Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000667.1 Hibiscus syriacus cultivar Beakdansim tig00001297_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: 196013
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:6723 original size:2 final size:2
Alignment explanation
Indices: 6716--6742 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6706 TAATCAAAAT
6716 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6743 CAATTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11119 original size:28 final size:28
Alignment explanation
Indices: 11077--11133 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
11067 TCACCATTAT
* *
11077 TTTCAAGCATTGACTCGACGACATAATG
1 TTTCAAACATCGACTCGACGACATAATG
*
11105 TTTCAAACATCGACTCGATGACATAATG
1 TTTCAAACATCGACTCGACGACATAATG
11133 T
1 T
11134 AAACGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (28 bp):
TTTCAAACATCGACTCGACGACATAATG
Found at i:18340 original size:31 final size:31
Alignment explanation
Indices: 18280--18467 Score: 155
Period size: 31 Copynumber: 6.0 Consensus size: 31
18270 GATCCTCAGT
* * * * *
18280 AACTGTCTATAGGTTTCAAAGAACCTAGGTA
1 AACTGTCCATATGTTCCATAGAACATAGGTA
* * *
18311 AACTGACCATATGTTCCTTAGAATATAGGTA
1 AACTGTCCATATGTTCCATAGAACATAGGTA
* * * *
18342 TATTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCATAGAACATAGGTA
* *
18373 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCATAGAACATAGGTA
* * * *
18405 TACTATCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCATAGAACATAGGTA
*
18436 ATTCTGTCCATATGTTCCATAGAACATAGGTA
1 A-ACTGTCCATATGTTCCATAGAACATAGGTA
18468 TACCCTTGAC
Statistics
Matches: 119, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
31 71 0.60
32 48 0.40
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (31 bp):
AACTGTCCATATGTTCCATAGAACATAGGTA
Found at i:18396 original size:63 final size:63
Alignment explanation
Indices: 18317--18470 Score: 263
Period size: 63 Copynumber: 2.4 Consensus size: 63
18307 GGTAAACTGA
* * * *
18317 CCATATGTTCCTTAGAATATAGGTATATTGTCCATATGTCTCGAAAGACATAGGTAATTCTGT
1 CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
*
18380 CCATATGTTCCGTAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
1 CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
18443 CCATATGTTCCATAGAACATAGGTATAC
1 CCATATGTTCCATAGAACATAGGTATAC
18471 CCTTGACTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (63 bp):
CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
Found at i:22865 original size:32 final size:31
Alignment explanation
Indices: 22815--22930 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 31
22805 TCCTTAGAAT
22815 ATAGGTATACTGTCCATATGTCTCGAAAGAC
1 ATAGGTATACTGTCCATATGTCTCGAAAGAC
* *
22846 ATAGGTAATTCTGTCCATATGT-TCCG-TAGAAC
1 ATAGGT-ATACTGTCCATATGTCT-CGAAAG-AC
*
22878 ATAGGTATACTATCCATATGTCTCGAAAGAC
1 ATAGGTATACTGTCCATATGTCTCGAAAGAC
*
22909 ATAGGTAATTCTGTCCATATGT
1 ATAGGT-ATACTGTCCATATGT
22931 TACATAGAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
31 32 0.44
32 40 0.56
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
ATAGGTATACTGTCCATATGTCTCGAAAGAC
Found at i:22867 original size:63 final size:63
Alignment explanation
Indices: 22797--22950 Score: 263
Period size: 63 Copynumber: 2.4 Consensus size: 63
22787 GGTAAACTGA
* * *
22797 CCATATGTTCCTTAGAATATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATTCTGT
1 CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
*
22860 CCATATGTTCCGTAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
1 CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
*
22923 CCATATGTTACATAGAACATAGGTATAC
1 CCATATGTTCCATAGAACATAGGTATAC
22951 CCTTGACTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (63 bp):
CCATATGTTCCATAGAACATAGGTATACTATCCATATGTCTCGAAAGACATAGGTAATTCTGT
Found at i:22943 original size:32 final size:31
Alignment explanation
Indices: 22774--22947 Score: 151
Period size: 31 Copynumber: 5.5 Consensus size: 31
22764 GTCTATAGGT
* * *
22774 TTCAAAGAACCTAGGTAA-ACTGACCATATG
1 TTCATAGAACATAGGTAATACTGTCCATATG
* *
22804 TTCCTTAGAATATAGGT-ATACTGTCCATATG
1 TT-CATAGAACATAGGTAATACTGTCCATATG
* *
22835 TCTCGAAAG-ACATAGGTAATTCTGTCCATATG
1 T-TC-ATAGAACATAGGTAATACTGTCCATATG
* *
22867 TTCCGTAGAACATAGGT-ATACTATCCATATG
1 TT-CATAGAACATAGGTAATACTGTCCATATG
* *
22898 TCTCGAAAG-ACATAGGTAATTCTGTCCATATG
1 T-TC-ATAGAACATAGGTAATACTGTCCATATG
22930 TTACATAGAACATAGGTA
1 TT-CATAGAACATAGGTA
22948 TACCCTTGAC
Statistics
Matches: 114, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
30 3 0.03
31 59 0.52
32 52 0.46
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (31 bp):
TTCATAGAACATAGGTAATACTGTCCATATG
Found at i:25029 original size:23 final size:23
Alignment explanation
Indices: 24995--25050 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
24985 TATGGAACTT
*
24995 CGGTGCATTTCTACGCGGCACTA
1 CGGTGCAATTCTACGCGGCACTA
* *
25018 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTA
*
25041 CGGTGTAATT
1 CGGTGCAATT
25051 TATATGAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTA
Found at i:26820 original size:400 final size:401
Alignment explanation
Indices: 26027--26833 Score: 1463
Period size: 400 Copynumber: 2.0 Consensus size: 401
26017 CGAACCAATT
26027 TAGGGGCGTACGACATCTTCTTTCATAAAGAGCTTCATAAGGTGCCATTTTGATACTTAATTGAT
1 TAGGGGCGTACGACATCTTCTTTCATAAAGAGCTTCATAAGGTGCCATTTTGATACTTAATTGAT
* *
26092 AACTATTGTTGTACGCGAATTCAACAAGAGGCAAGTACCTTTCTCATGATCCTTTGAACTCGATA
66 AACTATTGTTGTACGCGAATTCAACAAAAGGCAAGTACCTTTCCCATGATCCTTTGAACTCGATA
26157 AAACAAGCTCTCAACATATCCTCCAAAATTTGGATTGTTCTCTAGGATTGCCCATCAGTTTGAGG
