAATTTC
517 G--AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAAAATGTA-ATTTTCAAAATTTC
* *
2230518 ACAATTTATAAGTCCTTCGGGCCATTAGTAAG-CCTTTAAATCATGATGCTTAAATCATTCGGG
579 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCCTTTAAAGCATGATGCTTAAATCATT-GGG
* * * * *
2230581 TCATCTGTAAGCTTTTTGAGCAAGATGACAAGTCCATCGGGCCATCCATAAGACCATT-GGGAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACC-TTCGGGTAG
2230645 GATGTTTTCACATGAATTTGAAAATAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
65 GATGTTTTCACATGAATTTGAAAATAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * * *
2230710 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCTTTCGAGCCATCAGTAAGTTTTTCGAGCA
130 AG-ATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * * * * * *
2230775 TGATGCTTAAATCTTTTGGGTCATTTGTGAGTCTCTCGAGCAAGA-GAATAAATCCTTCGGGTCA
194 TGATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-ATAAGTCCTTCGGGCCA
* * *
2230839 TCCATAAGACCTTCGGGCAGGAT
258 TCCGTAAAACCTTCGGGTAGGAT
2230862 ATTTTTCACC
Statistics
Matches: 841, Mismatches: 73, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
640 84 0.10
642 38 0.05
643 1 0.00
644 506 0.60
645 43 0.05
646 167 0.20
647 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (641 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
GATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAATTCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCC
GTAAAACCTTCGGGTAGGATGTTGTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGAT
GAAATTTTTGAAAACGAAAAATGCAATTTTCAAAATTTCACAATTTATAAATCCTTCGAGCCATC
AGTAAGTCTTTCGAGCATAATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
TAAGCCCTTCGGGCCATCCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAAAATGAAA
AATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAAAATGTAATTTTCAAAATTTCACAATTT
ATAAGTCCTTCGGGCCATCAGTAAGTCCTTTAAAGCATGATGCTTAAATCATTGGG
Found at i:2231519 original size:24 final size:24
Alignment explanation
Indices: 2231484--2231542 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
2231474 ATAAGATGCC
2231484 GCCAATCATGCCACCATTGAAGCT
1 GCCAATCATGCCACCATTGAAGCT
2231508 GCCAAT-ATTGCCACCATTGAAGCT
1 GCCAATCA-TGCCACCATTGAAGCT
2231532 GCACAAATCAT
1 GC-C-AATCAT
2231543 CCAGCAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.03
24 24 0.77
25 1 0.03
26 4 0.13
27 1 0.03
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (24 bp):
GCCAATCATGCCACCATTGAAGCT
Found at i:2238360 original size:39 final size:37
Alignment explanation
Indices: 2238282--2238625 Score: 471
Period size: 37 Copynumber: 9.2 Consensus size: 37
2238272 TATACATAAC
* *
2238282 ATATATAATACATAGTTTTGAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
*
2238319 ATATATAATATATAGTTTTGAAAACATTTTTGAATAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
* *
2238356 ATATATAATATATAGTTTTGAAAATATTTTCGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
* *
2238393 ATATAAAATATATAGCTTTGAAAACATTTTTGAAAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTG--AAAAT
2238432 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTG--AAAAT
* *
2238471 ATATATAATATAAAGTTTTGGAAACATTTTT--AAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
*
2238506 ATATATATATAATATAATTTTGAAAACATTTTT-AAAAT
1 ATATATA-AT-ATATAGTTTTGAAAACATTTTTGAAAAT
* **
2238544 ATATATAATATATAGTTTTGGAAACATTTTCAAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
2238581 ATATATAATATATAGTTTT-AAAACATTTTTGAAATAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAA-AT
2238618 AATATATA
1 -ATATATA
2238626 TTTTTAAAAA
Statistics
Matches: 276, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
35 11 0.04
36 33 0.12
37 143 0.52
38 18 0.07
39 71 0.26
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
Found at i:2240215 original size:12 final size:12
Alignment explanation
Indices: 2240187--2240219 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2240177 CGAATCGAAT
2240187 TTTTAAATTTAAA
1 TTTT-AATTTAAA
2240200 -TTTAATTTAAA
1 TTTTAATTTAAA
2240211 TTTTAATTT
1 TTTTAATTT
2240220 TCGTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAATTTAAA
Found at i:2243083 original size:16 final size:16
Alignment explanation
Indices: 2243062--2243095 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2243052 TTACTATTCA
*
2243062 CGTGAATAATGAATTT
1 CGTGAATAATGAAATT
*
2243078 CGTGAATAGTGAAATT
1 CGTGAATAATGAAATT
2243094 CG
1 CG
2243096 GTTGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
CGTGAATAATGAAATT
Found at i:2249830 original size:23 final size:23
Alignment explanation
Indices: 2249804--2249864 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
2249794 TGATTGTTAT
2249804 TTTAAAATTTGAATTATATTAGA
1 TTTAAAATTTGAATTATATTAGA
2249827 TTTAAAATTTGAATTATATTAGA
1 TTTAAAATTTGAATTATATTAGA
