Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 89
Found at i:10947265 original size:88 final size:88
Alignment explanation
Indices: 10947142--10947319 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 88
10947132 ATTATTGCAC
* * *
10947142 GATATATTTGTGTTGTTTGACTTGCACTTGTAGGACATATTGAGTCCTATAGTTCACACTCTTAG
1 GATATACTTGTGTTGTTTGACTTGCACTTGTAGGACATATTGAGTCCTATAATTCACACTCCTAG
*
10947207 TTTTCTCCCTTTCAGATCCTTTT
66 TTTTATCCCTTTCAGATCCTTTT
10947230 GATATACTTGTGTTGTTTGACTTGCACTTGTAGGACATATTGAGTCCTATAATTCACACTCCTAG
1 GATATACTTGTGTTGTTTGACTTGCACTTGTAGGACATATTGAGTCCTATAATTCACACTCCTAG
10947295 TTTTATCCCTTTCAGATCCTTTT
66 TTTTATCCCTTTCAGATCCTTTT
10947318 GA
1 GA
10947320 CTAATATAAC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (88 bp):
GATATACTTGTGTTGTTTGACTTGCACTTGTAGGACATATTGAGTCCTATAATTCACACTCCTAG
TTTTATCCCTTTCAGATCCTTTT
Found at i:10947547 original size:2 final size:2
Alignment explanation
Indices: 10947540--10947580 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10947530 GTATTGTATT
10947540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10947581 TGGAGGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10952709 original size:29 final size:29
Alignment explanation
Indices: 10952677--10952746 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 29
10952667 TATCTTAAAT
*
10952677 TTTAAAAATATCTTTTAATTTTGTCTCAA
1 TTTAAAAATATCTTTTAATTTTATCTCAA
* * * * *
10952706 TTTATTAAATATGTTTTATTTTTATTTTAA
1 TTTA-AAAATATCTTTTAATTTTATCTCAA
*
10952736 TGTAAAAATAT
1 TTTAAAAATAT
10952747 ATATTTTATC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTAAAAATATCTTTTAATTTTATCTCAA
Found at i:10955922 original size:33 final size:33
Alignment explanation
Indices: 10955879--10955947 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
10955869 ATACCATACA
10955879 TGTAAACACTACTATGTAATGGTCGAAACTTGT
1 TGTAAACACTACTATGTAATGGTCGAAACTTGT
* * * *
10955912 TGTAATCACTACTCTGTAATGGTTGAAACTTTT
1 TGTAAACACTACTATGTAATGGTCGAAACTTGT
10955945 TGT
1 TGT
10955948 CAATGAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTAAACACTACTATGTAATGGTCGAAACTTGT
Found at i:10957911 original size:3 final size:3
Alignment explanation
Indices: 10957905--10957929 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10957895 AAACTCCATA
10957905 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
10957930 CAAAGATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10965474 original size:11 final size:11
Alignment explanation
Indices: 10965458--10965483 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10965448 CATCCACCCT
10965458 TGGAGAGATGG
1 TGGAGAGATGG
10965469 TGGAGAGATGG
1 TGGAGAGATGG
10965480 TGGA
1 TGGA
10965484 AACGGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.54, T:0.19
Consensus pattern (11 bp):
TGGAGAGATGG
Found at i:10968700 original size:22 final size:22
Alignment explanation
Indices: 10968674--10968721 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10968664 TCATCACAAT
10968674 GTGGGGGACATTTT-TTAAAAAG
1 GTGGGGGACATTTTGTT-AAAAG
*
10968696 GTGGGGGATATTTTGTTAAAAG
1 GTGGGGGACATTTTGTTAAAAG
10968718 GTGG
1 GTGG
10968722 TGCTCTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (22 bp):
GTGGGGGACATTTTGTTAAAAG
Found at i:10972673 original size:72 final size:72
Alignment explanation
Indices: 10972508--10972682 Score: 217
Period size: 72 Copynumber: 2.4 Consensus size: 72
10972498 ATTCAATTTA
* *
10972508 GACTCAACTTCACGACGAATGAGTCACCTACGATCTCAACTTCACGACGAAAGATATCGTGCCCA
1 GACTCAACTTCACGACGAAGGAGTCACCTACGATCTCAACTACACGACGAAAGATATCGTGCCCA
10972573 ATAGATT
66 ATAGATT
* * * * * *
10972580 GACTTAACTTCACAACGAAGGAGTCACCTATGATTTCAACTACACGAC-AAAGGATATTGTTCCC
1 GACTCAACTTCACGACGAAGGAGTCACCTACGATCTCAACTACACGACGAAA-GATATCGTGCCC
*
10972644 AATTGATT
65 AATAGATT
* * * *
10972652 GACTCAACTTCATGGCAAAGGAGTCATCTAC
1 GACTCAACTTCACGACGAAGGAGTCACCTAC
10972683 TACATAGCTT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
71 3 0.03
72 83 0.97
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (72 bp):
GACTCAACTTCACGACGAAGGAGTCACCTACGATCTCAACTACACGACGAAAGATATCGTGCCCA
ATAGATT
Found at i:10973182 original size:21 final size:22
Alignment explanation
Indices: 10973158--10973199 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10973148 ATAATTTCAA
10973158 ATATATA-TATAGTTTTTGAAG
1 ATATATACTATAGTTTTTGAAG
*
10973179 ATATATACTATATTTTTTGAA
1 ATATATACTATAGTTTTTGAA
10973200 AACATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (22 bp):
ATATATACTATAGTTTTTGAAG
Found at i:10973206 original size:22 final size:21
Alignment explanation
Indices: 10973160--10973206 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
10973150 AATTTCAAAT
* *
10973160 ATATATATAGTTTTTGAAGAT
1 ATATATATAGTTTTTGAAAAC
*
10973181 ATATACTATATTTTTTGAAAAC
1 ATATA-TATAGTTTTTGAAAAC
10973203 ATAT
1 ATAT
10973207 TTTTGAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAC
Found at i:10973211 original size:14 final size:14
Alignment explanation
Indices: 10973192--10973219 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10973182 TATACTATAT
10973192 TTTTTGAAAACATA
1 TTTTTGAAAACATA
10973206 TTTTTGAAAACATA
1 TTTTTGAAAACATA
10973220 AAATATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:10973249 original size:37 final size:37
Alignment explanation
Indices: 10973187--10973333 Score: 138
Period size: 37 Copynumber: 3.8 Consensus size: 37
10973177 AGATATATAC
*
10973187 TATATTTTTTGAAAACA-TATTTTTGAAAACATAAAATA
1 TATAGTTTTT-AAAA-ATTATTTTTGAAAACATAAAATA
*
10973225 TATAG-TTTTAAAAATCTATTTTTGAAAACATATAATA
1 TATAGTTTTTAAAAAT-TATTTTTGAAAACATAAAATA
** * *
10973262 TATAGTTTTTAAAAAATGGTCTTTGAAAACAT-ATATAA
1 TATAGTTTTT-AAAAATTATTTTTGAAAACATAAAAT-A
*
10973300 TATAGTTTTTGAAAATATATTATTTTGAAAACAT
1 TATAGTTTTTAAAAAT-TA-T-TTTTGAAAACAT
10973334 GTATATATAG
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.01
36 4 0.04
37 36 0.40
38 31 0.34
39 7 0.08
40 11 0.12
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (37 bp):
TATAGTTTTTAAAAATTATTTTTGAAAACATAAAATA
Found at i:10973287 original size:38 final size:36
Alignment explanation
Indices: 10973179--10973349 Score: 150
Period size: 38 Copynumber: 4.5 Consensus size: 36
10973169 GTTTTTGAAG
* *
10973179 ATATATACTATATTTTTTGAAAACA-TATTTTTGAAAAC
1 ATATATA-TATAGTTTTT-AAAAAATTA-TTTTGAAAAC
*
10973217 ATAAAATATATAG-TTTT-AAAAATCTATTTTTGAAAAC
1 AT-ATATATATAGTTTTTAAAAAAT-TA-TTTTGAAAAC
**
10973254 ATATAATATATAGTTTTTAAAAAATGGTCTTTGAAAAC
1 ATAT-ATATATAGTTTTTAAAAAATTAT-TTTGAAAAC
10973292 ATATATAATATAGTTTTTGAAAATATATTATTTTGAAAAC
1 ATATAT-ATATAGTTTTT-AAAA-A-ATTATTTTGAAAAC
*
10973332 ATGTATATATAGGTTTTT
1 ATATATATATA-GTTTTT
10973350 TTTTAAATGG
Statistics
Matches: 112, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
35 4 0.04
36 1 0.01
37 30 0.27
38 34 0.30
39 19 0.17
40 21 0.19
41 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (36 bp):
ATATATATATAGTTTTTAAAAAATTATTTTGAAAAC
Found at i:10973318 original size:15 final size:16
Alignment explanation
Indices: 10973298--10973330 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10973288 AAACATATAT
10973298 AATATAGT-TTTTGAA
1 AATATAGTATTTTGAA
*
10973313 AATATATTATTTTGAA
1 AATATAGTATTTTGAA
10973329 AA
1 AA
10973331 CATGTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AATATAGTATTTTGAA
Found at i:10976750 original size:26 final size:26
Alignment explanation
Indices: 10976715--10976795 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
10976705 GGACACTAAG
*
10976715 TGTA-TATGGTGGGAATGACCTTATA
1 TGTATTATGGTGGGAACGACCTTATA
* *
10976740 TGTATTATGGTGGGCACGACCTTATG
1 TGTATTATGGTGGGAACGACCTTATA
** *
10976766 TGTATTATGGTGGGCGCGACCTTATG
1 TGTATTATGGTGGGAACGACCTTATA
10976792 TGTA
1 TGTA
10976796 GCACTACGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 4 0.08
26 47 0.92
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (26 bp):
TGTATTATGGTGGGAACGACCTTATA
Found at i:10979870 original size:25 final size:25
Alignment explanation
Indices: 10979836--10979885 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10979826 ATTGAGCATT
10979836 TCAACCTTACTTGGATCAGTTTGTG
1 TCAACCTTACTTGGATCAGTTTGTG
10979861 TCAACCTTACTTGGATCAGTTTGTG
1 TCAACCTTACTTGGATCAGTTTGTG
10979886 GCGGTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (25 bp):
TCAACCTTACTTGGATCAGTTTGTG
Found at i:10982294 original size:30 final size:29
Alignment explanation
Indices: 10982236--10982308 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
10982226 TAAATTTAGA
*
10982236 TAGTGACCAAAATAAAAATTTTGAAAGTT
1 TAGTGACCAAAATAAAAATTTGGAAAGTT
* * *
10982265 TAGTGACCAAAGTGTAAACTTTGGAAAGTT
1 TAGTGACCAAAAT-AAAAATTTGGAAAGTT
*
10982295 TAGGGACCAAAATA
1 TAGTGACCAAAATA
10982309 GTAATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (29 bp):
TAGTGACCAAAATAAAAATTTGGAAAGTT
Found at i:10982727 original size:30 final size:31
Alignment explanation
Indices: 10982671--10982734 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
10982661 ATATTTAACT
*
10982671 TTTGAAAGATGATAAGGGTTAGGTGTCTTGG
1 TTTGAAAGATGATAAGGGTTAAGTGTCTTGG
*
10982702 TTTGGAAGATGATAA-GGTTAAGTGTCTTGG
1 TTTGAAAGATGATAAGGGTTAAGTGTCTTGG
10982732 TTT
1 TTT
10982735 AATGGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.25, C:0.03, G:0.33, T:0.39
Consensus pattern (31 bp):
TTTGAAAGATGATAAGGGTTAAGTGTCTTGG
Found at i:10983483 original size:31 final size:29
Alignment explanation
Indices: 10983417--10983486 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
10983407 ACAAGCCTTA
* * *
10983417 TAAAAATTTGGGGACCATTCTATAATTTT
1 TAAAAAGTTGGGGACCATTCAACAATTTT
*
10983446 TGAAAAGTTGGGGAACCAATTCAACAATTTT
1 TAAAAAGTTGGGG-ACC-ATTCAACAATTTT
10983477 TAAAAAGTTG
1 TAAAAAGTTG
10983487 TAAATGGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 11 0.32
30 3 0.09
31 20 0.59
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (29 bp):
TAAAAAGTTGGGGACCATTCAACAATTTT
Found at i:10986106 original size:25 final size:25
Alignment explanation
Indices: 10986055--10986106 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10986045 AAATATCTTA
*
10986055 TAATAAAAGAGGAAATAACCTCTTT
1 TAATAAAAGAGGAAATAACCTCCTT
* *
10986080 TAATAAAAGTGGAATTATA-CTCCTT
1 TAATAAAAGAGGAAATA-ACCTCCTT
10986105 TA
1 TA
10986107 TCTTTATCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