131 AAACAAGCTCTCAACATATCCTCCAAAATTTGGATTGTTCTCTAGGATTGCCCATCAGTTTGAGG
26222 ATGAAACGTTGTACTAAAGTTCAACCGAGTTCCCAACGCTTTATGTAATGATTTCCAAAACCGTG
196 AT---A-GTTGTACTAAAGTTCAACCGAGTTCCCAACGCTTTATGTAATGATTTCCAAAACCGTG
26287 AAGTAAATCTAGGATCTCGATCCGAAACAATAGAAACAGGTACTCCATGTAGACGTATAATCTCC
257 AAGTAAATCTAGGATCTCGATCCGAAACAATAGAAACAGGTACTCCATGTAGACGTATAATCTCC
*
26352 CTGATATACAACTCGGCATACTTGTCCATGGTAAAGTCAACTCGTACCGGAATAAAATGAGTTGA
322 CTGATATACAACTCGGCATACTTGTCCATGGTAAAGTCAACTCGTACCGGAATAAAATGAGCTGA
26417 CTTAGTTAATCTATC
387 CTTAGTTAATCTATC
* * * *
26432 TAGGGGCGTACGACATCTTTTTTCATAAATAGCTTCATAAGGTGCCATTTTGATGCTTGATTGAT
1 TAGGGGCGTACGACATCTTCTTTCATAAAGAGCTTCATAAGGTGCCATTTTGATACTTAATTGAT
26497 AACTATTGTTGTACGCGAATTCAACAAAAGGCAAGTACCTTTCCCATGATCCTTTGAACTCGATA
66 AACTATTGTTGTACGCGAATTCAACAAAAGGCAAGTACCTTTCCCATGATCCTTTGAACTCGATA
* * *
26562 ACACAAGCTCTCAACATATCCTCCAAAATTTGGATTGTTCTCTGGGATTGCCCATCGGTTTGAGG
131 AAACAAGCTCTCAACATATCCTCCAAAATTTGGATTGTTCTCTAGGATTGCCCATCAGTTTGAGG
26627 AT-GTTGTACTAAAGTTCAACCGAGTTCCCAACGCTTTATGTAATGATTTCCAAAACCGTGAAGT
196 ATAGTTGTACTAAAGTTCAACCGAGTTCCCAACGCTTTATGTAATGATTTCCAAAACCGTGAAGT
26691 AAATCTAGGATCTCGATCCGAAACAATAGAAACAGGTACTCCATGTAGACGTATAATCTCCCTGA
261 AAATCTAGGATCTCGATCCGAAACAATAGAAACAGGTACTCCATGTAGACGTATAATCTCCCTGA
* *
26756 TATATAACTCGGCATACTTGTCTATGGTAAAGTCAACTCGTACCGGAATAAAATGAGCTGACTTA
326 TATACAACTCGGCATACTTGTCCATGGTAAAGTCAACTCGTACCGGAATAAAATGAGCTGACTTA
26821 GTTAATCTATC
391 GTTAATCTATC
26832 TA
1 TA
26834 CAATTACCCA
Statistics
Matches: 390, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
400 202 0.52
405 188 0.48
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (401 bp):
TAGGGGCGTACGACATCTTCTTTCATAAAGAGCTTCATAAGGTGCCATTTTGATACTTAATTGAT
AACTATTGTTGTACGCGAATTCAACAAAAGGCAAGTACCTTTCCCATGATCCTTTGAACTCGATA
AAACAAGCTCTCAACATATCCTCCAAAATTTGGATTGTTCTCTAGGATTGCCCATCAGTTTGAGG
ATAGTTGTACTAAAGTTCAACCGAGTTCCCAACGCTTTATGTAATGATTTCCAAAACCGTGAAGT
AAATCTAGGATCTCGATCCGAAACAATAGAAACAGGTACTCCATGTAGACGTATAATCTCCCTGA
TATACAACTCGGCATACTTGTCCATGGTAAAGTCAACTCGTACCGGAATAAAATGAGCTGACTTA
GTTAATCTATC
Found at i:42438 original size:12 final size:12
Alignment explanation
Indices: 42423--42448 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42413 CCTAACCACC
42423 GAGCTAACTTTA
1 GAGCTAACTTTA
42435 GAGCTAACTTTA
1 GAGCTAACTTTA
42447 GA
1 GA
42449 ACTTGGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (12 bp):
GAGCTAACTTTA
Found at i:46483 original size:19 final size:19
Alignment explanation
Indices: 46459--46496 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
46449 CCAAGTTTAC
*
46459 GTTACGATTTTTTAAATTT
1 GTTACGATTTTTAAAATTT
46478 GTTACGATTTTTAAAATTT
1 GTTACGATTTTTAAAATTT
46497 ACGTTAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
GTTACGATTTTTAAAATTT
Found at i:46559 original size:21 final size:21
Alignment explanation
Indices: 46512--46642 Score: 90
Period size: 21 Copynumber: 6.4 Consensus size: 21
46502 AGTCCAAATT
* *
46512 CGTTGCGATAGTCCAATTTCA
1 CGTTGCGATAGTCCAAGTTCG
* *
46533 CATTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
** ** *
46554 CGTTGCGATTTTTTAAATT--
1 CGTTGCGATAGTCCAAGTTCG
46573 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* ** * *
46594 CATTGCGATTTTCTAAATT--
1 CGTTGCGATAGTCCAAGTTCG
*
46613 CGTTGCGATAGTTCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
46634 TGTTGCGAT
1 CGTTGCGAT
46643 TTTCCAAAAT
Statistics
Matches: 79, Mismatches: 27, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
19 27 0.34
21 52 0.66
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:46579 original size:40 final size:39
Alignment explanation
Indices: 46535--46646 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 39
46525 CAATTTCACA
*
46535 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTTAAATTCG
1 TTGCGATAGTC-AAGTTCGCGTTGCGATTTTCTAAATTCG
*
46575 TTGCGATAGTCCAAGTTCGCATTGCGATTTTCTAAATTCG
1 TTGCGATAGT-CAAGTTCGCGTTGCGATTTTCTAAATTCG
*
46615 TTGCGATAGTTCAAGTTCGTGTTGCGATTTTC
1 TTGCGATAG-TCAAGTTCGCGTTGCGATTTTC
46647 CAAAATCACA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
40 64 0.97
41 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (39 bp):
TTGCGATAGTCAAGTTCGCGTTGCGATTTTCTAAATTCG
Found at i:46642 original size:61 final size:60
Alignment explanation
Indices: 46501--46634 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
46491 AAATTTACGT
* * *
46501 TAGTCCAAATTCGTTGCGATAGTCCAATTTCACATTGCGATAGTCGAAGTTCGCGTTGCGA
1 TAGTTCAAATTCGTTGCGATAGTCCAAGTTCACATTGCGATAGTCGAAATTC-CGTTGCGA
** * * ** *
46562 TTTTTTAAATTCGTTGCGATAGTCCAAGTTCGCATTGCGATTTTCTAAATT-CGTTGCGA
1 TAGTTCAAATTCGTTGCGATAGTCCAAGTTCACATTGCGATAGTCGAAATTCCGTTGCGA
*
46621 TAGTTCAAGTTCGT
1 TAGTTCAAATTCGT
46635 GTTGCGATTT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
59 18 0.31
61 41 0.69
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (60 bp):
TAGTTCAAATTCGTTGCGATAGTCCAAGTTCACATTGCGATAGTCGAAATTCCGTTGCGA
Found at i:54312 original size:2 final size:2
Alignment explanation
Indices: 54305--54333 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54295 CTTAAACCTT
54305 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
54334 GAGATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:58332 original size:13 final size:13
Alignment explanation
Indices: 58314--58341 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58304 GAGGGATTCA
58314 CACAAAATTTGAT
1 CACAAAATTTGAT
58327 CACAAAATTTGAT
1 CACAAAATTTGAT
58340 CA
1 CA
58342 TTCTTCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (13 bp):