*
2249850 TTTAAAATTTAAATT
1 TTTAAAATTTGAATT
2249865 CAACATTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTAAAATTTGAATTATATTAGA
Found at i:2257399 original size:42 final size:42
Alignment explanation
Indices: 2257353--2257440 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
2257343 AATAATCGTA
* *
2257353 TTTGTTTCACGTAATTCATTTTTCGAAAAATGTTTTCCCGTG
1 TTTGTTTCACGTAATTCATTTTCCGAAAAATGTTTTCCAGTG
2257395 TTTGTTTCACGTAATTCATTTTCCGAAAAATGTTTTCCAGTG
1 TTTGTTTCACGTAATTCATTTTCCGAAAAATGTTTTCCAGTG
2257437 TTTG
1 TTTG
2257441 GTTAGTTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.48
Consensus pattern (42 bp):
TTTGTTTCACGTAATTCATTTTCCGAAAAATGTTTTCCAGTG
Found at i:2257667 original size:36 final size:40
Alignment explanation
Indices: 2257580--2257669 Score: 100
Period size: 39 Copynumber: 2.3 Consensus size: 40
2257570 AATAATTTTA
*
2257580 TTTTATAAAT-TTAATATTAATAAAATATTTTAATATCAT
1 TTTTATAAATATTAATATTAATAAAATATTTTAAAATCAT
* *
2257619 TTTAATCAAAATATT-A-ATTATTAAAATA-TTTAAAAT-AT
1 TTTTAT--AAATATTAATATTAATAAAATATTTTAAAATCAT
2257657 TTTTATAAATATT
1 TTTTATAAATATT
2257670 TTTAATATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.16
38 7 0.16
39 12 0.27
40 11 0.25
41 5 0.11
42 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (40 bp):
TTTTATAAATATTAATATTAATAAAATATTTTAAAATCAT
Found at i:2257685 original size:21 final size:21
Alignment explanation
Indices: 2257642--2257708 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
2257632 TTAATTATTA
* *
2257642 AAATATTTAAAATATTTTTAT
1 AAATATTTAAAATATTATAAT
**
2257663 AAATATTTTTAATATTATAAT
1 AAATATTTAAAATATTATAAT
*
2257684 AAA-ATAATAAATTATATTATAAT
1 AAATAT-TTAAA--ATATTATAAT
2257707 AA
1 AA
2257709 TATAAGATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 2 0.06
21 22 0.61
23 12 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTTAAAATATTATAAT
Found at i:2257697 original size:18 final size:18
Alignment explanation
Indices: 2257676--2257710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2257666 TATTTTTAAT
2257676 ATTATAATAAAATAATAA
1 ATTATAATAAAATAATAA
* *
2257694 ATTATATTATAATAATA
1 ATTATAATAAAATAATA
2257711 TAAGATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATAATAAAATAATAA
Found at i:2257701 original size:23 final size:23
Alignment explanation
Indices: 2257674--2257747 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
2257664 AATATTTTTA
* * *
2257674 ATATTATAATAAAATAATAAATT
1 ATATTATAATAATATAAGATATT
2257697 ATATTATAATAATATAAGATATT
1 ATATTATAATAATATAAGATATT
2257720 ATATTATAATAATATAAGATATT
1 ATATTATAATAATATAAGATATT
2257743 ATATT
1 ATATT
2257748 TTTATTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATTATAATAATATAAGATATT
Found at i:2257712 original size:8 final size:8
Alignment explanation
Indices: 2257672--2257736 Score: 53
Period size: 8 Copynumber: 8.4 Consensus size: 8
2257662 TAAATATTTT
*
2257672 TAATATTA
1 TAATAATA
*
2257680 TAATAAAA
1 TAATAATA
2257688 TAATAA-A
1 TAATAATA
* *
2257695 TTATATTA
1 TAATAATA
2257703 TAATAATA
1 TAATAATA
*
2257711 TAA-GATA
1 TAATAATA
* *
2257718 TTATATTA
1 TAATAATA
2257726 TAATAATA
1 TAATAATA
2257734 TAA
1 TAA
2257737 GATATTATAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
7 10 0.23
8 33 0.77
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (8 bp):
TAATAATA
Found at i:2257771 original size:26 final size:26
Alignment explanation
Indices: 2257660--2257773 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 26
2257650 AAAATATTTT
*
2257660 TATA-AATATTTTTAATATTATAATAA
1 TATATAATATATTT-ATATTATAATAA
*
2257686 -A-ATAATA-AATTATATTATAAT-A
1 TATATAATATATTTATATTATAATAA
*
2257708 -ATATAAGATA-TTATATTATAATAA
1 TATATAATATATTTATATTATAATAA
* * *
2257732 TATAAGATATTATATTTTTATTTTAATAA
1 TAT---ATAATATATTTATATTATAATAA
2257761 TATATAATATATT
1 TATATAATATATT
2257774 ATTAATAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.03
23 27 0.38
24 5 0.07
25 7 0.10
26 9 0.13
28 6 0.08
29 15 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TATATAATATATTTATATTATAATAA
Found at i:2257848 original size:19 final size:18
Alignment explanation
Indices: 2257824--2257892 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
2257814 ATATTATGAA
2257824 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
2257843 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
2257861 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
2257883 ATT-TTAATAA
1 ATTATTAATAA
2257893 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:2257913 original size:23 final size:23
Alignment explanation
Indices: 2257887--2257931 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2257877 AATAATATTT
2257887 TAATAAAGATATTT-AAAATATAC
1 TAATAAAGAT-TTTAAAAATATAC
* *
2257910 TAATTAATATTTTAAAAATATA