TAATAAAAGAGGAAATAACCTCCTT
Found at i:10988431 original size:14 final size:14
Alignment explanation
Indices: 10988412--10988446 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
10988402 CTACTTCCAA
10988412 GTTGTAGCATAATT
1 GTTGTAGCATAATT
10988426 GTTGTAGCATAATT
1 GTTGTAGCATAATT
*
10988440 GTCGTAG
1 GTTGTAG
10988447 GTTTCACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (14 bp):
GTTGTAGCATAATT
Found at i:10991587 original size:26 final size:26
Alignment explanation
Indices: 10991512--10991587 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 26
10991502 TTAATTGGAC
** *
10991512 TAAAAGAGCTAATAAATCTCTTCTAA
1 TAAAAGAGGAAATAAATCTCTTTTAA
10991538 TAAAAGAGGAAAT-AATCTCTTTTAA
1 TAAAAGAGGAAATAAATCTCTTTTAA
*
10991563 TAAAAGAGGAATTAAATCTCTTTTA
1 TAAAAGAGGAAATAAATCTCTTTTA
10991588 TATTTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 23 0.51
26 22 0.49
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (26 bp):
TAAAAGAGGAAATAAATCTCTTTTAA
Found at i:11004360 original size:51 final size:47
Alignment explanation
Indices: 11004256--11004376 Score: 120
Period size: 51 Copynumber: 2.5 Consensus size: 47
11004246 GTAACGATGC
*
11004256 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAAAATA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTG---AAAATA
* * **
11004306 ATAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA-A
1 A-AATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAATA
11004355 AAATAAGCTTATGAGCTTATGG
1 AAATAAGCTTATGAGCTTATGG
11004377 GATGAAAGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
48 21 0.34
49 2 0.03
50 2 0.03
51 22 0.35
53 1 0.02
54 14 0.23
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAATA
Found at i:11015482 original size:30 final size:30
Alignment explanation
Indices: 11015446--11015505 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
11015436 AAGGGTTCAT
11015446 TCAAAGGCTTTCAAGTTCATCCATACATGA
1 TCAAAGGCTTTCAAGTTCATCCATACATGA
*
11015476 TCAAAGGCTTTCAAGTTCATCCATTCATGA
1 TCAAAGGCTTTCAAGTTCATCCATACATGA
11015506 ATATTCATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (30 bp):
TCAAAGGCTTTCAAGTTCATCCATACATGA
Found at i:11023219 original size:26 final size:27
Alignment explanation
Indices: 11023174--11023230 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
11023164 AAATGTACAA
*
11023174 AAAGAAAGCAAAAGGAAAGACAAAATC
1 AAAGAAAGCAAAAGGAAAGACAAAAGC
* * *
11023201 AAAGCAAG-AAAAGTAAAGATAAAAGC
1 AAAGAAAGCAAAAGGAAAGACAAAAGC
11023227 AAAG
1 AAAG
11023231 GTTGTTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.67, C:0.09, G:0.19, T:0.05
Consensus pattern (27 bp):
AAAGAAAGCAAAAGGAAAGACAAAAGC
Found at i:11032295 original size:15 final size:15
Alignment explanation
Indices: 11032275--11032308 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
11032265 ATGTGAATAT
11032275 ATTGTATGCAAATGG
1 ATTGTATGCAAATGG
11032290 ATTGTATGCAAATGG
1 ATTGTATGCAAATGG
11032305 ATTG
1 ATTG
11032309 CTTATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
ATTGTATGCAAATGG
Found at i:11032396 original size:2 final size:2
Alignment explanation
Indices: 11032389--11032426 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
11032379 TCAATCTACA
11032389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11032427 ATTTACGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11035367 original size:102 final size:102
Alignment explanation
Indices: 11035142--11035371 Score: 289
Period size: 102 Copynumber: 2.3 Consensus size: 102
11035132 TTTAGACAAT
* * *
11035142 CAGACTTCCTCAACGTAAAGGAACAGTATTCTCTCCATGTGCACAAATATCCAAATCCAACCAGA
1 CAGACTTCCTCAACGTAAAGGAACAATATTCTCTCCATATACACAAATATCCAAATCCAACCAGA
* * *
11035207 TCTCCTCAATGCGAAGGAGTAGTGACATCTAGATAAC
66 TCTCCTCAACGCGAAGAAGCAGTGACATCTAGATAAC
* ** * * * * **
11035244 CAGACTTCCTTAACACAAAGGAACAATGTTGTCTCTATATATACAAATATCCAAATCTGACCAGA
1 CAGACTTCCTCAACGTAAAGGAACAATATTCTCTCCATATACACAAATATCCAAATCCAACCAGA
* *
11035309 TCTCCTCAACGTGAAGAAGCAGTGTCATCTAGATAAC
66 TCTCCTCAACGCGAAGAAGCAGTGACATCTAGATAAC
* *
11035346 TAGACTTCCTCAACGTGAAGGAACAA
1 CAGACTTCCTCAACGTAAAGGAACAA
11035372 CACGCAAAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
102 106 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (102 bp):
CAGACTTCCTCAACGTAAAGGAACAATATTCTCTCCATATACACAAATATCCAAATCCAACCAGA
TCTCCTCAACGCGAAGAAGCAGTGACATCTAGATAAC
Found at i:11037350 original size:2 final size:2
Alignment explanation
Indices: 11037345--11037400 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
11037335 TTGTGGATTA
11037345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11037387 AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT
11037401 GGTATTAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11038886 original size:17 final size:17
Alignment explanation
Indices: 11038840--11038893 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 17
11038830 TTATCAAATA
*
11038840 AACTTGACATCCATAAC
1 AACTTGAAATCCATAAC
11038857 AACGAAATTGAAATCCATAAC
1 AAC----TTGAAATCCATAAC
*
11038878 AACTTGAAATTCATAA
1 AACTTGAAATCCATAA
11038894 TAATAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 15 0.48
21 16 0.52
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.24
Consensus pattern (17 bp):
AACTTGAAATCCATAAC
Found at i:11043903 original size:41 final size:41
Alignment explanation
Indices: 11043842--11043940 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
11043832 CTTTTTTAAC
11043842 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * * * *
11043883 AAATGCCACTACAGTGCGAGTCTTTAGCGGTGTTTGTATAC
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* *
11043924 AAACGCCAATAATGTAC
1 AAACGCCACTAAAGTAC
11043941 TAATAAATTA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:11044113 original size:23 final size:23
Alignment explanation
Indices: 11044087--11044148 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
11044077 CGTTTGTTCA
*
11044087 AAAAATGCTGCTATAAGGTCAAT
1 AAAAATGCCGCTATAAGGTCAAT
*
11044110 AAAAATGCCACTATAAGGTCAAT
1 AAAAATGCCGCTATAAGGTCAAT
11044133 AAAAATGCCGCTATAA
1 AAAAATGCCGCTATAA
11044149 TTAAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.23
Consensus pattern (23 bp):
AAAAATGCCGCTATAAGGTCAAT
Found at i:11044688 original size:83 final size:83
Alignment explanation
Indices: 11044537--11044937 Score: 369
Period size: 83 Copynumber: 4.9 Consensus size: 83
11044527 AACCCTATTA
* * * * *
11044537 CGGCGTTTATTGAAAAAAAGCCACTATAGATGAATCCTATTAC-ACATTTGTATAAAAATACCAC
1 CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACATTTGTATAAAAACACCGC
*
11044601 TAAAGTACTACTGTGTTG
66 TAAAGTACTACTATGTTG
* * * * * *
11044619 CGTCGTTGGTTGAAAAAATGACACTATAGATTAACCCTATTATGACATTTGTATAAAAACGCCGC
1 CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACATTTGTATAAAAACACCGC
* * *
11044684 TAAAGCACTACTTTATTG
66 TAAAGTACTACTATGTTG
* * ** * * * * *
11044702 CGGCGTTTGTTAAAAAAACGTGACTATAGATGAACCTTATTGCGGCATTTTTATACAAACACCGC
1 CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACATTTGTATAAAAACACCGC
11044767 TAAAGTACTACTATGTTG
66 TAAAGTACTACTATGTTG
* * * * * *
11044785 CAGTGTTTGTTG-AAAAA-GCCACTATAGATGAACCCTATTGCGGCATTTTGTATAAAAATGA-T
1 CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACA-TTTGTATAAAAA-CACC
* * *
11044847 GCCAAAGTATTACTCTGTTG
64 GCTAAAGTACTACTATGTTG
* * * * * * * * * *
11044867 CGGCGTTTGTTAAAAAAATGTCACTATAAATGAACCCCATTGCGGCGTTTATGTAAAAACACCTC
1 CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACATTTGTATAAAAACACCGC
11044932 TAAAGT
66 TAAAGT
11044938 TACCTTTTTT
Statistics
Matches: 256, Mismatches: 57, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
81 25 0.10
82 77 0.30
83 130 0.51
84 24 0.09
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (83 bp):
CGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCCTATTACGACATTTGTATAAAAACACCGC
TAAAGTACTACTATGTTG
Found at i:11044837 original size:165 final size:164
Alignment explanation
Indices: 11044531--11044937 Score: 435
Period size: 165 Copynumber: 2.5 Consensus size: 164
11044521 TCATAGAACC
* * * * * *
11044531 CTATTACGGCGTTTATTGAAAAAAAGCCACTATAGATGAATCCTATTAC-ACATTTGTATAAAAA
1 CTATTGCGGCGTTTGTT-AAAAAAAGTCACTATAGATGAA-CCTATTGCGGCATTTATATAAAAA
* * *
11044595 TACCACTAAAGTACTACTGTGTTGCGTCGTTGGTTGAAAAAATGACACTATAGATTAACCCTATT
64 CACCACTAAAGTACTACTATGTTGCGTCGTTGGTTGAAAAAATGACACTATAGATGAACCCTATT
* * *
11044660 ATGACATTTGTATAAAAACGCCGCTAAAGCACTACT
129 ACGACATTTGTATAAAAACGACGCCAAAGCACTACT
* * * *
11044696 TTATTGCGGCGTTTGTTAAAAAAACGTGACTATAGATGAACCTTATTGCGGCATTTTTATACAAA
1 CTATTGCGGCGTTTGTTAAAAAAA-GTCACTATAGATGAACC-TATTGCGGCATTTATATAAAAA
* * *
11044761 CACCGCTAAAGTACTACTATGTTGCAGT-GTTTGTTG-AAAAA-GCCACTATAGATGAACCCTAT
64 CACCACTAAAGTACTACTATGTTGC-GTCGTTGGTTGAAAAAATGACACTATAGATGAACCCTAT
* * * * * *
11044823 TGCGGCATTTTGTATAAAAATGATGCCAAAGTATTACT
128 TACGACA-TTTGTATAAAAACGACGCCAAAGCACTACT
* * * * *
11044861 CTGTTGCGGCGTTTGTTAAAAAAATGTCACTATAAATGAACCCCATTGCGGCGTTTATGTAAAAA
1 CTATTGCGGCGTTTGTTAAAAAAA-GTCACTATAGATGAA-CCTATTGCGGCATTTATATAAAAA
*
11044926 CACCTCTAAAGT
64 CACCACTAAAGT
11044938 TACCTTTTTT
Statistics
Matches: 201, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
164 32 0.16
165 124 0.62
166 43 0.21
167 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (164 bp):
CTATTGCGGCGTTTGTTAAAAAAAGTCACTATAGATGAACCTATTGCGGCATTTATATAAAAACA
CCACTAAAGTACTACTATGTTGCGTCGTTGGTTGAAAAAATGACACTATAGATGAACCCTATTAC
GACATTTGTATAAAAACGACGCCAAAGCACTACT
Found at i:11048530 original size:30 final size:31
Alignment explanation
Indices: 11048496--11048553 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
11048486 ATCATATTTA
11048496 ATGTTTACTTTTT-TATCATTTTAGTACATG
1 ATGTTTACTTTTTGTATCATTTTAGTACATG
*
11048526 ATGTTTACTTTTTGTTTCATTTTAGTAC
1 ATGTTTACTTTTTGTATCATTTTAGTAC
11048554 CCATTGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (31 bp):
ATGTTTACTTTTTGTATCATTTTAGTACATG
Found at i:11048549 original size:31 final size:29
Alignment explanation
Indices: 11048496--11048584 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 29
11048486 ATCATATTTA
*
11048496 ATGTTTACTTTTTTATCATTTTAGTACAT
1 ATGTTTACTTTTTTTTCATTTTAGTACAT
11048525 GATGTTTACTTTTTGTTTCATTTTAGTACCCAT
1 -ATGTTTACTTTTT-TTTCATTTTAGTA--CAT
* *
11048558 -TGTTAACTTTTTATTTCGTTTTAGTAC
1 ATGTTTACTTTTT-TTTCATTTTAGTAC