CACAAAATTTGAT
Found at i:63418 original size:2 final size:2
Alignment explanation
Indices: 63411--63435 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63401 GTTGTACACC
63411 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 T
63436 TTGTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74672 original size:18 final size:19
Alignment explanation
Indices: 74631--74678 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
74621 GAAGTTTTGA
*
74631 TTTTCTTTCATCTTTTTAC
1 TTTTATTTCATCTTTTTAC
74650 TTTTATTTCAT-TATTTT-C
1 TTTTATTTCATCT-TTTTAC
74668 TTTTATATTCA
1 TTTTAT-TTCA
74679 CAATGCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTCATCTTTTTAC
Found at i:76901 original size:2 final size:2
Alignment explanation
Indices: 76894--76933 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
76884 AACATTAATA
* *
76894 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76934 GGTTTGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:80602 original size:8 final size:8
Alignment explanation
Indices: 80589--80629 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
80579 CTCATTTTCA
80589 GAGAATTT
1 GAGAATTT
80597 GAGAATTT
1 GAGAATTT
*
80605 -AGAGTTT
1 GAGAATTT
*
80612 GGGAATTT
1 GAGAATTT
80620 GAGAATTT
1 GAGAATTT
80628 GA
1 GA
80630 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:80926 original size:126 final size:126
Alignment explanation
Indices: 80697--81427 Score: 1426
Period size: 126 Copynumber: 5.8 Consensus size: 126
80687 CTATAATCGG
*
80697 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
80762 TCATTGCCCTATTATGTCATTCATGTCCCTCGGAGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
80823 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
80888 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
80949 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
81014 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
81075 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
81140 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
81201 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
81266 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
81327 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
81392 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
81428 ATAACTTAAA
Statistics
Matches: 600, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 600 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:81873 original size:33 final size:34
Alignment explanation
Indices: 81812--81911 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
81802 AAATTTAATG
*
81812 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
81846 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
81879 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
81912 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:82288 original size:9 final size:9
Alignment explanation
Indices: 82276--82305 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
82266 GCTCCCCGGG
82276 AACTGTGGA
1 AACTGTGGA
82285 AACTGTGGA
1 AACTGTGGA
82294 AACTGTGGA
1 AACTGTGGA
82303 AAC
1 AAC
82306 ATTGGCATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (9 bp):
AACTGTGGA
Found at i:82527 original size:21 final size:21
Alignment explanation
Indices: 82439--82532 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
82429 TATGGTATAA
*
82439 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
82460 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
82481 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
82502 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
82523 AACCCTGCGG
1 AACCCTGCGG
82533 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:82562 original size:21 final size:21
Alignment explanation
Indices: 82536--82583 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
82526 CCTGCGGAGA
*
82536 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
82557 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
82578 GGGCAT
1 TGGCAT
82584 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:84344 original size:33 final size:31
Alignment explanation
Indices: 84302--84389 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
84292 TTAATAATTC
*
84302 TAAATAAATAATAATTATATAAATATTATTTAA
1 TAAAAAAATAATAATTATATAAATA-TA-TTAA
* *
84335 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
84366 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
84390 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 6 0.13
32 19 0.40
33 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:84349 original size:18 final size:19
Alignment explanation
Indices: 84322--84357 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
84312 ATAATTATAT
*
84322 AAATATTATTTA-ATAAAA
1 AAATAATATTTACATAAAA
84340 AAATAATATTTACATAAA
1 AAATAATATTTACATAAA
84358 TATATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAATATTTACATAAAA
Found at i:84378 original size:32 final size:34
Alignment explanation
Indices: 84302--84380 Score: 110
Period size: 33 Copynumber: 2.4 Consensus size: 34
84292 TTAATAATTC
*
84302 TAAATAAATAATAATTATATAAATATTATTTAATA
1 TAAA-AAATAATAATTACATAAATATTATTTAATA
*
84337 -AAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
84368 TAAAAAATAATAA
1 TAAAAAATAATAA
84381 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
31 6 0.15
32 13 0.32
33 18 0.45
34 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:85579 original size:21 final size:20
Alignment explanation
Indices: 85493--85650 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