1 TAATAAAGATTTTAAAAATATA
2257932 AAATAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TAATAAAGATTTTAAAAATATAC
Found at i:2258263 original size:14 final size:14
Alignment explanation
Indices: 2258229--2258263 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2258219 AAATGTAATT
*
2258229 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
2258243 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
2258257 CGTTTTC
1 CATTTTC
2258264 TAGAAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:2258292 original size:14 final size:14
Alignment explanation
Indices: 2258273--2258328 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
2258263 CTAGAAATGT
*
2258273 AATTCATTTTCCAG
1 AATTCAATTTCCAG
* *
2258287 AATTCAAATTTCAAT
1 AATTC-AATTTCCAG
* *
2258302 AATTCATTTTTCAG
1 AATTCAATTTCCAG
2258316 AATTCAATTTCCA
1 AATTCAATTTCCA
2258329 AAAAACCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.43
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:2258316 original size:29 final size:28
Alignment explanation
Indices: 2258272--2258326 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
2258262 TCTAGAAATG
2258272 TAATTCATTTTCCAGAATTCAAATTTCAA
1 TAATTCATTTTCCAGAATTC-AATTTCAA
*
2258301 TAATTCATTTTTCAGAATTCAATTTC
1 TAATTCATTTTCCAGAATTCAATTTC
2258327 CAAAAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (28 bp):
TAATTCATTTTCCAGAATTCAATTTCAA
Found at i:2258476 original size:3 final size:3
Alignment explanation
Indices: 2258470--2258497 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2258460 CTACTACTAC
2258470 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2258498 GCATATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2259113 original size:16 final size:16
Alignment explanation
Indices: 2259092--2259128 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2259082 TCAAGTGTTG
2259092 ACCGAGCTTTGATCGA
1 ACCGAGCTTTGATCGA
2259108 ACCGAGCTTTGATCGA
1 ACCGAGCTTTGATCGA
2259124 ACCGA
1 ACCGA
2259129 ACTTGTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (16 bp):
ACCGAGCTTTGATCGA
Found at i:2260886 original size:25 final size:25
Alignment explanation
Indices: 2260857--2260938 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
2260847 ACATATCAAG
2260857 TGTTAATTTCAACAGTGTAAGTCTA
1 TGTTAATTTCAACAGTGTAAGTCTA
* * * * *
2260882 TGTTAAGTTCCACCGTTGGAA-TTTA
1 TGTTAATTTCAACAG-TGTAAGTCTA
* * *
2260907 GTATTAATTTCATCGGTGTAAGTCTA
1 -TGTTAATTTCAACAGTGTAAGTCTA
2260933 TGTTAA
1 TGTTAA
2260939 GTTCCACCAT
Statistics
Matches: 41, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
25 24 0.59
26 17 0.41
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (25 bp):
TGTTAATTTCAACAGTGTAAGTCTA
Found at i:2260935 original size:51 final size:51
Alignment explanation
Indices: 2260854--2261039 Score: 214
Period size: 51 Copynumber: 3.6 Consensus size: 51
2260844 TGAACATATC
* * * *
2260854 AAGTGTTAATTTCAACAGTGTAAGTCTATGTTAAGTTCCACCGTTGGAATT
1 AAGTATTAATTTCATCGGTGTAAGTCTATGTTAAGTTCCACCATTGGAATT
*
2260905 TAGTATTAATTTCATCGGTGTAAGTCTATGTTAAGTTCCACCATTGGAATT
1 AAGTATTAATTTCATCGGTGTAAGTCTATGTTAAGTTCCACCATTGGAATT
* * * * *
2260956 AAG-AGATAATTTCA-CTGGTGTAAGTCTATATTAACTTCCACCACTAGAATT
1 AAGTA-TTAATTTCATC-GGTGTAAGTCTATGTTAAGTTCCACCATTGGAATT
* * * *
2261007 AAGTTTTAAGTTCATAGGTATAAGTCTATGTTA
1 AAGTATTAATTTCATCGGTGTAAGTCTATGTTA
2261040 GCTTCCATAG
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.02
51 112 0.98
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (51 bp):
AAGTATTAATTTCATCGGTGTAAGTCTATGTTAAGTTCCACCATTGGAATT
Found at i:2261109 original size:102 final size:102
Alignment explanation
Indices: 2261003--2261201 Score: 215
Period size: 102 Copynumber: 2.0 Consensus size: 102
2260993 CCACCACTAG
* * * *
2261003 AATTAAGT-TTTAAGTTCA-TAGGTATAAGTCTA-TGTTAGCTTCCATAGTTGGATTTATGTGTT
1 AATTAAGTATTAAAGTTCACT-GGTATAAGTCTATTGTGAG-TTCAATA-TTGGAATTATGTGTT
* * *
2261065 AAATTTGTCTGGTGTAAGTCTGTTATGAGTTCAATATTGA
63 AAATTTGACTAGTGTAAGTCTATTATGAGTTCAATATTGA
* * * * * **
2261105 AATTATGTATTAAATTTGACTGGTGTAAGTCTATTGTGAGTTCAATATTGTAATTATGTGTTACG
1 AATTAAGTATTAAAGTTCACTGGTATAAGTCTATTGTGAGTTCAATATTGGAATTATGTGTTAAA
*
2261170 TTTGACTAGTGTAAGTCTATTTTGAGTTCAAT
66 TTTGACTAGTGTAAGTCTATTATGAGTTCAAT
2261202 GTTTGAATTA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
102 49 0.62
103 24 0.30
104 6 0.08
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.45
Consensus pattern (102 bp):
AATTAAGTATTAAAGTTCACTGGTATAAGTCTATTGTGAGTTCAATATTGGAATTATGTGTTAAA
TTTGACTAGTGTAAGTCTATTATGAGTTCAATATTGA
Found at i:2261118 original size:51 final size:50
Alignment explanation
Indices: 2261056--2261236 Score: 245
Period size: 51 Copynumber: 3.6 Consensus size: 50
2261046 ATAGTTGGAT
* *
2261056 TTATGTGTTAAATTTGTCTGGTGTAAGTCTGTTATGAGTTCAATATTGAAA