11048585 CTAAATATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.02
30 13 0.25
31 35 0.67
33 3 0.06
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (29 bp):
ATGTTTACTTTTTTTTCATTTTAGTACAT
Found at i:11057738 original size:21 final size:23
Alignment explanation
Indices: 11057658--11057741 Score: 102
Period size: 23 Copynumber: 3.8 Consensus size: 23
11057648 TTGGTGTAGA
11057658 GGGAATCGATACCCCCT-TGAAG
1 GGGAATCGATACCCCCTGTGAAG
* *
11057680 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCCTGTGAAG
* *
11057703 GGGAACCGATTCCCCCTGT-AA-
1 GGGAATCGATACCCCCTGTGAAG
*
11057724 GGAAATCGATACCCCCTG
1 GGGAATCGATACCCCCTG
11057742 GGGTTCTGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.27
22 18 0.33
23 22 0.40
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (23 bp):
GGGAATCGATACCCCCTGTGAAG
Found at i:11059349 original size:18 final size:18
Alignment explanation
Indices: 11059312--11059352 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11059302 AGAACAGCAC
*
11059312 GAGGAACAAGCATGAACA
1 GAGGAACAAGCATCAACA
11059330 GAGGAACAAGCA-CAACCA
1 GAGGAACAAGCATCAA-CA
11059348 GAGGA
1 GAGGA
11059353 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.49, C:0.20, G:0.29, T:0.02
Consensus pattern (18 bp):
GAGGAACAAGCATCAACA
Found at i:11065197 original size:23 final size:23
Alignment explanation
Indices: 11065171--11065218 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11065161 AAGAAGGCTT
**
11065171 GATTATAAGAGCGAGTAGAAAGA
1 GATTATAAGAGAAAGTAGAAAGA
*
11065194 GATTATATGAGAAAGTAGAAAGA
1 GATTATAAGAGAAAGTAGAAAGA
11065217 GA
1 GA
11065219 ATGGAGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.29, T:0.19
Consensus pattern (23 bp):
GATTATAAGAGAAAGTAGAAAGA
Found at i:11065948 original size:18 final size:18
Alignment explanation
Indices: 11065918--11065983 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
11065908 TAAATTCAAC
*
11065918 GCATGCTCGACCACCAGT
1 GCATGCTCCACCACCAGT
*
11065936 GCATACTCCACCACCAGT
1 GCATGCTCCACCACCAGT
*
11065954 GCATGCTCCACCACCAGC
1 GCATGCTCCACCACCAGT
11065972 GCATGCTCCACC
1 GCATGCTCCACC
11065984 TGTACCTGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.45, G:0.17, T:0.15
Consensus pattern (18 bp):
GCATGCTCCACCACCAGT
Found at i:11068446 original size:19 final size:21
Alignment explanation
Indices: 11068422--11068473 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
11068412 CGGCCAAGAG
*
11068422 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
11068441 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
11068462 CATGTATTTTCA
1 CATGTATTTTCA
11068474 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:11069450 original size:23 final size:23
Alignment explanation
Indices: 11069407--11069456 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
11069397 TCTCTATCCT
*
11069407 TTCTTTATTTCATTTCATTATTA
1 TTCTTTATTTCATTACATTATTA
*
11069430 TTCTTTCATTTCATTACTTATATTA
1 TTCTTT-ATTTCATTACAT-TATTA
11069455 TT
1 TT
11069457 ATTCTCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (23 bp):
TTCTTTATTTCATTACATTATTA
Found at i:11069563 original size:526 final size:526
Alignment explanation
Indices: 11068565--11069614 Score: 1742
Period size: 526 Copynumber: 2.0 Consensus size: 526
11068555 ATTTGTAATC
11068565 ATCTCATCTCATATATTAAAATTACTCTTGTGAGTTAATTTCTATTCAAAGTTCTTTATGAACTT
1 ATCTCATCTCATATATTAAAATTACTCTTGTGAGTTAATTTCTATTCAAAGTTCTTTATGAACTT
* *
11068630 TATCGATTAAACAAGTATAGTTTCTATACTTGTGGCGTCATTCCTTCCATCCTGATTCCAAAATT
66 TATCGATTAAACAAGTATAGTTCCTATACTTGTGGCATCATTCCTTCCATCCTGATTCCAAAATT
11068695 CCTAGATTAATATCTAGTGGGTTGAAGACACTATCACCACCCCTCAAGCAAGTTTGTGAAGACCG
131 CCTAGATTAATATCTAGTGGGTTGAAGACACTATCACCACCCCTCAAGCAAGTTTGTGAAGACCG
* * * *
11068760 ATATTGTGCTCCTTAGCACTATTTCATCTTTGGCGTGTTTGAGATACAACATCACCACCATTTCC
196 AGATTGTGCTCCATAGCACTATTTCATCTTTGGCGTGTTTGAGAGACAACATCACCACCATTGCC
** *
11068825 ATTTCATCAACAACATCATCCATCTCTTCTTTCAATTCCGTAGCCATCTCTATCCTTTCTTTATT
261 ATTTCATCAACAACATCATCCATCTCTTCCCTCAATTCCGCAGCCATCTCTATCCTTTCTTTATT
*
11068890 TCATTTCATTCTTATTCTTTCATTTCATTACTTATATTATTATTCCCTTTATTAAGTCCATCATT
326 TCATTTCATTATTATTCTTTCATTTCATTACTTATATTATTATTCCCTTTATTAAGTCCATCATT
*
11068955 AATCATATTTACTTTCTTATTTTGTGTAGCCCAAGCTTATAAATTCAAGGACATCAGTACTTGTC
391 AATCATATTTACTTTCTTATTTTGTGCAGCCCAAGCTTATAAATTCAAGGACATCAGTACTTGTC
*
11069020 AATCCTAGATCGGGACACAATAAGGCTATCTACTCTCTTCCATCAAAGAGTGTAGATCACCTTAC
456 AATCCTAAATCGGGACACAATAAGGCTATCTACTCTCTTCCATCAAAGAGTGTAGATCACCTTAC
11069085 ATCAAG
521 ATCAAG
* * *
11069091 ATCTCATCTCTTATATTAAAATTACTCTTGTGAGTTAATTTCTCTTCAAAGTTCTTTGTGAACTT
1 ATCTCATCTCATATATTAAAATTACTCTTGTGAGTTAATTTCTATTCAAAGTTCTTTATGAACTT
* *
11069156 TATCGATTAAACAAGTATAGTTCCTATACTTGTGGCATCATTCCTTCCATCTTGATTCCTAAATT
66 TATCGATTAAACAAGTATAGTTCCTATACTTGTGGCATCATTCCTTCCATCCTGATTCCAAAATT
* * * * *
11069221 CCTAGATTGATATCTAGTGGGTTGAAGATACTATCACCACCCCTTAAGCAAGTTTGTGAATATCG
131 CCTAGATTAATATCTAGTGGGTTGAAGACACTATCACCACCCCTCAAGCAAGTTTGTGAAGACCG
* * * * *
11069286 GGATTGTGCTTCATAGCA-TAGTTTCCTCTTTGGCGTGTTTGAGAGACAACATCACTACTATTGC
196 AGATTGTGCTCCATAGCACTA-TTTCATCTTTGGCGTGTTTGAGAGACAACATCACCACCATTGC
* **
11069350 CATTTCATCATCAACATCATCCATCTCTTCCCTCAATTTTGCAGCCATCTCTATCCTTTCTTTAT
260 CATTTCATCAACAACATCATCCATCTCTTCCCTCAATTCCGCAGCCATCTCTATCCTTTCTTTAT
* *
11069415 TTCATTTCATTATTATTCTTTCATTTCATTACTTATATTATTATTCTCTTTATTAATTCCATCAT
325 TTCATTTCATTATTATTCTTTCATTTCATTACTTATATTATTATTCCCTTTATTAAGTCCATCAT
* **
11069480 TAATCATATTTCCTTTCTTATTTTGTGCAGGTCAAGCTTATAAATTCAAGGACATCAGTACTTGT
390 TAATCATATTTACTTTCTTATTTTGTGCAGCCCAAGCTTATAAATTCAAGGACATCAGTACTTGT
* * *
11069545 CAATCCTAAATTGGGACACAATAAGGCTATCTACTCTCTTCCATTAAAGCGTGTAGATCACCTTA
455 CAATCCTAAATCGGGACACAATAAGGCTATCTACTCTCTTCCATCAAAGAGTGTAGATCACCTTA
11069610 CATCA
520 CATCA
11069615 TAATGTCTTT
Statistics
Matches: 485, Mismatches: 38, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
525 2 0.00
526 483 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (526 bp):
ATCTCATCTCATATATTAAAATTACTCTTGTGAGTTAATTTCTATTCAAAGTTCTTTATGAACTT
TATCGATTAAACAAGTATAGTTCCTATACTTGTGGCATCATTCCTTCCATCCTGATTCCAAAATT
CCTAGATTAATATCTAGTGGGTTGAAGACACTATCACCACCCCTCAAGCAAGTTTGTGAAGACCG
AGATTGTGCTCCATAGCACTATTTCATCTTTGGCGTGTTTGAGAGACAACATCACCACCATTGCC
ATTTCATCAACAACATCATCCATCTCTTCCCTCAATTCCGCAGCCATCTCTATCCTTTCTTTATT
TCATTTCATTATTATTCTTTCATTTCATTACTTATATTATTATTCCCTTTATTAAGTCCATCATT
AATCATATTTACTTTCTTATTTTGTGCAGCCCAAGCTTATAAATTCAAGGACATCAGTACTTGTC
AATCCTAAATCGGGACACAATAAGGCTATCTACTCTCTTCCATCAAAGAGTGTAGATCACCTTAC
ATCAAG
Found at i:11071716 original size:46 final size:46
Alignment explanation
Indices: 11071659--11071750 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11071649 ACTGGAATCT
*
11071659 TGACTCTATCCCTAATGTTAATGACCGAAACAACTCAAATTGTTTC
1 TGACTCCATCCCTAATGTTAATGACCGAAACAACTCAAATTGTTTC
11071705 TGACTCCATCCCTAATGTTAATGACCGAAACAACTCAAATTGTTTC
1 TGACTCCATCCCTAATGTTAATGACCGAAACAACTCAAATTGTTTC
11071751 CATTAACACC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (46 bp):
TGACTCCATCCCTAATGTTAATGACCGAAACAACTCAAATTGTTTC
Found at i:11074743 original size:16 final size:16
Alignment explanation
Indices: 11074692--11074744 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
11074682 GTCTTGTACG
11074692 TTTTAATTTAA-TTAT
1 TTTTAATTTAATTTAT
*
11074707 TTTTAAATCTAATTGT-T
1 TTTT-AATTTAATT-TAT
*
11074724 TTTTAATTTAATTTAA
1 TTTTAATTTAATTTAT
11074740 TTTTA
1 TTTTA
11074745 TTCCTTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 5 0.16
16 19 0.61
17 6 0.19
18 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTAATTTAATTTAT
Found at i:11075007 original size:12 final size:13
Alignment explanation
Indices: 11074986--11075014 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11074976 TCCTTGGGTA
11074986 TTTATATTCTTAT
1 TTTATATTCTTAT
11074999 TTTAT-TTCTTAT
1 TTTATATTCTTAT
11075011 TTTA
1 TTTA
11075015 GTAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATATTCTTAT
Found at i:11077354 original size:12 final size:13
Alignment explanation
Indices: 11077333--11077361 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11077323 TTCTTGGGTA
11077333 TTTATATTCTTAT
1 TTTATATTCTTAT
11077346 TTTAT-TTCTTAT
1 TTTATATTCTTAT
11077358 TTTA
1 TTTA
11077362 GTAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATATTCTTAT
Found at i:11082945 original size:13 final size:13
Alignment explanation
Indices: 11082927--11082955 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11082917 GACTCGGGTG
11082927 ATTTTAATAAAAC
1 ATTTTAATAAAAC
11082940 ATTTTAATAAAAC
1 ATTTTAATAAAAC
11082953 ATT
1 ATT
11082956 AAGGAGTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTTTAATAAAAC
Found at i:11086294 original size:20 final size:20
Alignment explanation
Indices: 11086271--11086317 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11086261 GCCCGAAGGT
11086271 CTTATAGATTGC-CAGAAAGA
1 CTTATAGATTGCTC-GAAAGA
**
11086291 CTTATCATCTTGCTCGAAAGA
1 CTTAT-AGATTGCTCGAAAGA
11086312 CTTATA
1 CTTATA
11086318 AATGACCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (20 bp):
CTTATAGATTGCTCGAAAGA
Found at i:11086660 original size:42 final size:41
Alignment explanation
Indices: 11086547--11086660 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
11086537 TCCCCAAGGT
* *
11086547 CTTATGGATGGCCCAAAGGACTTATCATCTTGCTCCAAAGA
1 CTTATAGATGGCCCAAAGGACTTATCATCATGCTCCAAAGA
* * * * *
11086588 CTTATAGATGCCCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCAAAGGACTT-ATCATCATGCTCCAAAGA
*
11086630 TTTACT-GATGGCCCAAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCAAAGGACTTA-TCATCA
11086661 AGAAACCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 20 0.34
42 37 0.64
43 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCAAAGGACTTATCATCATGCTCCAAAGA
Found at i:11086896 original size:277 final size:272
Alignment explanation
Indices: 11086255--11087064 Score: 1139
Period size: 277 Copynumber: 2.9 Consensus size: 272
11086245 ATGTTGAGAA
* *
11086255 CATCCTGCCCGAAGGTCTTA-TAGATTGCCAGAA-AGACTTATCATCTTGCTCGAAAGACTTATA
1 CATCCTGTCCGAAGGTCTTATTA-ATGGCCAGAAGA-ACTTATCATCTTGCTCGAAAGACTTATA
* * * *
11086318 AATGACCCGAAGGATTTAAGCATCATGCTAGAAAGACTTATTGATGGCCCGAAGGACTTACTCGT
64 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCAT
*