85483 AAATGACCAA
**
85493 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
85512 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
85532 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
85552 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
85573 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
85594 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
85614 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
85635 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
85651 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:85641 original size:20 final size:20
Alignment explanation
Indices: 85617--85926 Score: 343
Period size: 20 Copynumber: 15.5 Consensus size: 20
85607 CGATTTTCCA
* ** *
85617 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
85637 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
85657 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
85677 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85697 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85717 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85737 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
85757 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85777 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85797 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85817 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85837 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85857 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85877 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
**
85897 AAATCGCAACGAGAATATGT
1 AAATCGCAACGAGAATCCGT
*
85917 AAATCACAAC
1 AAATCGCAAC
85927 ACTGAAATTT
Statistics
Matches: 255, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
20 254 1.00
21 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:86648 original size:24 final size:24
Alignment explanation
Indices: 86609--86655 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86599 AAATTTGGTC
86609 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
86633 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
86656 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:89128 original size:33 final size:34
Alignment explanation
Indices: 89077--89241 Score: 174
Period size: 33 Copynumber: 4.7 Consensus size: 34
89067 CGGAAATTAC
* *
89077 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
89110 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
*
89144 AATCGTAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
89182 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
89215 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
89242 CGAGAGAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.45
34 15 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 25 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:89160 original size:19 final size:19
Alignment explanation
Indices: 89091--89279 Score: 210
Period size: 19 Copynumber: 10.7 Consensus size: 19
89081 GCAACGAGAG
89091 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89110 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
89124 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
89144 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
89163 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89182 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
89196 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
89215 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89234 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
89248 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
89267 AATCGCATTGCGA
1 AATCGCAATGCGA
89280 TTCTCCCGTT
Statistics
Matches: 144, Mismatches: 10, Indels: 32
0.77 0.05 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 83 0.58
20 15 0.10
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:89213 original size:52 final size:52
Alignment explanation
Indices: 89077--89279 Score: 272
Period size: 52 Copynumber: 3.9 Consensus size: 52
89067 CGGAAATTAC
*
89077 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
89124 AATCGCAATGCGGAAATGAAAATCGTAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
89182 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
89234 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
89280 TTCTCCCGTT
Statistics
Matches: 138, Mismatches: 7, Indels: 17
0.85 0.04 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 84 0.61
53 28 0.20
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:89328 original size:19 final size:19
Alignment explanation
Indices: 89288--89366 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
89278 GATTCTCCCG
89288 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
89308 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
89327 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
89341 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
89360 TTGCGAT
1 TTGCGAT
89367 AGTCAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:89492 original size:14 final size:14
Alignment explanation
Indices: 89473--89509 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
89463 CATCAATTAC
89473 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
89487 ACAAATCATCTTTT
1 ACAAATCAACTTTT
89501 ACAAATCAA
1 ACAAATCAA
89510 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:91439 original size:19 final size:19
Alignment explanation
Indices: 91415--91543 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
91405 AGAAGAAGAA