1 TTATGTGTTAAATTTGACTGGTGTAAGTCTATTATGAGTTCAATATTG-AA
* *
2261107 TTATGTATTAAATTTGACTGGTGTAAGTCTATTGTGAGTTCAATATTGTAA
1 TTATGTGTTAAATTTGACTGGTGTAAGTCTATTATGAGTTCAATATTG-AA
** * * *
2261158 TTATGTGTTACGTTTGACTAGTGTAAGTCTATTTTGAGTTCAATGTTTGAA
1 TTATGTGTTAAATTTGACTGGTGTAAGTCTATTATGAGTTCAAT-ATTGAA
*
2261209 TTATGTGTTAAATTTGATTGGTGTAAGT
1 TTATGTGTTAAATTTGACTGGTGTAAGT
2261237 TTGTTATACA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 111 0.97
52 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.46
Consensus pattern (50 bp):
TTATGTGTTAAATTTGACTGGTGTAAGTCTATTATGAGTTCAATATTGAA
Found at i:2262193 original size:45 final size:45
Alignment explanation
Indices: 2262083--2262323 Score: 392
Period size: 45 Copynumber: 5.3 Consensus size: 45
2262073 GTTCATGTTT
* *
2262083 TTTTATATACTATTATACATTTCATTTATGGCATCTTTTCATGCC
1 TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
2262128 TTTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
1 -TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
* * *
2262174 TTTTATACACTATTATACATTTCATTTATGACATCCTTTCATGCC
1 TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
*
2262219 TTTTTATACACCATTATACATTTCATCTATGGCATCTTTTCATGCC
1 -TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
*
2262265 TTTTATACACCATTATACATTTCATTTATGGTATCTTTTCATGCC
1 TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
*
2262310 TTTTATGCACCATT
1 TTTTATACACCATT
2262324 TTATATTGTT
Statistics
Matches: 182, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
45 98 0.54
46 84 0.46
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (45 bp):
TTTTATACACCATTATACATTTCATTTATGGCATCTTTTCATGCC
Found at i:2262199 original size:91 final size:91
Alignment explanation
Indices: 2262083--2262323 Score: 412
Period size: 91 Copynumber: 2.7 Consensus size: 91
2262073 GTTCATGTTT
*
2262083 TTTTATATACTATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTTATACACCATTATACA
1 TTTTATACACTATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTTATACACCATTATACA
*
2262148 TTTCATTTATGGCATCTTTTCATGCC
66 TTTCATCTATGGCATCTTTTCATGCC
* *
2262174 TTTTATACACTATTATACATTTCATTTATGACATCCTTTCATGCCTTTTTATACACCATTATACA
1 TTTTATACACTATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTTATACACCATTATACA
2262239 TTTCATCTATGGCATCTTTTCATGCC
66 TTTCATCTATGGCATCTTTTCATGCC
* * *
2262265 TTTTATACACCATTATACATTTCATTTATGGTATCTTTTCATGCC-TTTTATGCACCATT
1 TTTTATACACTATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTTATACACCATT
2262324 TTATATTGTT
Statistics
Matches: 141, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 13 0.09
91 128 0.91
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (91 bp):
TTTTATACACTATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTTATACACCATTATACA
TTTCATCTATGGCATCTTTTCATGCC
Found at i:2262325 original size:22 final size:22
Alignment explanation
Indices: 2262255--2262325 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2262245 CTATGGCATC
*
2262255 TTTTCATGCCTTTTATACACCA
1 TTTTCATGCCTTTTATGCACCA
* ** * * *
2262277 TTATACATTTCATTTATGGTATC-
1 TT-TTCATGCCTTTTAT-GCACCA
2262300 TTTTCATGCCTTTTATGCACCA
1 TTTTCATGCCTTTTATGCACCA
2262322 TTTT
1 TTTT
2262326 ATATTGTTAT
Statistics
Matches: 33, Mismatches: 13, Indels: 6
0.63 0.25 0.12
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 12 0.36
24 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTTCATGCCTTTTATGCACCA
Found at i:2262460 original size:68 final size:68
Alignment explanation
Indices: 2262351--2262556 Score: 304
Period size: 68 Copynumber: 3.0 Consensus size: 68
2262341 TAGTCTTTTA
* * * * *
2262351 CTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCATAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTA
2262416 GGC
66 GGC
* * *
2262419 CTCAAAGGCACTTAGCTTTTCAACTAATTGGCATAATTGACACATTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTA
2262484 GGC
66 GGC
* * * *
2262487 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTATTTCAAATACACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTA
2262552 GGC
66 GGC
2262555 CT
1 CT
2262557 TAAATATTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 123 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTA
GGC
Found at i:2262965 original size:59 final size:59
Alignment explanation
Indices: 2262838--2263409 Score: 902
Period size: 59 Copynumber: 9.8 Consensus size: 59
2262828 TTTCCCATAT
** * * * *
2262838 GGAAATTCATACGTTTAGTATGAATCTCATAACAATTT-GCACACAAAGTGCCCAATAA
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
2262896 GGAAATTCATACACTTAGTATGAATTTATTAACATTTCAGCACACAGAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
2262955 GAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAATGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
2263014 -AAATATTCATACACTTAGTACGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAA-ATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
2263073 GGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2263132 GGAAATTCATACACTTAGTATGAATTTCTTAACA-TTT-GTACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2263189 GGAAATTCATACACTTAGTTTGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
2263248 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
2263307 GGAATTTCATACACTTAGTATGAAGTTCTTATCATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2263366 AGAAATTCATACACTTAGTATGAATTTCTTAACATTTT-GCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
2263410 TTAGTGCCAT
Statistics
Matches: 476, Mismatches: 33, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
57 51 0.11
58 46 0.10
59 377 0.79
60 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
Found at i:2263244 original size:234 final size:235
Alignment explanation
Indices: 2262834--2263409 Score: 910
Period size: 234 Copynumber: 2.5 Consensus size: 235
2262824 CATATTTCCC
* ** * * *
2262834 ATATGGAAATTCATACGTTTAGTATGAATCTCATAACAATTT-GCACACAAAGTGCCCAATAAGG
1 ATATGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAAGG
* *
2262898 AAATTCATACACTTAGTATGAATTTATTAACATTTCAGCACACAGAGTGCCCAATACGAAAATTC
66 AAATTCATACACTTAGTATGAATTTCTTAACATTT-AGCACACAAAGTGCCCAATACGAAAATTC
2262963 ATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAATGCCCAATAC-AAATATTCATACA
130 ATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAATGCCCAATACGAAA-ATTCATACA
2263027 CTTAGTACGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
194 CTTAGTACGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
*
2263069 ATATGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATATGG
1 ATATGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAAGG
* *
2263134 AAATTCATACACTTAGTATGAATTTCTTAACATTT-GTACACAAAGTGCCCAATACGGAAATTCA
66 AAATTCATACACTTAGTATGAATTTCTTAACATTTAGCACACAAAGTGCCCAATACGAAAATTCA
* * *
2263198 TACACTTAGTTTGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACT
131 TACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAATGCCCAATACGAAAATTCATACACT
*
2263263 TAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
196 TAGTACGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
* * *
2263303 ATACGG-AATTTCATACACTTAGTATGAAGTTCTTATCATTTTAGCACACAAAGTGCCCAATACA
1 ATATGGAAATTT-ATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATA-A
*
2263367 -GAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACAC
64 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTAGCACAC
2263410 TTAGTGCCAT
Statistics
Matches: 316, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
233 5 0.02
234 213 0.67
235 43 0.14
236 55 0.17
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (235 bp):
ATATGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAAGG
AAATTCATACACTTAGTATGAATTTCTTAACATTTAGCACACAAAGTGCCCAATACGAAAATTCA
TACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAATGCCCAATACGAAAATTCATACACT
TAGTACGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
Found at i:2263860 original size:20 final size:20
Alignment explanation
Indices: 2263835--2263887 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
2263825 TGTTGCCTGA
*
2263835 TATCGATACCCTTACCATGG
1 TATCGATACCCATACCATGG
*
2263855 TATCGATACTACCATACTATGG
1 TATCGATAC--CCATACCATGG
*
2263877 TACCGATACCC
1 TATCGATACCC
2263888 CCTTCCGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (20 bp):
TATCGATACCCATACCATGG
Found at i:2263897 original size:19 final size:19
Alignment explanation
Indices: 2263875--2263922 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
2263865 ACCATACTAT
*
2263875 GGTACCGATACCCCCTTCC
1 GGTATCGATACCCCCTTCC
2263894 GGTATCGATACCCCCTTCC
1 GGTATCGATACCCCCTTCC
2263913 GGTATCGATA
1 GGTATCGATA
2263923 ACAATTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.25
Consensus pattern (19 bp):
GGTATCGATACCCCCTTCC
Found at i:2267875 original size:45 final size:45
Alignment explanation
Indices: 2267778--2268006 Score: 309
Period size: 45 Copynumber: 5.1 Consensus size: 45
2267768 TATATACTAG
* * * *
2267778 TATACATTTCATTTATGGCATCATTTCTTACCTTTTTATACACCAT
1 TATACATTTCATTTATGACATCCTTTCATGCC-TTTTATACACCAT
* *
2267824 TATACATTTCATTTATGATATCTTTTCATGCCTTTTATACACCAT
1 TATACATTTCATTTATGACATCCTTTCATGCCTTTTATACACCAT
* * * *
2267869 TATACATTTCATTTATGACAACCGTTCAAGCCTTTTTATGCACCAT
1 TATACATTTCATTTATGACATCCTTTCATGCC-TTTTATACACCAT
*
2267915 TAT--ATTTCATTTATGACATCTTTTCATGCCTTTTATACACCAT
1 TATACATTTCATTTATGACATCCTTTCATGCCTTTTATACACCAT
* *
2267958 TATACATTTCATTTATGGCATCCTTTCATGCATTTTATACACCAT
1 TATACATTTCATTTATGACATCCTTTCATGCCTTTTATACACCAT
2268003 TATA
1 TATA