11086383 CAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAAGAACCCCTAAAATTAGGCTTAG
129 CAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTAGTCAAAGAACCCCTAAAATTAGGCTTAG
* *
11086448 CTTCCTTTTTTACAAAACTCTTTAGAGATAATCATTAAGAAACCCCTTAAAATCAGGCTTAGTTT
194 CTTCC-TTTTTA-AAAACTCTTT-GAGATAATCATCAAGAAACCCC-TAAAATTAGGCTTAGTTT
11086513 CTAAAACTCATTTGAAAT
255 CTAAAACTCATTTGAAAT
* ** * *
11086531 CATCCT-TCCCCAAGGTCTTATGGATGGCCCA-AAGGACTTATCATCTTGCTCCAAAGACTTATA
1 CATCCTGT-CCGAAGGTCTTATTAATGG-CCAGAAGAACTTATCATCTTGCTCGAAAGACTTATA
* * *
11086594 GATGCCCCGAAGGATTTAAGCATCATGCTCGAAAGATTTACTGATGGCCCAAAGGACTTACTCAT
64 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCAT
*
11086659 CAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTAGTCAATGAACCCCTAAAATTAGGCTTAG
129 CAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTAGTCAAAGAACCCCTAAAATTAGGCTTAG
11086724 CTTCCTTTTTAAAAAAAACTCTTTCGAGATAATCATCAAGAAACCCCTGAAAATTAGGCTTAGTT
194 CTTCCTTTTT---AAAAACTCTTT-GAGATAATCATCAAGAAACCCCT-AAAATTAGGCTTAGTT
11086789 TCTAAAACTCATTTGAAAT
254 TCTAAAACTCATTTGAAAT
* * *
11086808 CATCCTGTCCGAAGGCCTTATTAATGGCCTGAAGAACTTGTCATCTTGCTCGAAAGACTTATAGA
1 CATCCTGTCCGAAGGTCTTATTAATGGCCAGAAGAACTTATCATCTTGCTCGAAAGACTTATAGA
* * *
11086873 TGACCCGAAGGATTTAAGCATCATTCTCGAAAGACTTACTGATAGCCCGAAGGATTTACTCATCA
66 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
** *
11086938 AGAAACCCTCAAAAATCAAGCTTAGTTTCTTAGTTA-TCAAGGAACCCCTAAAAATTAGGCTTAG
131 AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAG-TAGTCAAAGAACCCCT-AAAATTAGGCTTAG
* * * *
11087002 CTTCC-TTTT-AAAACTCATTGAAAATCATCATCAAGAAACTCCTAAAACTTAGGCTTAGTTTCT
194 CTTCCTTTTTAAAAACTCTTTG-AGATAATCATCAAGAAACCCCTAAAA-TTAGGCTTAGTTTCT
11087065 TAGTTGTCAA
Statistics
Matches: 480, Mismatches: 40, Indels: 31
0.87 0.07 0.06
Matches are distributed among these distances:
272 5 0.01
273 43 0.09
275 5 0.01
276 178 0.37
277 226 0.47
278 23 0.05
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (272 bp):
CATCCTGTCCGAAGGTCTTATTAATGGCCAGAAGAACTTATCATCTTGCTCGAAAGACTTATAGA
TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTAGTCAAAGAACCCCTAAAATTAGGCTTAGCT
TCCTTTTTAAAAACTCTTTGAGATAATCATCAAGAAACCCCTAAAATTAGGCTTAGTTTCTAAAA
CTCATTTGAAAT
Found at i:11086937 original size:42 final size:43
Alignment explanation
Indices: 11086848--11086937 Score: 116
Period size: 42 Copynumber: 2.1 Consensus size: 43
11086838 GAAGAACTTG
11086848 TCATC-TTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAA
1 TCATCATTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAA
* *
11086890 GCATCATT-CTCGAAAGACTTACT-GAT-AGCCCGAAGGATTTAC
1 TCATCATTGCTCGAAAGACTTA-TAGATGA-CCCGAAGGATTTAA
11086932 TCATCA
1 TCATCA
11086938 AGAAACCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.02
42 38 0.90
43 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
TCATCATTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAA
Found at i:11087098 original size:97 final size:96
Alignment explanation
Indices: 11086932--11087106 Score: 262
Period size: 97 Copynumber: 1.8 Consensus size: 96
11086922 AAGGATTTAC
11086932 TCATCAAGAAACCCTCAAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAAAATTAGG
1 TCATCAAGAAACCCTCAAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAAAATTAGG
11086997 CTTAGCTTCCTTTTAAAACTCATTGAAAATCA
66 CTTAG-TTCCTTTTAAAACTCATTGAAAATCA
* * * * * *
11087029 TCATCAAGAAACTCCT-AAAACTTAGGCTTAGTTTCTTAGTTGTCAAGGAACCCTTAACAATTAG
1 TCATCAAGAAAC-CCTCAAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAAAATTAG
*
11087093 GCTTAGTTTCTTTT
65 GCTTAGTTCCTTTT
11087107 CTCTCTATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
96 7 0.10
97 60 0.86
98 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (96 bp):
TCATCAAGAAACCCTCAAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAACCCCTAAAAATTAGG
CTTAGTTCCTTTTAAAACTCATTGAAAATCA
Found at i:11088934 original size:13 final size:12
Alignment explanation
Indices: 11088906--11089022 Score: 61
Period size: 11 Copynumber: 9.9 Consensus size: 12
11088896 TGGTTTTTTT
*
11088906 TCTTCTTTCTTC
1 TCTTTTTTCTTC
11088918 TCTTTTTTCTCTC
1 TCTTTTTTCT-TC
11088931 TCTTTTTTC-T-
1 TCTTTTTTCTTC
* *
11088941 GCTTTTTTCTTT
1 TCTTTTTTCTTC
*
11088953 TCTATATTT-TTC
1 TCT-TTTTTCTTC
11088965 T-TTTTTTCTT-
1 TCTTTTTTCTTC
*
11088975 T-TTTCTTTTTTC
1 TCTTT-TTTCTTC
*
11088987 -CTTTTTTCCTTTTT
1 TCTTTTTT-C--TTC
*
11089001 TCTTTTTTCCT-
1 TCTTTTTTCTTC
11089012 TCTTTTTTCTT
1 TCTTTTTTCTT
11089023 TTACTTTCAC
Statistics
Matches: 82, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
10 16 0.20
11 23 0.28
12 18 0.22
13 15 0.18
14 3 0.04
15 7 0.09
ACGTcount: A:0.02, C:0.21, G:0.01, T:0.76
Consensus pattern (12 bp):
TCTTTTTTCTTC
Found at i:11088936 original size:11 final size:11
Alignment explanation
Indices: 11088901--11088950 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
11088891 TTGATTGGTT
11088901 TTTTTTCT-TC
1 TTTTTTCTCTC
*
11088911 TTTCTTCTCT-
1 TTTTTTCTCTC
11088921 TTTTTCTCTCTC
1 TTTTT-TCTCTC
*
11088933 TTTTTTCT-GC
1 TTTTTTCTCTC
11088943 TTTTTTCT
1 TTTTTTCT
11088951 TTTCTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 20 0.59
11 9 0.26
12 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:11088945 original size:23 final size:21
Alignment explanation
Indices: 11088899--11088981 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
11088889 ATTTGATTGG
*
11088899 TTTTTTTTCTTCTTTCTTCTC
1 TTTTTTCTCTTCTTTCTTCTC
*
11088920 TTTTTTCTCTCTCTTTTTTCTGC
1 TTTTTTCTCT-TCTTTCTTCT-C
* *
11088943 TTTTTTCTTTTCTATAT-TTTTC
1 TTTTTTCTCTTCT-T-TCTTCTC
*
11088965 TTTTTT-TCTTTTTTCTT
1 TTTTTTCTCTTCTTTCTT
11088982 TTTTCCTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 13 0.25
22 19 0.37
23 14 0.27
24 1 0.02
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.77
Consensus pattern (21 bp):
TTTTTTCTCTTCTTTCTTCTC
Found at i:11088953 original size:15 final size:15
Alignment explanation
Indices: 11088899--11089024 Score: 83
Period size: 15 Copynumber: 8.6 Consensus size: 15
11088889 ATTTGATTGG
11088899 TTTT-TTTTCTTCTT
1 TTTTCTTTTCTTCTT
11088913 TCTTCTCTTTT-TTCTCT
1 T-TT-TCTTTTCTTCT-T
* *
11088930 CTCTT-TTTTCTGCTT
1 -TTTTCTTTTCTTCTT
*
11088945 TTTTCTTTTCTAT-AT
1 TTTTCTTTTCT-TCTT
*
11088960 TTTTCTTTTTTTCTT
1 TTTTCTTTTCTTCTT
11088975 TTTTCTTTT-TTCCTT
1 TTTTCTTTTCTT-CTT
11088990 TTTTCCTTTT-TTCTT
1 TTTT-CTTTTCTTCTT
11089005 TTTTC----CTTCTT
1 TTTTCTTTTCTTCTT
11089016 TTTTCTTTT
1 TTTTCTTTT
11089025 ACTTTCACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 31
0.70 0.06 0.24
Matches are distributed among these distances:
11 10 0.11
14 8 0.09
15 48 0.54
16 16 0.18
17 6 0.07
18 1 0.01
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTCTTCTT
Found at i:11088972 original size:8 final size:8
Alignment explanation
Indices: 11088959--11089024 Score: 73
Period size: 8 Copynumber: 8.2 Consensus size: 8
11088949 CTTTTCTATA
11088959 TTTTTCTT
1 TTTTTCTT
11088967 TTTTTC-T
1 TTTTTCTT
11088974 TTTTTC-T
1 TTTTTCTT
*
11088981 TTTTTCCT
1 TTTTTCTT
*
11088989 TTTTTCCT
1 TTTTTCTT
11088997 TTTTTCTT
1 TTTTTCTT
*
11089005 TTTTCCTTCT
1 TTTTTC-T-T
11089015 TTTTTCTT
1 TTTTTCTT
11089023 TT
1 TT
11089025 ACTTTCACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
7 14 0.27
8 30 0.58
9 2 0.04
10 6 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:11088976 original size:30 final size:30
Alignment explanation
Indices: 11088931--11089009 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
11088921 TTTTTCTCTC
11088931 TCTTTTTTCTGCTTTTTTCTTTTCT-ATATTTT
1 TCTTTTTT-T-CTTTTTTCTTTTCTCAT-TTTT
* *
11088963 TCTTTTTTTCTTTTTTCTTTTTTCCTTTTT
1 TCTTTTTTTCTTTTTTCTTTTCTCATTTTT
*
11088993 TCCTTTTTTCTTTTTTC
1 TCTTTTTTTCTTTTTTC
11089010 CTTCTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 33 0.77
31 2 0.05
32 8 0.19
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (30 bp):
TCTTTTTTTCTTTTTTCTTTTCTCATTTTT
Found at i:11088985 original size:23 final size:24
Alignment explanation
Indices: 11088901--11089024 Score: 114
Period size: 23 Copynumber: 5.2 Consensus size: 24
11088891 TTGATTGGTT
11088901 TTTTTTCTTCTTTCTTCTCTTTTTTC
1 TTTTTTCTT-TTT-TTCTCTTTTTTC
* *
11088927 -TCTCTC-TTTTTTCTGCTTTTTTC
1 TTTTTTCTTTTTTTCT-CTTTTTTC
* * *
11088950 TTTTCTATATTTTTCT-TTTTTTC
1 TTTTTTCTTTTTTTCTCTTTTTTC
11088973 TTTTTTC-TTTTTTC-CTTTTTTCC
1 TTTTTTCTTTTTTTCTCTTTTTT-C
*
11088996 TTTTTTCTTTTTTCCTTCTTTTTTC
1 TTTTTTCTTTTTTTC-TCTTTTTTC
11089021 TTTT
1 TTTT
11089025 ACTTTCACTT
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
22 16 0.20
23 31 0.38
24 11 0.14
25 16 0.20
26 7 0.09
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTTTCTTTTTTTCTCTTTTTTC
Found at i:11090423 original size:14 final size:14
Alignment explanation
Indices: 11090404--11090430 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11090394 GTATATACTT
11090404 ATGCAAAGATGCAC
1 ATGCAAAGATGCAC
11090418 ATGCAAAGATGCA
1 ATGCAAAGATGCA
11090431 AAAATGGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (14 bp):
ATGCAAAGATGCAC
Found at i:11090444 original size:14 final size:15
Alignment explanation
Indices: 11090424--11090460 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
11090414 GCACATGCAA
*
11090424 AGATGCAAAAATGGG
1 AGATGCAAAAATGCG
11090439 AG-TGC-AAAATGCG
1 AGATGCAAAAATGCG
11090452 AGATGCAAA
1 AGATGCAAA
11090461 TGCAATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.14
Consensus pattern (15 bp):
AGATGCAAAAATGCG
Found at i:11095349 original size:148 final size:149
Alignment explanation
Indices: 11095197--11095471 Score: 378
Period size: 149 Copynumber: 1.9 Consensus size: 149
11095187 AAAAAAAACA
* ** *
11095197 TCTCAAGTGAGACAAAACTT-GTTTTAGGGAAAACTATATCAAGTGAGATAAAATTTTTGTTTTA
1 TCTCAAGTGAGACAAAACTTAGTTTTA-GGAAAACTATATCAAATGAGATAAAAAATTTGTTTCA
* *
11095261 A-GGAAAACT-TCTCGAGTGAGATG-AAACTTGTTTTAAGAAAAACTTTCTTAAGTGAGATAAAA
65 AGGGAAAA-TGTCTCGAGTGAGA-GAAAACTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAAA
11095323 AAAAGTTTACCAAGAATAAATG
128 AAAAGTTTACCAAGAATAAATG
** * *
11095345 TCTCAAGTGAGATGAAACTTATTTTTAGGAAAACTATCTCAAATGAGATAAAAAATTTGTTTCAA
1 TCTCAAGTGAGACAAAACTTAGTTTTAGGAAAACTATATCAAATGAGATAAAAAATTTGTTTCAA
* **
11095410 GGGAAAATGTCTCGAGTGAGAGAAAATTTGTTTTAAGATGAACTATCTCAAGTGAGATAAAA
66 GGGAAAATGTCTCGAGTGAGAGAAAACTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAAA
11095472 GTTTTGTTTC
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
148 53 0.48
149 57 0.52
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (149 bp):
TCTCAAGTGAGACAAAACTTAGTTTTAGGAAAACTATATCAAATGAGATAAAAAATTTGTTTCAA
GGGAAAATGTCTCGAGTGAGAGAAAACTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAAAAAA
AGTTTACCAAGAATAAATG
Found at i:11095454 original size:74 final size:73
Alignment explanation
Indices: 11095197--11095535 Score: 276
Period size: 73 Copynumber: 4.6 Consensus size: 73
11095187 AAAAAAAACA
* * * * * ** *
11095197 TCTCAAGTGAGACAAAACTTGTTTTAGGGAAAACTATATCAAGTGAGATAAAATTTTTGTTTTAA
1 TCTCGAGTGAGAGAAAATTTGTTTTA-AGAAAACTATCTCAAGTGAGATAAAAAATTTGTTTCAA
11095262 GGAAAACT-
65 GGAAAACTG
* * * **
11095270 TCTCGAGTGAGATG-AAACTTGTTTTAAGAAAAACTTTCTTAAGTGAGATAAAAAA-AAGTTTAC
1 TCTCGAGTGAGA-GAAAATTTGTTTTAAG-AAAACTATCTCAAGTGAGATAAAAAATTTGTTT--
*
11095333 CAA-GAATAAATG
62 CAAGGAA-AACTG
* * * *
11095345 TCTCAAGTGAGATGAAACTTAT-TTTTAGGAAAACTATCTCAAATGAGATAAAAAATTTGTTTCA
1 TCTCGAGTGAGA-GAAAATT-TGTTTTAAGAAAACTATCTCAAGTGAGATAAAAAATTTGTTTCA
11095409 AGGGAAAA-TG
64 A-GGAAAACTG
* ** *
11095419 TCTCGAGTGAGAGAAAATTTGTTTTAAGATGAACTATCTCAAGTGAGATAAAAGTTTTGTTTCGA
1 TCTCGAGTGAGAGAAAATTTGTTTTAAGA-AAACTATCTCAAGTGAGATAAAAAATTTGTTTCAA
*
11095484 GGAAAACTA
65 GGAAAACTG
* * * * *
11095493 TCTCGATTGAGACATAATTTTGTTTAAAGAGAAACCATCTCAA
1 TCTCGAGTGAGAGA-AAATTTGTTTTAAGA-AAACTATCTCAA
11095536 ATAAGATTTT
Statistics
Matches: 214, Mismatches: 37, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
72 6 0.03
73 66 0.31
74 64 0.30
75 61 0.29
76 16 0.07
77 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (73 bp):
TCTCGAGTGAGAGAAAATTTGTTTTAAGAAAACTATCTCAAGTGAGATAAAAAATTTGTTTCAAG
GAAAACTG
Found at i:11095504 original size:38 final size:37
Alignment explanation
Indices: 11095079--11095535 Score: 226
Period size: 36 Copynumber: 12.4 Consensus size: 37
11095069 TTTTCAACAT
* *
11095079 AAAA-TATTTCAAGTGAGATACAATTTTTGTTTCAAGG
1 AAAACTATCTCAAGTGAGATA-AAATTTTGTTTCAAGG
** * * *
11095116 AAATTTGTCTCAAGTGAGACAAAA-TTTGTTCCAAGTG
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAG-G
* ** * * **
11095153 -AAATTATCTCATCTGAGA-AAATTTTTGTTTTGATAAAA
1 AAAACTATCTCAAGTGAGATAAAATTTTG-TTT--CAAGG
* * * *
11095191 AAAAC-ATCTCAAGTGAGACAAAA-CTTGTTTTAGGG
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAGG
* *
11095226 AAAACTATATCAAGTGAGATAAAATTTTTGTTTTAAGG
1 AAAACTATCTCAAGTGAGATAAAA-TTTTGTTTCAAGG
* * * * *
11095264 AAAACT-TCTCGAGTGAGATGAAA-CTTGTTTTAAGA
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAGG
* * ****
11095299 AAAACTTTCTTAAGTGAGATAAAAAAAAGTTTACCAA-G
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTT--CAAGG
* * *
11095337 AATAAATGTCTCAAGTGAGATGAAACTTATT-TTT--AGG
1 AA-AACTATCTCAAGTGAGAT-AAAATT-TTGTTTCAAGG
* *
11095374 AAAACTATCTCAAATGAGATAAAAAATTTGTTTCAAGGG
1 AAAACTATCTCAAGTGAGAT-AAAATTTTGTTTCAA-GG
* * * *
11095413 AAAA-TGTCTCGAGTGAGAGAAAA-TTTGTTTTAA-G
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAGG
* *
11095447 ATGAACTATCTCAAGTGAGATAAAAGTTTTGTTTCGAGG
1 A-AAACTATCTCAAGTGAGATAAAA-TTTTGTTTCAAGG
* * * * *
11095486 AAAACTATCTCGATTGAGACATAATTTTGTTT-AAAG
1 AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAGG
*
11095522 AGAAACCATCTCAA
1 A-AAACTATCTCAA
11095536 ATAAGATTTT
Statistics
Matches: 317, Mismatches: 74, Indels: 58
0.71 0.16 0.13
Matches are distributed among these distances:
34 2 0.01
35 30 0.09
36 109 0.34
37 54 0.17
38 83 0.26
39 33 0.10
40 6 0.02
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (37 bp):
AAAACTATCTCAAGTGAGATAAAATTTTGTTTCAAGG
Found at i:11095626 original size:17 final size:18
Alignment explanation
Indices: 11095606--11095640 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11095596 AACGATTTCA
11095606 AAGAAA-ACAAGATTTTT
1 AAGAAATACAAGATTTTT
11095623 AAGAAATACAAGATTTTT
1 AAGAAATACAAGATTTTT
11095641 TGGATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
AAGAAATACAAGATTTTT
Found at i:11101994 original size:15 final size:15
Alignment explanation
Indices: 11101974--11102016 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
11101964 GGTCAGATCG
*
11101974 ATTTGAGTTTACTCA
1 ATTTGAGTTGACTCA
11101989 ATTTGAGTTGACTCA
1 ATTTGAGTTGACTCA
**
11102004 ACCTGAGTTGACT
1 ATTTGAGTTGACT
11102017 TAGTAGGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (15 bp):
ATTTGAGTTGACTCA
Found at i:11104459 original size:90 final size:90
Alignment explanation
Indices: 11104306--11104483 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
11104296 CCTAACACAC
* * *
11104306 CCTTTTATAGCCAAGTTATCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
11104371 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* *
11104396 CCTTTTATATCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTTAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
11104461 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
11104484 TTTGGGATTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:11109852 original size:15 final size:15
Alignment explanation
Indices: 11109834--11109871 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11109824 ACTGGTTCAG
**
11109834 GTTGACTCGATGTGA
1 GTTGACTCGATACGA
11109849 GTTGACTCGATACGA
1 GTTGACTCGATACGA
11109864 GTTGACTC
1 GTTGACTC
11109872 AACGTGAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (15 bp):
GTTGACTCGATACGA
Found at i:11115073 original size:138 final size:138
Alignment explanation
Indices: 11114930--11115179 Score: 380
Period size: 138 Copynumber: 1.8 Consensus size: 138
11114920 TTATAGGCTC
*
11114930 TAATATTAATCATAATTGATTTTAACCAATTATTGAATCGAATAATCGAAAT-AGACCCTCTAAC
1 TAATATTAATCATAATTGATTTTAACCAATTATTGAATCGAATAATCGAAATGA-ACCCTCGAAC
**
11114994 ATTAAGG-TGGGGTCCAAATCGAATACTCCCTAAATTAA-AGGACTAAAGTGAAATTAAGCCTAA
65 ATTAAGGCAAGGGT-CAAATCGAATACTCCCTAAATTAAGA-GACTAAAGTGAAATTAAGCCTAA
11115057 AATAGAGGTTT
128 AATAGAGGTTT
* *
11115068 TAATATTAATCATAATTGATTTTAATCAATTATTGAATCGAATAATCGAAATGAACCCTCGGACA
1 TAATATTAATCATAATTGATTTTAACCAATTATTGAATCGAATAATCGAAATGAACCCTCGAACA
* * *
11115133 TTAAGGCAAGGGTCAAATTGAATATTGCCTAAATTAAGAGACTAAAG
66 TTAAGGCAAGGGTCAAATCGAATACTCCCTAAATTAAGAGACTAAAG
11115180 CAAAATTTAC
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
138 95 0.94
139 6 0.06
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (138 bp):
TAATATTAATCATAATTGATTTTAACCAATTATTGAATCGAATAATCGAAATGAACCCTCGAACA
TTAAGGCAAGGGTCAAATCGAATACTCCCTAAATTAAGAGACTAAAGTGAAATTAAGCCTAAAAT
AGAGGTTT
Found at i:11115270 original size:22 final size:22
Alignment explanation
Indices: 11115245--11115287 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11115235 TTAATGAAAA
11115245 TACAAAACAAGGCATA-AATAAT
1 TACAAAA-AAGGCATATAATAAT
* *
11115267 TACACAAAATGCATATAATAA
1 TACAAAAAAGGCATATAATAA
11115288 ATTAGACGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.58, C:0.14, G:0.07, T:0.21
Consensus pattern (22 bp):
TACAAAAAAGGCATATAATAAT
Found at i:11116955 original size:20 final size:18
Alignment explanation
Indices: 11116914--11116962 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
11116904 CAATGAACTA
11116914 TGAACATTACATT-ACAT
1 TGAACATTACATTAACAT
11116931 T--ACATTACATTAGACCAT
1 TGAACATTACATTA-A-CAT
11116949 TGAACATTACATTA
1 TGAACATTACATTA
11116963 TGGAGAGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 10 0.37
17 2 0.07
18 4 0.15
20 11 0.41
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (18 bp):
TGAACATTACATTAACAT
Found at i:11116962 original size:5 final size:5
Alignment explanation
Indices: 11116917--11116942 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11116907 TGAACTATGA
11116917 ACATT ACATT ACATT ACATT ACATT A
1 ACATT ACATT ACATT ACATT ACATT A
11116943 GACCATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ACATT
Found at i:11121166 original size:16 final size:16
Alignment explanation
Indices: 11121145--11121175 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11121135 TGGCAAGTCT
11121145 TAACTAAGGAAATAAG
1 TAACTAAGGAAATAAG
11121161 TAACTAAGGAAATAA
1 TAACTAAGGAAATAA
11121176 ATAATTTATT
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:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
TAACTAAGGAAATAAG
Found at i:11122084 original size:19 final size:19
Alignment explanation
Indices: 11122051--11122105 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
11122041 ATTATTATTA
* * *
11122051 TATTTTATATGTTTTATTT
1 TATTATATATTTTTTAATT
*
11122070 TGTTATATATTTTTTTAATT
1 TATTATATA-TTTTTTAATT
11122090 TATTAT-TATTTTTTAA
1 TATTATATATTTTTTAA
11122106 AACATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 13 0.43
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TATTATATATTTTTTAATT
Found at i:11122103 original size:21 final size:20
Alignment explanation
Indices: 11122062--11122103 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11122052 ATTTTATATG
* *
11122062 TTTTATTTTGTTATATATTT
1 TTTTAATTTATTATATATTT
11122082 TTTTAATTTATTAT-TATTT
1 TTTTAATTTATTATATATTT
11122101 TTT
1 TTT
11122104 AAAACATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTAATTTATTATATATTT
Found at i:11122323 original size:26 final size:24
Alignment explanation
Indices: 11122294--11122344 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
11122284 TATACACATA
11122294 TATA-CATATATTTTATTTATTATTCT
1 TATACCAT-TATTTT-TTTATT-TTCT
*
11122320 TATACCCTTATTTTTTTATTTTCT
1 TATACCATTATTTTTTTATTTTCT
11122344 T
1 T
11122345 TTATTACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 6 0.26
26 10 0.43
27 2 0.09
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (24 bp):
TATACCATTATTTTTTTATTTTCT
Found at i:11126760 original size:84 final size:82
Alignment explanation
Indices: 11126469--11127327 Score: 771
Period size: 84 Copynumber: 10.4 Consensus size: 82
11126459 TCTGTCAGCC
* * * * *
11126469 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAGCTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
**
11126534 AAGGGCTATCTGCCACC-
66 AAGGGCTATCT-TAACCA
* ** *
11126551 AAGACCTTCGAGTTCGACTACGA-TCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTAC-ACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGA
* *
11126615 GAAAGGCTATC-T-GCCA
65 GAAGGGCTATCTTAACCA
* * * * * * * *