91415 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
91434 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
91448 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
91467 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
91481 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
91500 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
91519 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
91539 TGCGA
1 TGCGA
91544 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:91452 original size:33 final size:33
Alignment explanation
Indices: 91415--91506 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
91405 AGAAGAAGAA
91415 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
91448 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
91481 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
91507 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:91707 original size:93 final size:93
Alignment explanation
Indices: 91591--91966 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
91581 ATGGATTGCA
91591 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
91655 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91683 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
91748 TAACAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91776 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
91841 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
91869 TTGCTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
* *
91934 TAGTAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91962 TTACT
1 TTACT
91967 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
92 4 0.01
93 273 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:91746 original size:17 final size:17
Alignment explanation
Indices: 91724--91756 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91714 AATACTATTT
91724 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
91741 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
91757 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:93701 original size:33 final size:33
Alignment explanation
Indices: 93661--93775 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
93651 TCTTTTGGTT
*
93661 GAAATGAAAATCGCAACGATAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
93694 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
93727 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
93760 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
93776 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:93707 original size:19 final size:19
Alignment explanation
Indices: 93683--93780 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
93673 GCAACGATAG
93683 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
93702 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
93716 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
93735 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
93749 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
93768 AATCGCAATGCGA
1 AATCGCAACGCGA
93781 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:93754 original size:14 final size:14
Alignment explanation
Indices: 93669--93758 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
93659 TTGAAATGAA
*
93669 AATCGCAACGATAG
1 AATCGCAACGAGAG
*
93683 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
93702 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
93716 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
93735 AATCGCAACGAGAG
1 AATCGCAACGAGAG
93749 AATCGCAACG
1 AATCGCAACG
93759 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 30 0.51
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:93811 original size:14 final size:14
Alignment explanation
Indices: 93792--93848 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
93782 TTTGGTTTCG
93792 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
93806 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
93825 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
93839 CGTTGCGATT
1 CGTTGCGATT
93849 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:93824 original size:33 final size:33
Alignment explanation
Indices: 93776--93856 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
93766 AAAATCGCAA
**
93776 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
93809 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
93842 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
93857 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:93859 original size:21 final size:21
Alignment explanation
Indices: 93833--93908 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
93823 CGCGTTGCGA
93833 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
93854 TTCTCTCGTTGCGACAATCA-
1 TTCTCTCGTTGCGATTTTCAT
93874 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
93895 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
93909 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:93889 original size:41 final size:41
Alignment explanation
Indices: 93832--93909 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
93822 TCGCGTTGCG
*
93832 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAATC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAATC
93873 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
93910 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAATC
Found at i:94027 original size:33 final size:33
Alignment explanation
Indices: 93985--94055 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
93975 AATACTAACT