2268007 TATTGTTATA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
43 15 0.09
44 23 0.14
45 81 0.50
46 42 0.26
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (45 bp):
TATACATTTCATTTATGACATCCTTTCATGCCTTTTATACACCAT
Found at i:2267946 original size:89 final size:89
Alignment explanation
Indices: 2267808--2268007 Score: 312
Period size: 89 Copynumber: 2.2 Consensus size: 89
2267798 TCATTTCTTA
*
2267808 CCTTTTTATACACCATTATACATTTCATTTATGATATCTTTTCATGCCTTTTATACACCATTATA
1 CCTTTTTATACACCATTAT--ATTTCATTTATGACATCTTTTCATGCCTTTTATACACCATTATA
2267873 CATTTCATTTATGACAACCGTTCAAG
64 CATTTCATTTATGACAACCGTTCAAG
*
2267899 CCTTTTTATGCACCATTATATTTCATTTATGACATCTTTTCATGCCTTTTATACACCATTATACA
1 CCTTTTTATACACCATTATATTTCATTTATGACATCTTTTCATGCCTTTTATACACCATTATACA
* * * *
2267964 TTTCATTTATGGCATCCTTTCATG
66 TTTCATTTATGACAACCGTTCAAG
*
2267988 -CATTTTATACACCATTATAT
1 CCTTTTTATACACCATTATAT
2268008 ATTGTTATAC
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 18 0.18
89 65 0.64
91 18 0.18
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.46
Consensus pattern (89 bp):
CCTTTTTATACACCATTATATTTCATTTATGACATCTTTTCATGCCTTTTATACACCATTATACA
TTTCATTTATGACAACCGTTCAAG
Found at i:2268140 original size:68 final size:68
Alignment explanation
Indices: 2268031--2268236 Score: 304
Period size: 68 Copynumber: 3.0 Consensus size: 68
2268021 TAGTCCTTTA
* * * *
2268031 CTCAAAGACATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTATGTCAAATGCACAGCTA
1 CTCAAAGGCAATTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
2268096 GGC
66 GGC
* * * * *
2268099 CTCAAAGGCACTTATCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCATAGTTA
1 CTCAAAGGCAATTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
2268164 GGC
66 GGC
* * *
2268167 CTCAAAGGTAATTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACATTTA
1 CTCAAAGGCAATTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
2268232 GGC
66 GGC
2268235 CT
1 CT
2268237 TAAATCTTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 123 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (68 bp):
CTCAAAGGCAATTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
GGC
Found at i:2268646 original size:59 final size:59
Alignment explanation
Indices: 2268518--2269318 Score: 1255
Period size: 59 Copynumber: 13.8 Consensus size: 59
2268508 TTTCCCATAT
* * * *
2268518 GGAAATTCATACATTTAGTATGAATCTCTTAACAATTT-GCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
2268576 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
** * * * *
2268635 ATAAATTCATACATTTTGTATGAACTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2268694 AGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
2268753 GGAACTTCATACACTTAGTATGCATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * * *
2268812 GGAACTTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAAAAAGTGCCCATTAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2268871 GGAAATTCATACCCTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2268930 GGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACAAAGTG-CC----C
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2268984 ---AATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
2269040 AGAAATTTATACACTTAGTATGAATTTCTTAACATTTTATCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
2269099 AGAAATTCATACACTTAGTATGAATGTCTTAACATTTTAGCATACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
2269158 GGAAATTCATACACTTATTATGAATTTCTTAACATTTTAGCACACAAAGTACCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2269217 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
2269276 GGAAATTCATACACTTAGTATGAATTTGTT-ACATTTT-GCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
2269319 TTAGTGCCAT
Statistics
Matches: 689, Mismatches: 45, Indels: 19
0.92 0.06 0.03
Matches are distributed among these distances:
51 46 0.07
52 2 0.00
54 1 0.00
56 1 0.00
57 6 0.01
58 44 0.06
59 589 0.85
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
Found at i:2269904 original size:95 final size:95
Alignment explanation
Indices: 2269715--2269908 Score: 216
Period size: 95 Copynumber: 2.0 Consensus size: 95
2269705 TCTGATAATG
* * * * *
2269715 ATACCAATTTTAGGTTAGATGTTGTCTGGTATCGATTCTCTTGCCATGGTATCGATACTACCATA
1 ATACCAATTTTAGATTAGATGTTCTCTGGTATCGATACCCTTACCATGGTATCGATACTACCATA
* **
2269780 CTATGGTACCGATACCCCTTTTCGGTATCA
66 CTATGGTACCGATACCCATTTTCAATATCA
* *
2269810 ATACCAATTTTAGATTCGATGTTACT-TGGTATCGATACCCTTACTATGGTATCGATACTACC-T
1 ATACCAATTTTAGATTAGATGTT-CTCTGGTATCGATACCCTTACCATGGTATCGATACTACCAT
* *
2269873 -C-ATCGGTATCGATACTCATTGTATCAATATCA
65 ACTAT-GGTACCGATACCCATT-T-TCAATATCA
2269905 ATAC
1 ATAC
2269909 TACTTAGCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
92 2 0.02
93 14 0.17
94 2 0.02
95 64 0.77