11126631 AATACCCTCGAGCTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGTCTA
1 AAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGA
*
11126696 GAAGGGTTATCTATAACCAA
65 GAAGGGCTATCT-TAACC-A
* * * *
11126716 AAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTACAACATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
* *
11126781 AAGGGTTATCTGCCAACCA
66 AAGGGCTATCT--TAACCA
* * * **
11126800 AAGACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTGTAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
*
11126865 AAGGGCTATC-T-GCCA
66 AAGGGCTATCTTAACCA
* * * * * * * * *
11126880 AAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGA
*
11126945 GAAGGGTTATCTGTAACCAA
65 GAAGGGCTATCT-TAACC-A
* * ** *
11126965 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATCATTTTTAGCATAACTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
* *
11127030 AAGGGTTATCTGCCAACCA
66 AAGGGCTATCT--TAACCA
* * * * * * * *
11127049 AATACCTTCAAGTTCAACTACGCTCAACTCCAAGGCGCATCATTTACAGCATAGCTTAAGTCGAA
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
*
11127114 AAGGGCTATC-T-GCCA
66 AAGGGCTATCTTAACCA
* * * * * * ***
11127129 AAGACCCTCGAGTTCGATTATACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGATA
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG-CACATCATTTACAGCATAACTTAAGTCGA
* * *
11127194 TAAGGGTTATCTGTCACCAA
65 GAAGGGCTATCT-TAACC-A
** * **
11127214 AAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
* * *
11127279 AAGGGCTATCTACCAATCG
66 AAGGGCTATCT--TAACCA
* *
11127298 AAGACTTTCGAGTTCGATTACACTCAGCTC
1 AAGACCTTCGAGTTCGACTACACTCAGCTC
11127328 AGAGGAAAAC
Statistics
Matches: 621, Mismatches: 135, Indels: 40
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.00
80 75 0.12
81 107 0.17
82 66 0.11
83 4 0.01
84 275 0.44
85 91 0.15
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (82 bp):
AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAG
AAGGGCTATCTTAACCA
Found at i:11126776 original size:165 final size:163
Alignment explanation
Indices: 11126469--11127327 Score: 880
Period size: 165 Copynumber: 5.2 Consensus size: 163
11126459 TCTGTCAGCC
* * * *
11126469 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAGCTCAAGGCTAG
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCTAG
* ** * *
11126534 AAGGGCTATCTGCCACC-AAGACCTTCGAGTTCGACTACGATCAGCTCCAAGGCACATCATTTGC
66 AAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* *
11126598 AATATAGCTTAAGTCGAGAAAGGCTATCTGCCA
131 AACATAGCTTAAGTCGAGAAGGGCTATCTGCCA
* * * * *
11126631 AATACCCTCGAGCTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGTCTA
1 AAGACCCTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGTCTA
* * *
11126696 GAAGGGTTATCTATAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTT
65 GAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
11126761 ACAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
129 ACAACATAGCTTAAGTCGAGAAGGGCTATCTG----CCA
* * * * ** * *
11126800 AAGACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTGTAGCATAACTTAAGTCGAG
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCTAG
* * * * * * *
11126865 AAGGGCTATCTG---CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
66 AAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTA
* * * * *
11126927 CAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
130 CAACATAGCTTAAGTCGAGAAGGGCTATCTG---CC-A
* * * ** * *
11126965 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATCATTTTTAGCATAACTTAAGTCAAG
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCTAG
* * * * * *
11127030 AAGGGTTATCTGCCAACCAAATACCTTCAAGTTCAACTACGCTCAACTCCAAGGCGCATCATTTA
66 AAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* *
11127095 CAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCA
130 CAACATAGCTTAAGTCGAGAAGGGCTATCTGCCA
* * * * **
11127129 AAGACCCTCGAGTTCGATTATACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGATA
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGG-CACATCATTTACAGCATAACTCAAGTCTA
* * *
11127194 TAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTT
65 GAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * * *
11127259 GCAGCATAGTTTAAGTCGAGAAGGGCTATCTACCAA
129 ACAACATAGCTTAAGTCGAGAAGGGCTATCTGCC-A
** *
11127295 TCGAAGACTTTCGAGTTCGATTACACTCAGCTC
1 ---AAGACCCTCGAGTTCGACTACACTCAGCTC
11127328 AGAGGAAAAC
Statistics
Matches: 577, Mismatches: 101, Indels: 31
0.81 0.14 0.04
Matches are distributed among these distances:
162 24 0.04
163 45 0.08
164 62 0.11
165 290 0.50
166 1 0.00
168 80 0.14
169 75 0.13
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (163 bp):
AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCTAG
AAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
AACATAGCTTAAGTCGAGAAGGGCTATCTGCCA
Found at i:11126905 original size:249 final size:249
Alignment explanation
Indices: 11126469--11127327 Score: 1236
Period size: 249 Copynumber: 3.5 Consensus size: 249
11126459 TCTGTCAGCC
* * * *
11126469 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAGCTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAACTTAAGTCGAG
*
11126534 AAGGGCTATCTGCC-ACC-AAGACCTTCGAGTTCGACTACGATCAGCTCCAAGGCACATCATTTG
66 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
** * * *
11126597 CAATATAGCTTAAGTCGAGAAAGGCTATCTGCCAAATACCCTCGAGCTCGATTACACTCAGCTTC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* *
11126662 GAGGGCACATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTATAACCAA
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
* * * * *
11126716 AAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTACAACATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAACTTAAGTCGAG
* * *
11126781 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTG
66 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * *
11126846 TAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
*
11126911 GAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
* * * *
11126965 AAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCATATCATTTTTAGCATAACTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAACTTAAGTCGAG
* * * * * * *
11127030 AAGGGTTATCTGCCAACCAAATACCTTCAAGTTCAACTACGCTCAACTCCAAGGCGCATCATTTA
66 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
11127095 CAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTATACTCAGCTTC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* * * *
11127160 GAGGACACATCATTTACAGCATAACTCAAGGATATAAGGGTTATCTGTCACCAA
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
** * **
11127214 AAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAACTTAAGTCGAG
* * * * * *
11127279 AAGGGCTATCTACCAATCGAAGACTTTCGAGTTCGATTACACTCAGCTC
66 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
11127328 AGAGGAAAAC
Statistics
Matches: 542, Mismatches: 68, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
247 69 0.13
248 3 0.01
249 470 0.87
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (249 bp):
AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTTCAGCATAACTTAAGTCGAG
AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA
Found at i:11127949 original size:37 final size:37
Alignment explanation
Indices: 11127908--11127981 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
11127898 ACAAAACGTC
11127908 AGAGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
1 AGAGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
* * *
11127945 AGAGTTTTATTATGATTCAAATTCTTAAAAATAGGAT
1 AGAGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
11127982 CCATAAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (37 bp):
AGAGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
Found at i:11128445 original size:19 final size:20
Alignment explanation
Indices: 11128410--11128451 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
11128400 TGTTTTATCT
11128410 TTTTTAAAAATTATTA-TTA
1 TTTTTAAAAATTATTATTTA
11128429 TTTTTAAAACATT-TTATTTA
1 TTTTTAAAA-ATTATTATTTA
11128449 TTT
1 TTT
11128452 GCATATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAAAAATTATTATTTA
Found at i:11128700 original size:3 final size:3
Alignment explanation
Indices: 11128692--11128720 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11128682 CTTAATGTTT
11128692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11128721 CTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11128735 original size:9 final size:10
Alignment explanation
Indices: 11128691--11128734 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 10
11128681 ACTTAATGTT
11128691 TTTATTATTA
1 TTTATTATTA
11128701 -TTATTATTA
1 TTTATTATTA
11128710 -TTATTATTA
1 TTTATTATTA
11128719 TTCTATT-TTA
1 TT-TATTATTA
11128729 TTTATT
1 TTTATT
11128735 TCTATTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 22 0.69
10 6 0.19
11 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:11130698 original size:19 final size:19
Alignment explanation
Indices: 11130674--11130715 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
11130664 TGTCTCAAGT
11130674 GAGACGAAATTTGTTTCAA
1 GAGACGAAATTTGTTTCAA
11130693 GAGACGAAATTTGTTTCAA
1 GAGACGAAATTTGTTTCAA
11130712 GAGA
1 GAGA
11130716 AACAATCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (19 bp):
GAGACGAAATTTGTTTCAA
Found at i:11130853 original size:34 final size:36
Alignment explanation
Indices: 11130805--11130874 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
11130795 ACGACGAAAT
* *
11130805 TTTGTTTTTAAG-AAAAACAATCTCAAGTGAGATAA
1 TTTGTTTTTAAGAAAAAAAAATCTCAACTGAGATAA
11130840 TTTG-TTTTAAGAAAAAAAAATCTCAACTGAGATAA
1 TTTGTTTTTAAGAAAAAAAAATCTCAACTGAGATAA
11130875 AATCTTGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 7 0.22
35 25 0.78
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (36 bp):
TTTGTTTTTAAGAAAAAAAAATCTCAACTGAGATAA
Found at i:11131480 original size:115 final size:115
Alignment explanation
Indices: 11131030--11131464 Score: 491
Period size: 115 Copynumber: 3.8 Consensus size: 115
11131020 TTAATCCAAA
* ** * * * *
11131030 TCCTTATGTGATGGATGAGCCTAGGTTTAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTT
1 TCCTTACGTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTTTT
* * * *
11131095 C-GAATGAGTTCTTCTGATTATGAACCCTTCCATTGGAAATGTTGATCTACC
66 CAG-ACGAGTTCTTCTGATTATGAA-CCTTCTATTGGAAATATTGATCCACC
* * * * * *