*
93985 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
94018 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
94051 TGAAA
1 TGAAA
94056 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:94289 original size:22 final size:22
Alignment explanation
Indices: 94237--94291 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
94227 TGGTTGTGAG
**
94237 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
94259 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
94281 GGATTTCTTCG
1 GGATTTCTTCG
94292 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:94565 original size:40 final size:40
Alignment explanation
Indices: 94437--94571 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
94427 GCTTTAAATA
94437 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTAT
** * *
94478 TATCGTTGCGATTTACGGATACGCGTTGCGATATACAG-AT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTA-TGTAT
* * *
94518 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
94558 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
94572 TCATATTCGA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 49 0.61
41 30 0.38
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
Found at i:94580 original size:20 final size:20
Alignment explanation
Indices: 94438--94571 Score: 155
Period size: 20 Copynumber: 6.7 Consensus size: 20
94428 CTTTAAATAT
94438 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
94458 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
94480 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
94499 CGCGTTGCGATATACAGATA
1 CGCGTTGCGATTTACGGATA
*
94519 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
94539 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
94559 CGCGTTGCGATTT
1 CGCGTTGCGATTT
94572 TCATATTCGA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 77 0.80
21 15 0.16
22 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:95296 original size:3 final size:3
Alignment explanation
Indices: 95288--95319 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
95278 CACTAACTAT
95288 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
95320 AAGAGATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:102176 original size:472 final size:472
Alignment explanation
Indices: 101292--102237 Score: 1883
Period size: 472 Copynumber: 2.0 Consensus size: 472
101282 TTCATACATC
101292 CATCTGTGGATTTTTTTTTATTTCCTTGAATGGATACTTATTCTCTACTTGTATATTTAGAATTG
1 CATCTGTGGATTTTTTTTTATTTCCTTGAATGGATACTTATTCTCTACTTGTATATTTAGAATTG
101357 ACTGACACATGCTTTCTCCCACTTGGCATATAGCTCTTCCCCCCAACTCCTGCAGCAGCTACTAA
66 ACTGACACATGCTTTCTCCCACTTGGCATATAGCTCTTCCCCCCAACTCCTGCAGCAGCTACTAA
101422 TGCTGGTGCTTTAGCATGCTGGATGGCCAGTGCTTCTGCCTCTTCATCTGTTCAAGCTGCTGTTG
131 TGCTGGTGCTTTAGCATGCTGGATGGCCAGTGCTTCTGCCTCTTCATCTGTTCAAGCTGCTGTTG
101487 TCACTGCATTGTACATGCCTGTTCCACAAAATCAAGGTCAGGACTTAAATTCTAACTCGTTAAAA
196 TCACTGCATTGTACATGCCTGTTCCACAAAATCAAGGTCAGGACTTAAATTCTAACTCGTTAAAA
101552 ACGTTTGTTAAAGTTGTACATAATTTGGATAATTGCCCTATTAATGCACATCAGATGACATGAAT
261 ACGTTTGTTAAAGTTGTACATAATTTGGATAATTGCCCTATTAATGCACATCAGATGACATGAAT
101617 CAGAAGATGGTCAGAACATCAGTTTAATATTTTTTCCCCTGAAATCTTGGGTGTGGTTTCAGTTG
326 CAGAAGATGGTCAGAACATCAGTTTAATATTTTTTCCCCTGAAATCTTGGGTGTGGTTTCAGTTG
101682 CTGATCTAATATAAGAATGCCATTCTCTTTGTTTATAATTTCTGGATGTGTGAACTCCTAAGAAT
391 CTGATCTAATATAAGAATGCCATTCTCTTTGTTTATAATTTCTGGATGTGTGAACTCCTAAGAAT
101747 CAATTTTTTGTTAGATT
456 CAATTTTTTGTTAGATT
101764 CATCTGTGGATTTTTTTTTATTTCCTTGAATGGATACTTATTCTCTACTTGTATATTTAGAATTG
1 CATCTGTGGATTTTTTTTTATTTCCTTGAATGGATACTTATTCTCTACTTGTATATTTAGAATTG
101829 ACTGACACATGCTTTCTCCCACTTGGCATATAGCTCTTCCCCCCAACTCCTGCAGCAGCTACTAA
66 ACTGACACATGCTTTCTCCCACTTGGCATATAGCTCTTCCCCCCAACTCCTGCAGCAGCTACTAA
101894 TGCTGGTGCTTTAGCATGCTGGATGGCCAGTGCTTCTGCCTCTTCATCTGTTCAAGCTGCTGTTG
131 TGCTGGTGCTTTAGCATGCTGGATGGCCAGTGCTTCTGCCTCTTCATCTGTTCAAGCTGCTGTTG
101959 TCACTGCATTGTACATGCCTGTTCCACAAAATCAAGGTCAGGACTTAAATTCTAACTCGTTAAAA
196 TCACTGCATTGTACATGCCTGTTCCACAAAATCAAGGTCAGGACTTAAATTCTAACTCGTTAAAA
102024 ACGTTTGTTAAAGTTGTACATAATTTGGATAATTGCCCTATTAATGCACATCAGATGACATGAAT
261 ACGTTTGTTAAAGTTGTACATAATTTGGATAATTGCCCTATTAATGCACATCAGATGACATGAAT
102089 CAGAAGATGGTCAGAACATCAGTTTAATATTTTTTCCCCTGAAATCTTGGGTGTGGTTTCAGTTG
326 CAGAAGATGGTCAGAACATCAGTTTAATATTTTTTCCCCTGAAATCTTGGGTGTGGTTTCAGTTG
*
102154 CTGATCTAATATAAGAATGCCATTCTCTTTGTTTATAATTTCTGGATGTGTTAACTCCTAAGAAT
391 CTGATCTAATATAAGAATGCCATTCTCTTTGTTTATAATTTCTGGATGTGTGAACTCCTAAGAAT
102219 CAATTTTTTGTTAGATT
456 CAATTTTTTGTTAGATT
102236 CA
1 CA
102238 AGATTTTATT
Statistics
Matches: 473, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
472 473 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (472 bp):
CATCTGTGGATTTTTTTTTATTTCCTTGAATGGATACTTATTCTCTACTTGTATATTTAGAATTG
ACTGACACATGCTTTCTCCCACTTGGCATATAGCTCTTCCCCCCAACTCCTGCAGCAGCTACTAA
TGCTGGTGCTTTAGCATGCTGGATGGCCAGTGCTTCTGCCTCTTCATCTGTTCAAGCTGCTGTTG
TCACTGCATTGTACATGCCTGTTCCACAAAATCAAGGTCAGGACTTAAATTCTAACTCGTTAAAA
ACGTTTGTTAAAGTTGTACATAATTTGGATAATTGCCCTATTAATGCACATCAGATGACATGAAT
CAGAAGATGGTCAGAACATCAGTTTAATATTTTTTCCCCTGAAATCTTGGGTGTGGTTTCAGTTG
CTGATCTAATATAAGAATGCCATTCTCTTTGTTTATAATTTCTGGATGTGTGAACTCCTAAGAAT
CAATTTTTTGTTAGATT
Found at i:105762 original size:82 final size:82
Alignment explanation
Indices: 105625--105790 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
105615 GACAGCACAG
*
105625 ATAGCTCCAGCAAGGTCGGTTAGTTTTATTCAAATAGTCAGGTTTATTTCATGTTTTATACCATT
1 ATAGCTCCAGCAAGGTCGGTTAGTTTTATTCAAATAATCAGGTTTATTTCATGTTTTATACCATT
105690 TTGCATTGAATCATTGC
66 TTGCATTGAATCATTGC