96 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (95 bp):
ATACCAATTTTAGATTAGATGTTCTCTGGTATCGATACCCTTACCATGGTATCGATACTACCATA
CTATGGTACCGATACCCATTTTCAATATCA
Found at i:2274065 original size:13 final size:13
Alignment explanation
Indices: 2274047--2274080 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2274037 AATGGGCAAT
2274047 TTTGAAAACTAA-G
1 TTTGAAAAC-AAGG
2274060 TTTGAAAACAAGG
1 TTTGAAAACAAGG
2274073 TTTGAAAA
1 TTTGAAAA
2274081 TCAATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAAGG
Found at i:2286328 original size:51 final size:51
Alignment explanation
Indices: 2286252--2286481 Score: 246
Period size: 51 Copynumber: 4.5 Consensus size: 51
2286242 TCATGAACAT
* ** *
2286252 ATTAAGTATTAATTTCAGTAGTGTAAGTCTATGTTAAGTTCCACCGTTGAA
1 ATTAAGTGTTAATTTCACCAGTGTAAGTCTATGTTAACTTCCACCGTTGAA
*** * * *
2286303 ATTAAGTGTTAATTTCATTTGTGTAAGTCTATGTTAAGTTCCACTGCT-AGA
1 ATTAAGTGTTAATTTCACCAGTGTAAGTCTATGTTAACTTCCACCGTTGA-A
* ** *
2286354 ATTAAGTGTTAATTTCACCGGTGTAAGTCTATGTTAACTTCCAATGTTGGA
1 ATTAAGTGTTAATTTCACCAGTGTAAGTCTATGTTAACTTCCACCGTTGAA
* * * *
2286405 ATTAAGTGTTATTTTCACCAGTGTAAGTCTATGTTAACTTTCATCGTTGGA
1 ATTAAGTGTTAATTTCACCAGTGTAAGTCTATGTTAACTTCCACCGTTGAA
* * *
2286456 ATTATGTGTTAAATTTGACTAGTGTA
1 ATTAAGTGTT-AATTTCACCAGTGTA
2286482 TGGCTAATTT
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 142 0.92
52 12 0.08
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (51 bp):
ATTAAGTGTTAATTTCACCAGTGTAAGTCTATGTTAACTTCCACCGTTGAA
Found at i:2286390 original size:25 final size:26
Alignment explanation
Indices: 2286360--2286447 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 26
2286350 TAGAATTAAG
2286360 TGTTAA-TTTCACCGGTGTAAGTCTA
1 TGTTAACTTTCACCGGTGTAAGTCTA
* ** * *
2286385 TGTTAACTTCCAATGTTGGAA-T-TAA
1 TGTTAACTTTCACCGGTGTAAGTCT-A
* *
2286410 GTGTT-ATTTTCACCAGTGTAAGTCTA
1 -TGTTAACTTTCACCGGTGTAAGTCTA
2286436 TGTTAACTTTCA
1 TGTTAACTTTCA
2286448 TCGTTGGAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 11
0.65 0.19 0.16
Matches are distributed among these distances:
24 1 0.02
25 21 0.48
26 21 0.48
27 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (26 bp):
TGTTAACTTTCACCGGTGTAAGTCTA
Found at i:2286429 original size:102 final size:102
Alignment explanation
Indices: 2286252--2286441 Score: 272
Period size: 102 Copynumber: 1.9 Consensus size: 102
2286242 TCATGAACAT
** * *
2286252 ATTAAGTATTAATTTCAGTAGTGTAAGTCTATGTTAAGTTCCACCGTTGAAATTAAGTGTTAATT
1 ATTAAGTATTAATTTCACCAGTGTAAGTCTATGTTAACTTCCAACGTTGAAATTAAGTGTTAATT
***
2286317 TCATTTGTGTAAGTCTATGTTAAGTTCCACTGCTAGA
66 TCACCAGTGTAAGTCTATGTTAAGTTCCACTGCTAGA
* * * * *
2286354 ATTAAGTGTTAATTTCACCGGTGTAAGTCTATGTTAACTTCCAATGTTGGAATTAAGTGTTATTT
1 ATTAAGTATTAATTTCACCAGTGTAAGTCTATGTTAACTTCCAACGTTGAAATTAAGTGTTAATT
2286419 TCACCAGTGTAAGTCTATGTTAA
66 TCACCAGTGTAAGTCTATGTTAA
2286442 CTTTCATCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 76 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (102 bp):
ATTAAGTATTAATTTCACCAGTGTAAGTCTATGTTAACTTCCAACGTTGAAATTAAGTGTTAATT
TCACCAGTGTAAGTCTATGTTAAGTTCCACTGCTAGA
Found at i:2286571 original size:51 final size:51
Alignment explanation
Indices: 2286451--2286849 Score: 420
Period size: 51 Copynumber: 7.8 Consensus size: 51
2286441 ACTTTCATCG
* * * * *
2286451 TTGGAATTATGTGTTAAATTTGACTAGTGTATGGCTAATTTTGAGTTTAATA
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCT-GTTATGAGTTTAATA
** * * *
2286503 TTAAAATTATGTGTTAAATTTGACTAGTGTAAGTCTGTTGTGAGTTTAATT
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
* * * * *
2286554 TTGGAATTATGTATTAAATTTAACTGGTGTAAGTCTTTTATGAATTAAATA
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
* * * * * * *
2286605 TTGAAATTTTGTGTTAAATTTGACTAGTGTATGTATATTATGAGTTCAATA
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
* * * * * *
2286656 TTGTAATTATGCGTTAAATTTGACTGGTGTAAGTTTGTTGTGAGTTCATTA
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
* ** * *
2286707 GTGGAATTATGTACTAAATTTGACTGGTGTAAGTATGTTATGAGTTCAATA
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
** * * * *
2286758 TTAAAATTATGTGATAAATTTGACTGGTGTAATTCTGTTGTGAGTTTAATG
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
* *
2286809 TTGGAATTATGTGTTAAATTTGATTGGTGTAAGTCTATTAT
1 TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTAT
2286850 AAACTCAGTG
Statistics
Matches: 286, Mismatches: 61, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
51 254 0.89
52 32 0.11
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (51 bp):
TTGGAATTATGTGTTAAATTTGACTGGTGTAAGTCTGTTATGAGTTTAATA
Found at i:2286686 original size:153 final size:153
Alignment explanation
Indices: 2286455--2286844 Score: 498
Period size: 153 Copynumber: 2.5 Consensus size: 153
2286445 TCATCGTTGG
* *