11131146 TACTTACATGATGGACGAGCAAAGGTTGAACAAGTTCTTCTTATTAGGAGCTTCTTCTCCCTCTT
1 TCCTTACGTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCT-TT
* * * * **
11131211 T-GGATGAGTTCTTCTTATTATGAAACCTTCTATTGGAAATATTGATTCGTC
65 TCAGACGAGTTCTTCTGATTATG-AACCTTCTATTGGAAATATTGATCCACC
* ** * *
11131262 TTCTTTTGTGAT-GACAAGCTAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCTT
1 TCCTTACGTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTTTT
* * *
11131326 CAAACGAGTTTTTCTCATTATGAACACTTCTATTGGAAATATTGATCCACC
66 CAGACGAGTTCTTCTGATTATGAAC-CTTCTATTGGAAATATTGATCCACC
* * *
11131377 TCCTTA-GTGATGGACAAGCCAAGGTTGAACAAGTTCGTCTCATTAGGAGCTTATTCTCCCTTTT
1 TCCTTACGTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTTTT
11131441 CAGACGAGTTCTTCTGATTATGAA
66 CAGACGAGTTCTTCTGATTATGAA
11131465 TCTTTCCTTT
Statistics
Matches: 268, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
114 10 0.04
115 155 0.58
116 97 0.36
117 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (115 bp):
TCCTTACGTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTTTT
CAGACGAGTTCTTCTGATTATGAACCTTCTATTGGAAATATTGATCCACC
Found at i:11132354 original size:13 final size:13
Alignment explanation
Indices: 11132336--11132362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11132326 GAAATGAGAT
11132336 AAATGAGATAGAA
1 AAATGAGATAGAA
11132349 AAATGAGATAGAA
1 AAATGAGATAGAA
11132362 A
1 A
11132363 TTAAGTATTG
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:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (13 bp):
AAATGAGATAGAA
Found at i:11132895 original size:7 final size:7
Alignment explanation
Indices: 11132885--11132957 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
11132875 AAATAGTATA
11132885 ATATATT
1 ATATATT
11132892 ATATAGTT
1 ATATA-TT
*
11132900 ATATGTT
1 ATATATT
*
11132907 ATATGTT
1 ATATATT
*
11132914 ATATAAT
1 ATATATT
11132921 ATTATATTAT
1 A-TATA-T-T
11132931 AGTATATT
1 A-TATATT
*
11132939 ATATACT
1 ATATATT
11132946 ATATA-T
1 ATATATT
11132952 ATATAT
1 ATATAT
11132958 GTTTTAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
6 6 0.11
7 30 0.55
8 12 0.22
9 1 0.02
10 6 0.11
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.52
Consensus pattern (7 bp):
ATATATT
Found at i:11132969 original size:18 final size:18
Alignment explanation
Indices: 11132948--11133005 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
11132938 TATATACTAT
11132948 ATATATATATGTTTTAAA
1 ATATATATATGTTTTAAA
11132966 ATATATATA-GTTTTGAAA
1 ATATATATATGTTTT-AAA
*
11132984 ATAAGTATATATTTTTTAAA
1 AT-A-TATATATGTTTTAAA
11133004 AT
1 AT
11133006 TAAATATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 5 0.14
18 14 0.40
19 1 0.03
20 11 0.31
21 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATATATATATGTTTTAAA
Found at i:11132969 original size:20 final size:20
Alignment explanation
Indices: 11132946--11133005 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
11132936 ATTATATACT
11132946 ATATATATATATGTTTT-AA
1 ATATATATATATGTTTTAAA
11132965 A-ATATATATA-GTTTTGAAA
1 ATATATATATATGTTTT-AAA
*
11132984 ATA-AGTATATATTTTTTAAA
1 ATATA-TATATATGTTTTAAA
11133004 AT
1 AT
11133006 TAAATATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 5 0.14
20 12 0.34
21 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
ATATATATATATGTTTTAAA
Found at i:11133042 original size:16 final size:16
Alignment explanation
Indices: 11133017--11133047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11133007 AAATATTAGT
*
11133017 ATATATAGTATAATTA
1 ATATAAAGTATAATTA
11133033 ATATAAAGTATAATT
1 ATATAAAGTATAATT
11133048 TGGTATATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATAAAGTATAATTA
Found at i:11133890 original size:100 final size:101
Alignment explanation
Indices: 11133716--11133912 Score: 306
Period size: 100 Copynumber: 2.0 Consensus size: 101
11133706 ATGATAGAGG
*
11133716 AGGAAACACCAACATCGTACAAAATGGAAAAAAGGTCATTTTGAGGAAATCCCAGTCCTCCAAAT
1 AGGAAACACCAACATCGTACAAAATGGAAAAAAGGTCATTTTGAGGAAATCCCAGCCCTCCAAAT
* *
11133781 CGGTCCAAGGATGAAATCAACGATGAAGAGAGGTTC
66 CGATCCAAGGATGAAATCAACGACGAAGAGAGGTTC
* * * * *
11133817 AGGAAACACCAACATCGTACAAAATGG-TAAAGGGTCATTTTGAGGAAATCTCGGCCCTCGAAAT
1 AGGAAACACCAACATCGTACAAAATGGAAAAAAGGTCATTTTGAGGAAATCCCAGCCCTCCAAAT
*
11133881 CGATCCAAGGATGAAATCAACGGCGAAGAGAG
66 CGATCCAAGGATGAAATCAACGACGAAGAGAG
11133913 CTTCCTTTGC
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 60 0.69
101 27 0.31
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (101 bp):
AGGAAACACCAACATCGTACAAAATGGAAAAAAGGTCATTTTGAGGAAATCCCAGCCCTCCAAAT
CGATCCAAGGATGAAATCAACGACGAAGAGAGGTTC
Found at i:11134076 original size:7 final size:7
Alignment explanation
Indices: 11134064--11134108 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
11134054 AACAAAACAA
11134064 AAGAGAG
1 AAGAGAG
11134071 AAGAGAG
1 AAGAGAG
11134078 AAGAGAG
1 AAGAGAG
11134085 AAGAGAG
1 AAGAGAG
11134092 AAGAGAG
1 AAGAGAG
11134099 AAGAGAG
1 AAGAGAG
11134106 AAG
1 AAG
11134109 CTTACTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AAGAGAG
Found at i:11135582 original size:2 final size:2
Alignment explanation
Indices: 11135575--11135668 Score: 145
Period size: 2 Copynumber: 47.0 Consensus size: 2
11135565 TATCGCTATG
11135575 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
11135617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TT TG TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
11135660 TA TA T- TA TA
1 TA TA TA TA TA
11135669 GAAAAGACAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
1 1 0.01
2 82 0.96
3 2 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11135965 original size:18 final size:18
Alignment explanation
Indices: 11135917--11135961 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11135907 TATATATATA
*
11135917 TATATGAAAATAGTTATTC
1 TATAT-AAAATAATTATTC
*
11135936 TATATAATATAATTATTC
1 TATATAAAATAATTATTC
11135954 TA-ATAAAA
1 TATATAAAA
11135962 ATAAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
TATATAAAATAATTATTC
Found at i:11138384 original size:13 final size:13
Alignment explanation
Indices: 11138366--11138396 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11138356 ATAATAACTT
11138366 GTTGAAAATTAAA
1 GTTGAAAATTAAA
*
11138379 GTTGAAAATTAGA
1 GTTGAAAATTAAA
11138392 GTTGA
1 GTTGA
11138397 TTGAATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (13 bp):
GTTGAAAATTAAA
Found at i:11139974 original size:72 final size:72
Alignment explanation
Indices: 11139895--11140042 Score: 172
Period size: 72 Copynumber: 2.1 Consensus size: 72
11139885 TCTCAAGGTA
* * * * *
11139895 ACACCCCTAGCTTACCTAGGATACTCTTGAGTACCAGGGTGAGATATAAAATTTTACATGTAT-A
1 ACACCCCTAGCCTACCTAGAATACTCTCGAGTACCAGGGTGAGATACAAAATTTTACATGCATCA
11139959 AAAGACAT
66 AAA-ACAT
* ** ** * *
11139967 ACACCCCTAGCCTACCTTGAATGTTCTCGAGTATTAGGGTGAGATCCAAAATTTTACCTGCATCA
1 ACACCCCTAGCCTACCTAGAATACTCTCGAGTACCAGGGTGAGATACAAAATTTTACATGCATCA
11140032 AAAACAT
66 AAAACAT
11140039 ACAC
1 ACAC
11140043 ACAACCAACT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
72 59 0.94
73 4 0.06
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (72 bp):
ACACCCCTAGCCTACCTAGAATACTCTCGAGTACCAGGGTGAGATACAAAATTTTACATGCATCA
AAAACAT
Found at i:11141344 original size:19 final size:20
Alignment explanation
Indices: 11141320--11141359 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11141310 AATTTAATCG
*
11141320 AATATATAAT-TTAAAATTC
1 AATATAAAATCTTAAAATTC
11141339 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
11141359 A
1 A
11141360 TTAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:11155200 original size:13 final size:13
Alignment explanation
Indices: 11155182--11155208 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11155172 AATTACAGAG
11155182 GTTGGTGGAGAAA
1 GTTGGTGGAGAAA
11155195 GTTGGTGGAGAAA
1 GTTGGTGGAGAAA
11155208 G
1 G
11155209 ACAGTGAGCT
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:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (13 bp):
GTTGGTGGAGAAA
Found at i:11157647 original size:22 final size:22
Alignment explanation
Indices: 11157616--11157664 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11157606 AAAGCGATGG
* *
11157616 GAAGAGGAAATGTGAGGAAGTA
1 GAAGAAGAAACGTGAGGAAGTA
11157638 GAAGAAGAAACGTGAGGAAGTA
1 GAAGAAGAAACGTGAGGAAGTA
11157660 GAAGA
1 GAAGA
11157665 TGAAGAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.39, T:0.10
Consensus pattern (22 bp):
GAAGAAGAAACGTGAGGAAGTA
Found at i:11163241 original size:6 final size:6
Alignment explanation
Indices: 11163232--11163270 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
11163222 GCCAAAAGAT
11163232 TCACAC TCACAC TCACAC TCACAC TCACAC TCACAC TCA
1 TCACAC TCACAC TCACAC TCACAC TCACAC TCACAC TCA
11163271 ACTATGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (6 bp):
TCACAC
Found at i:11166432 original size:12 final size:13
Alignment explanation
Indices: 11166415--11166446 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11166405 TTGTAAGCAC
11166415 AGAAACAT-AAGA
1 AGAAACATAAAGA
11166427 AGAAACATAAAGA
1 AGAAACATAAAGA
11166440 AGAAACA
1 AGAAACA
11166447 AACACCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.69, C:0.09, G:0.16, T:0.06
Consensus pattern (13 bp):
AGAAACATAAAGA
Found at i:11168911 original size:15 final size:15
Alignment explanation
Indices: 11168891--11168936 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
11168881 AACACGTAAA
11168891 AAATAATAAAAATAT
1 AAATAATAAAAATAT
11168906 AAATAA-AATAAATA-
1 AAATAATAA-AAATAT
*
11168920 AAATATTAAAAA-AT
1 AAATAATAAAAATAT
11168934 AAA
1 AAA
11168937 GACACAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 13 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAATAAAAATAT
Found at i:11168913 original size:20 final size:19
Alignment explanation
Indices: 11168888--11168936 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11168878 CAAAACACGT
11168888 AAAAAAT-AATAAAAATATA
1 AAAAAATAAAT-AAAATATA
*
11168907 AATAAAATAAATAAAATATT
1 AA-AAAATAAATAAAATATA
11168927 AAAAAATAAA
1 AAAAAATAAA
11168937 GACACAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAATAAATAAAATATA
Found at i:11168981 original size:9 final size:9
Alignment explanation
Indices: 11168967--11169010 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