105707 ATAGCTCCAGCAAGGTCGGTTAGTTTTATTCAAATAATCAGGTTTATTTCATGTTTTATACCATT
1 ATAGCTCCAGCAAGGTCGGTTAGTTTTATTCAAATAATCAGGTTTATTTCATGTTTTATACCATT
105772 TTGCATTGAATCATTGC
66 TTGCATTGAATCATTGC
105789 AT
1 AT
105791 CTCTTTGAAG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (82 bp):
ATAGCTCCAGCAAGGTCGGTTAGTTTTATTCAAATAATCAGGTTTATTTCATGTTTTATACCATT
TTGCATTGAATCATTGC
Found at i:110203 original size:45 final size:45
Alignment explanation
Indices: 110022--110205 Score: 298
Period size: 45 Copynumber: 4.1 Consensus size: 45
110012 TGGCCAATGC
*
110022 GATGGATTCGTTAACATCTCTCGAGTCTCCAAACTGTCTCTTCTA
1 GATGGATTCGTTAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
* *
110067 GGTGGATTCGTTAACATCTCTCGAGTCTCCAAACTGTCTCTTCTA
1 GATGGATTCGTTAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
*
110112 GGTGGATTCAG-TAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
1 GATGGATTC-GTTAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
* *
110157 GATGGATTCGCTAACATCTCTCGACTATCCAAACTGTCTCTTCTA
1 GATGGATTCGTTAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
110202 GATG
1 GATG
110206 CCGATGAAGA
Statistics
Matches: 133, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
44 1 0.01
45 131 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (45 bp):
GATGGATTCGTTAACATCTCTCGAGTATCCAAACTGTCTCTTCTA
Found at i:112874 original size:48 final size:45
Alignment explanation
Indices: 112768--112862 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
112758 ATCAGACTTG
* *
112768 TCATCGCAAGTTTCCTTTCTCTCCGACCCAATTGATGATGATTCA
1 TCATCGCAAATTTCCTTTCCCTCCGACCCAATTGATGATGATTCA
* *
112813 TCTTCGCAAATTTCCTTTCCCTCCGACCCTATTGATGATGATTCA
1 TCATCGCAAATTTCCTTTCCCTCCGACCCAATTGATGATGATTCA
112858 TCATC
1 TCATC
112863 TTCAACCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.37
Consensus pattern (45 bp):
TCATCGCAAATTTCCTTTCCCTCCGACCCAATTGATGATGATTCA
Found at i:112930 original size:45 final size:46
Alignment explanation
Indices: 112862--112957 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 46
112852 GATTCATCAT
* *
112862 CTTCAACCATTTCTTCAGTTGATGCATTTACTTCAACTACTCCAGC
1 CTTCAACCACTTCTTCAGCTGATGCATTTACTTCAACTACTCCAGC
* **
112908 CTTCAA-CACTTCTTCAGCTGATGCCTTTACTTCAACTACTCTGGC
1 CTTCAACCACTTCTTCAGCTGATGCATTTACTTCAACTACTCCAGC
112953 CTTCA
1 CTTCA
112958 CCATCACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 39 0.87
46 6 0.13
ACGTcount: A:0.22, C:0.32, G:0.09, T:0.36
Consensus pattern (46 bp):
CTTCAACCACTTCTTCAGCTGATGCATTTACTTCAACTACTCCAGC
Found at i:118932 original size:29 final size:29
Alignment explanation
Indices: 118877--118932 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
118867 CAAAATCAAA
* * *
118877 AGTGACCAAAACCAATATTTTTCAAAACC
1 AGTGACCAAAACAAATATTATTAAAAACC
118906 AGTGACCAAAATCAAATA-TATTAAAAA
1 AGTGACCAAAA-CAAATATTATTAAAAA
118933 TATAAAGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (29 bp):
AGTGACCAAAACAAATATTATTAAAAACC
Found at i:119305 original size:15 final size:16
Alignment explanation
Indices: 119267--119307 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
119257 ATAGAACATC
*
119267 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
119283 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
119299 T-AATCATTC
1 TGAATCATTC
119308 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:120728 original size:24 final size:24
Alignment explanation
Indices: 120701--120757 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
120691 GTAAACGGAG
*
120701 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATCC
* *
120725 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATCC
*
120749 AGATCAGAA
1 ATATCAGAA
120758 TTCAGGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATCC
Found at i:120732 original size:12 final size:12
Alignment explanation
Indices: 120703--120762 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
120693 AAACGGAGAT
* *
120703 ATCAGAAATCAA
1 ATCAGAATTCAG
* *
120715 AACAGAATTCAT
1 ATCAGAATTCAG
120727 ATCAG-ATATCAG
1 ATCAGAAT-TCAG
* *
120739 AACAGAATCCAG
1 ATCAGAATTCAG
120751 ATCAGAATTCAG
1 ATCAGAATTCAG
120763 GTAATGTATC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.20
Consensus pattern (12 bp):
ATCAGAATTCAG
Found at i:121814 original size:26 final size:27
Alignment explanation
Indices: 121785--121842 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
121775 TGTCCAGTTT
* *
121785 TATTCTATTCATTTCAGAGCTCGG-GA
1 TATTCTAATCATTCCAGAGCTCGGTGA
* *
121811 TATTC-AATCATTCCTGAGCTTGGTGA
1 TATTCTAATCATTCCAGAGCTCGGTGA
121837 TATTCT
1 TATTCT
121843 TGGGTCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (27 bp):
TATTCTAATCATTCCAGAGCTCGGTGA
Found at i:123340 original size:18 final size:18
Alignment explanation
Indices: 123319--123364 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
123309 GTCGGGTCAA
*
123319 CGGGTCGGGTAAAATGGT
1 CGGGTCGGGTAAAAGGGT
*
123337 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAAAGGGT
*
123355 CGGGTTGGGT
1 CGGGTCGGGT
123365 TGTGACCGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.50, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTAAAAGGGT
Found at i:123353 original size:13 final size:13
Alignment explanation
Indices: 123306--123359 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
123296 TTCAATGGGT
*
123306 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
123319 CGGGTCGGGTAAAA
1 CGGGTCGGGT-AAA
123333 TGGTCGGGTCGGGTAAA
1 ----CGGGTCGGGTAAA
123350 CGGGTCGGGT
1 CGGGTCGGGT
123360 TGGGTTGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 20 0.57