2286455 AATTATGTGTTAAATTTGACTAGTGTATGGCTA-ATTTTGAGTTTAATATTAAAATTATGTGTTA
1 AATTATGTGTTAAATTTGACTAGTGTAT-G-TATATTATGAGTTTAATATTGAAATTATGTGTTA
* * *
2286519 AATTTGACTAGTGTAAGTCTGTTGTGAGTTTAATT-TTGGAATTATGTATTAAATTTAACTGGTG
64 AATTTGACTGGTGTAAGTCTGTTGTGAG-TTAATTAGTGGAATTATGTACTAAATTTAACTGGTG
* * *
2286583 TAAGTCTTTTATGAATTAAATATTGA
128 TAAGTATGTTATGAATTAAATATTAA
* * * *
2286609 AATTTTGTGTTAAATTTGACTAGTGTATGTATATTATGAGTTCAATATTGTAATTATGCGTTAAA
1 AATTATGTGTTAAATTTGACTAGTGTATGTATATTATGAGTTTAATATTGAAATTATGTGTTAAA
* * *
2286674 TTTGACTGGTGTAAGTTTGTTGTGAGTTCATTAGTGGAATTATGTACTAAATTTGACTGGTGTAA
66 TTTGACTGGTGTAAGTCTGTTGTGAGTTAATTAGTGGAATTATGTACTAAATTTAACTGGTGTAA
* *
2286739 GTATGTTATGAGTTCAATATTAA
131 GTATGTTATGAATTAAATATTAA
* * * * * * *
2286762 AATTATGTGATAAATTTGACTGGTGTAAT-TCTGTTGTGAGTTTAATGTTGGAATTATGTGTTAA
1 AATTATGTGTTAAATTTGACTAGTGT-ATGTATATTATGAGTTTAATATTGAAATTATGTGTTAA
*
2286826 ATTTGATTGGTGTAAGTCT
65 ATTTGACTGGTGTAAGTCT
2286845 ATTATAAACT
Statistics
Matches: 204, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
152 7 0.03
153 168 0.82
154 29 0.14
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (153 bp):
AATTATGTGTTAAATTTGACTAGTGTATGTATATTATGAGTTTAATATTGAAATTATGTGTTAAA
TTTGACTGGTGTAAGTCTGTTGTGAGTTAATTAGTGGAATTATGTACTAAATTTAACTGGTGTAA
GTATGTTATGAATTAAATATTAA
Found at i:2287327 original size:29 final size:29
Alignment explanation
Indices: 2287285--2287343 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2287275 ATTTTCACCT
2287285 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
2287314 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
2287343 A
1 A
2287344 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:2292008 original size:29 final size:29
Alignment explanation
Indices: 2291966--2292024 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2291956 ATTTTCACTT
2291966 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
2291995 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
2292024 A
1 A
2292025 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:2293003 original size:20 final size:20
Alignment explanation
Indices: 2292974--2293093 Score: 143
Period size: 20 Copynumber: 6.0 Consensus size: 20
2292964 TTGCGATTTT
*
2292974 CATAATTCGCAATGCGAATA
1 CATAAATCGCAATGCGAATA
* *
2292994 CATAAATCGCAACGCGATTA
1 CATAAATCGCAATGCGAATA
*
2293014 CGTAAATCGCAATGCGAATA
1 CATAAATCGCAATGCGAATA
*
2293034 CGTAAATCGCAATGCGAATTA
1 CATAAATCGCAATGCGAA-TA
*
2293055 GGA-AAATCGCAATGCGAATA
1 -CATAAATCGCAATGCGAATA
* *
2293075 CGTAAATAGCAATGCGAAT
1 CATAAATCGCAATGCGAAT
2293094 CTGACTATCG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
20 69 0.80
21 17 0.20
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
CATAAATCGCAATGCGAATA
Found at i:2293011 original size:41 final size:41
Alignment explanation
Indices: 2292965--2293091 Score: 159
Period size: 41 Copynumber: 3.1 Consensus size: 41
2292955 AAATTCGCGT
* * *
2292965 TGCGATTTTCATAATTCGCAATGCGAATACATAAATCGCAA
1 TGCGATTTACATAAATCGCAATGCGAATACGTAAATCGCAA
* *
2293006 CGCGA-TTACGTAAATCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTACATAAATCGCAATGCGAATACGTAAATCGCAA
* * *
2293046 TGCGAATTAGGA-AAATCGCAATGCGAATACGTAAATAGCAA
1 TGCGATTTA-CATAAATCGCAATGCGAATACGTAAATCGCAA
2293087 TGCGA
1 TGCGA
2293092 ATCTGACTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 35 0.47
41 40 0.53
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (41 bp):
TGCGATTTACATAAATCGCAATGCGAATACGTAAATCGCAA
Found at i:2293092 original size:41 final size:41
Alignment explanation
Indices: 2292980--2293093 Score: 176
Period size: 41 Copynumber: 2.8 Consensus size: 41
2292970 TTTTCATAAT
* * *
2292980 TCGCAATGCGAATACATAAATCGCAACGCG-ATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGAAAA
*
2293020 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGAAAA
*
2293061 TCGCAATGCGAATACGTAAATAGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
2293094 CTGACTATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 28 0.41
41 40 0.59
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGAAAA
Found at i:2293111 original size:61 final size:60
Alignment explanation
Indices: 2292980--2293093 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
2292970 TTTTCATAAT
* *
2292980 TCGCAATGCGAATACATAAATCGCAACGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACATAAATCGCAACGCGAATACGTAAATAGCAATGCGAATACGTAAA
* *
2293040 TCGCAATGCGAATTAGGA-AAATCGCAATGCGAATACGTAAATAGCAATGCGAAT
1 TCGCAATGCGAA-TA-CATAAATCGCAACGCGAATACGTAAATAGCAATGCGAAT
2293094 CTGACTATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
60 12 0.25
61 35 0.73
62 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (60 bp):
TCGCAATGCGAATACATAAATCGCAACGCGAATACGTAAATAGCAATGCGAATACGTAAA
Done.