11168957 ATTAATGGAG
11168967 TAAAAAAAA
1 TAAAAAAAA
*
11168976 TAAAAAAGA
1 TAAAAAAAA
*
11168985 TAAAAGAAAT
1 TAAAA-AAAA
11168995 TAAAAAAAAA
1 T-AAAAAAAA
11169005 TAAAAA
1 TAAAAA
11169011 TAATGTGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 18 0.62
10 7 0.24
11 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:11169000 original size:11 final size:10
Alignment explanation
Indices: 11168968--11169010 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
11168958 TTAATGGAGT
11168968 AAAAAAAAT-
1 AAAAAAAATA
*
11168977 AAAAAAGATA
1 AAAAAAAATA
* *
11168987 AAAGAAATTA
1 AAAAAAAATA
11168997 AAAAAAAATA
1 AAAAAAAATA
11169007 AAAA
1 AAAA
11169011 TAATGTGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:11169123 original size:11 final size:11
Alignment explanation
Indices: 11169107--11169174 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
11169097 TACATGATAT
11169107 TAAAAAAATAA
1 TAAAAAAATAA
11169118 TAAAAAAATAA
1 TAAAAAAATAA
*
11169129 -AATAAAATAA
1 TAAAAAAATAA
11169139 -AAATATAATATATA
1 TAAA-A-AA-ATA-A
*
11169153 TAAATAAATAA
1 TAAAAAAATAA
*
11169164 AAACAAAAATA
1 TAA-AAAAATA
11169175 GAATATTAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 11 0.24
11 15 0.33
12 11 0.24
13 5 0.11
14 1 0.02
15 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:11169139 original size:47 final size:47
Alignment explanation
Indices: 11169080--11169179 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
11169070 TAAGTAAAAC
* *
11169080 AAATAAAAATAAAGATATACATGATAT-TAAAAAAATAATAA-AAAAATA
1 AAAT-AAAATAAAAATATA-AT-ATATATAAAAAAATAAAAACAAAAATA
*
11169128 AAATAAAATAAAAATATAATATATATAAATAAATAAAAACAAAAATA
1 AAATAAAATAAAAATATAATATATATAAAAAAATAAAAACAAAAATA
*
11169175 GAATA
1 AAATA
11169180 TTAAGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 4 0.09
46 14 0.30
47 24 0.52
48 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (47 bp):
AAATAAAATAAAAATATAATATATATAAAAAAATAAAAACAAAAATA
Found at i:11169158 original size:42 final size:43
Alignment explanation
Indices: 11169044--11169179 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 43
11169034 CTACTAAAAC
11169044 AAATAAAAATAATAA-ATATATAATACTAAGTAAAACAAATAAAAATA
1 AAATAAAAATAATAATATATATAA-A-TAA-TAAAA-AAAT-AAAATA
* * * * *
11169091 AAGATATACATGAT-AT-TAAAAAAATAATAAAAAAATAAAATA
1 AA-ATAAAAATAATAATATATATAAATAATAAAAAAATAAAATA
*
11169133 AAATAAAAAT-ATAATATATATAAATAAATAAAAACA-AAAATA
1 AAATAAAAATAATAATATATATAAAT-AATAAAAAAATAAAATA
*
11169175 GAATA
1 AAATA
11169180 TTAAGAAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
40 2 0.03
41 8 0.11
42 25 0.34
43 13 0.18
44 5 0.07
45 3 0.04
46 1 0.01
47 8 0.11
48 8 0.11
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (43 bp):
AAATAAAAATAATAATATATATAAATAATAAAAAAATAAAATA
Found at i:11169238 original size:12 final size:12
Alignment explanation
Indices: 11169221--11169279 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
11169211 AGAAAAATTA
*
11169221 ATACATCTATAC
1 ATACATATATAC
*
11169233 ATACATATATAT
1 ATACATATATAC
* *
11169245 ATATATATATAT
1 ATACATATATAC
* *
11169257 ATATATATATAT
1 ATACATATATAC
*
11169269 ATATATATATA
1 ATACATATATA
11169280 ATGATATAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
ATACATATATAC
Found at i:11169244 original size:2 final size:2
Alignment explanation
Indices: 11169237--11169298 Score: 92
Period size: 2 Copynumber: 31.5 Consensus size: 2
11169227 CTATACATAC
11169237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11169279 A- AT GAT AT A- AG AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT A
11169299 ATAAAAATAA
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
1 2 0.04
2 52 0.93
3 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11170886 original size:110 final size:110
Alignment explanation
Indices: 11170750--11170956 Score: 299
Period size: 110 Copynumber: 1.9 Consensus size: 110
11170740 AACTGGGAAA
* * * * *
11170750 TTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCT-AGTTCAGT
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTATGTTGTCT-TGAGTCCAAT
* *
11170814 ATCCTTCACTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAAAG
65 ATCCCTCACTATGAAGTTGAAATTGACTCTAAATGAAACTGAAAAG
* *
11170860 TTGTTTGTTGACAATCAGTCGCCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTTGAGTCCAATA
* *
11170925 TCCCTCGCTATGAAGTTGAAATTGGCTCTAAA
66 TCCCTCACTATGAAGTTGAAATTGACTCTAAA
11170957 ACTGGGAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 1 0.01
110 84 0.99
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTTGAGTCCAATA
TCCCTCACTATGAAGTTGAAATTGACTCTAAATGAAACTGAAAAG
Found at i:11171842 original size:20 final size:21
Alignment explanation
Indices: 11171817--11171857 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11171807 TGTTTCAAGG
11171817 GAAA-TTGTCTCAAGAGAAAC
1 GAAATTTGTCTCAAGAGAAAC
* *
11171837 GAAATTTGTTTCAAGATAAAC
1 GAAATTTGTCTCAAGAGAAAC
11171858 TGTCTCAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (21 bp):
GAAATTTGTCTCAAGAGAAAC
Found at i:11171846 original size:65 final size:67
Alignment explanation
Indices: 11171661--11171847 Score: 218
Period size: 65 Copynumber: 2.8 Consensus size: 67
11171651 GAAAACGATC
* * * *
11171661 TCAAAGATATCTGTTGTTTCATGA-AAACGGTTTCAAGGGAAACAAAATTTTGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAA-TTTGTTTTAAGGGAAA
11171725 TAAAT
63 TAAAT
** * *
11171730 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAA
11171795 AT
66 AT
* * * *
11171797 TCAAAGA-TTT-TGTTTCAAGGGAAATTGTCTCAAGAGAAACGAAATTTGTTT
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTT
11171848 CAAGATAAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
65 36 0.35
66 3 0.03
67 34 0.33
68 23 0.23
69 6 0.06
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:11171862 original size:36 final size:36
Alignment explanation
Indices: 11171805--11172126 Score: 194
Period size: 36 Copynumber: 9.3 Consensus size: 36
11171795 ATTCAAAGAT
* * *
11171805 TTTGTTTCAAGGGAAATTGTCTCAAGAGAAACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* *
11171841 TTTGTTTCAAGATAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * * *
11171877 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * *
11171914 TTTGTTTCAA-ATAAAACATAT-TC---A-A-A--TAA
1 TTTGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACGAAA
* *
11171943 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* *
11171979 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * * *
11172015 TTTATTTCAAGGGAAA-TGTTTTC-----A-ATG--T
1 TTTGTTTCAAGAGAAACTG-TCTCAAGAGAGACGAAA
* * *
11172043 TTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * *
11172080 TTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA
1 TTT-GTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
*
11172117 TTAGTTTCAA
1 TTTGTTTCAA
11172127 TGAAAACAAA
Statistics
Matches: 223, Mismatches: 39, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
28 4 0.02
29 34 0.15
30 4 0.02
31 2 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 4 0.02
36 107 0.48
37 63 0.28
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
Found at i:11171902 original size:37 final size:36
Alignment explanation
Indices: 11171817--11171908 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 36
11171807 TGTTTCAAGG
* * * * * *
11171817 GAAATTGTCTCAAGAGAAACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
*
11171853 TAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
11171890 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
11171909 TGAAATTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 20 0.43
37 26 0.57
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:11171904 original size:138 final size:138
Alignment explanation
Indices: 11171751--11172010 Score: 367
Period size: 138 Copynumber: 1.9 Consensus size: 138
11171741 GTGTTTCAAG
* ** * * *
11171751 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* * * *
11171816 GGAAATTGTCTCAAGAGAAACGAAATTTGTTTCAAGATAAACTGTCTCAAGAGAGACAAAACTTA
66 GGAAACTGTCTCAAGAGAAACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
11171881 GTTCCAAA
131 GTTCCAAA
** * * *
11171889 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* *
11171954 GGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGAC
66 GGAAACTGTCTCAAGAGAAACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGAC
11172011 GAAATTTATT
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 105 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAAACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:11171964 original size:102 final size:102
Alignment explanation
Indices: 11171839--11172163 Score: 386
Period size: 102 Copynumber: 3.2 Consensus size: 102
11171829 AGAGAAACGA
* *
11171839 AATTTGTTTCAAGATAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAG
*
11171904 GGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
66 GGAGACGAAATTTGTTTCAAATAAAACATATTCAAAT
* * **
11171941 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAG
* * *** ** *
11172005 AGAGACGAAATTTATTTCAAGGGAAATGTTTTC-AAT
66 GGAGACGAAATTTGTTTCAAATAAAACATATTCAAAT
** * * *
11172041 GTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAA
* *
11172106 GGGAGACGAAATTAGTTTC-AATGAAAACAAATTCAAAT
65 GGGAGACGAAATTTGTTTCAAAT-AAAACATATTCAAAT
* * *
11172144 ATTTTGCTTCAAGGGAAACT
1 AATTTGTTTCAAGAGAAACT
11172164 AGAAAATTGT
Statistics
Matches: 181, Mismatches: 38, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
100 5 0.03
101 79 0.44
102 91 0.50
103 6 0.03
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (102 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAG
GGAGACGAAATTTGTTTCAAATAAAACATATTCAAAT
Found at i:11172923 original size:31 final size:32
Alignment explanation
Indices: 11172887--11172975 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
11172877 ATTCCCAAAG
* * *
11172887 ATGCCCCAATATTCGATGTTGAATCT-AAAAA
1 ATGCCCCAACATTTGATGTTAAATCTAAAAAA
11172918 ATGCCCCAACATTTGATGTTAAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTAAATCTAAAAAA
* *
11172950 ATGCCCTAACATTTGATGTTCAATCT
1 ATGCCCCAACATTTGATGTTAAATCT
11172976 TCAAAGATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
31 23 0.44
32 29 0.56
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTAAATCTAAAAAA
Done.