14 2 0.06
17 3 0.09
18 10 0.29
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:126989 original size:117 final size:117
Alignment explanation
Indices: 126849--127071 Score: 374
Period size: 117 Copynumber: 1.9 Consensus size: 117
126839 CAAAGCAAAG
*
126849 CTCGGTGCCAATACGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCATTGAAGTG
1 CTCGGTGACAATACGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCATTGAAGTG
* * *
126914 TTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGCACCAATGAAGCAGGA
66 TTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAATGAAGCAGGA
* * *
126966 CTCGGTGACAATGCGAGTGGCGAAGCAACTAAGTCGAGGGTAAAGAAGCGAGAGCCATTGAAGTG
1 CTCGGTGACAATACGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCATTGAAGTG
*
127031 TTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCA
66 TTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCA
127072 CCGAAGTAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 98 1.00
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.17
Consensus pattern (117 bp):
CTCGGTGACAATACGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCATTGAAGTG
TTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAATGAAGCAGGA
Found at i:127121 original size:117 final size:116
Alignment explanation
Indices: 126864--127152 Score: 307
Period size: 117 Copynumber: 2.5 Consensus size: 116
126854 TGCCAATACG
* * * *
126864 AGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCATTGAAGTGTTTCCGATGTGATGG
1 AGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCCATTGAAGTGTTTCCAATGCGATGG
* * * * * * *
126929 AGAACACAAGGTGCGAGATTGCACCAATGAAGCAGGACTCGGTGACAATGCG
65 ACAACACAAGGTGCGAGATTGCACCAACGAAGAAAGACTCAGTGACAAAGCA
* * *
126981 AGTGGCGAAGCAACTAAGTCGAGGGTAAAGAAGCGAGAGCCATTGAAGTGTTTCCAATGCGGTGG
1 AGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCCATTGAAGTGTTTCCAATGCGATGG
*
127046 ACAACACAAGGTGCGAGATTGCACCACCGAAGTAAAG-CTCAGTG-CGAAAGCTA
65 ACAACACAAGGTGCGAGATTGCACCAACGAAG-AAAGACTCAGTGAC-AAAGC-A
* * * * *
127099 AG-GGCCAAGCTGAA-GAGCCGAGGGTAAATAAGCGAGAGCAACTGGAGTGTTTCC
1 AGTGGCCAAGC--AACAAGCCGAGGGTAAAGAAGCGAGAGCCATTGAAGTGTTTCC
127153 GGTGCAAAGG
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
116 1 0.01
117 140 0.95
118 4 0.03
119 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.32, T:0.16
Consensus pattern (116 bp):
AGTGGCCAAGCAACAAGCCGAGGGTAAAGAAGCGAGAGCCATTGAAGTGTTTCCAATGCGATGGA
CAACACAAGGTGCGAGATTGCACCAACGAAGAAAGACTCAGTGACAAAGCA
Found at i:127780 original size:15 final size:15
Alignment explanation
Indices: 127760--127794 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
127750 AGCAAGGCTC
127760 TTCGAGTGAAGCTTG
1 TTCGAGTGAAGCTTG
*
127775 TTCGAGTGAAGTTTG
1 TTCGAGTGAAGCTTG
127790 TTCGA
1 TTCGA
127795 ATGGTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (15 bp):
TTCGAGTGAAGCTTG
Found at i:131016 original size:39 final size:40
Alignment explanation
Indices: 130958--131067 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 40
130948 TGAGGAGGAG
* *
130958 GAGGAATTCAGTCC--A-GATGAAGATGATTGTTTTG-AC
1 GAGGAATTCACTCCGGATGATGAAGAAGATTGTTTTGAAC
*
130994 GAGGAATTCACTCCGGATGATGAAGAAGATTG-TTTGAAT
1 GAGGAATTCACTCCGGATGATGAAGAAGATTGTTTTGAAC
*
131033 GAGGAATGCACTCCGGATGATGAAGAAGATTGTTT
1 GAGGAATTCACTCCGGATGATGAAGAAGATTGTTT
131068 GGAATTTGGA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
36 13 0.20
38 5 0.08
39 45 0.69
40 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (40 bp):
GAGGAATTCACTCCGGATGATGAAGAAGATTGTTTTGAAC
Found at i:134168 original size:25 final size:24
Alignment explanation
Indices: 134121--134170 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
134111 ATTTATATAC
* *
134121 TTTTTAATAAAATTTATATATAAA
1 TTTTTAATAAAATTTAAAGATAAA
*
134145 TTTTTTATAAAATTTAAAAGATAAA
1 TTTTTAATAAAATTT-AAAGATAAA
134170 T
1 T
134171 GGGTAGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTTTAATAAAATTTAAAGATAAA
Found at i:136731 original size:20 final size:20
Alignment explanation
Indices: 136706--136752 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
136696 AAATCTTATT
136706 GGGAAAAGAATCTAACTCAG
1 GGGAAAAGAATCTAACTCAG
136726 GGGAAAAGAATCTAACTCAG
1 GGGAAAAGAATCTAACTCAG
136746 GGGAAAA
1 GGGAAAA
136753 TAACCAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.28, T:0.13
Consensus pattern (20 bp):
GGGAAAAGAATCTAACTCAG
Found at i:142128 original size:10 final size:10
Alignment explanation
Indices: 142113--142172 Score: 72
Period size: 10 Copynumber: 6.2 Consensus size: 10
142103 GTCCGGGTCT
142113 TTTTTATTTA
1 TTTTTATTTA
142123 TTTTTATTT-
1 TTTTTATTTA
142132 TTATTT-TTTA
1 TT-TTTATTTA
142142 TTTTTATTTA
1 TTTTTATTTA
142152 TTTTTA-TTA
1 TTTTTATTTA
* *
142161 TTATTAATTA
1 TTTTTATTTA
142171 TT
1 TT
142173 ATTAACTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 16 0.36
10 29 0.64
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:142130 original size:6 final size:6
Alignment explanation
Indices: 142119--142165 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
142109 GTCTTTTTTA
*
142119 TTTATT TTTATT TTTATTT TTTATT TTTA-- TTTATT TTTATT ATTATT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT TTTATT
142166 AATTATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
4 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:142139 original size:23 final size:23
Alignment explanation
Indices: 142114--142159 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
142104 TCCGGGTCTT
142114 TTTTATTTATT-TTTATTTTTATT
1 TTTTATTT-TTATTTATTTTTATT
142137 TTTTATTTTTATTTATTTTTATT
1 TTTTATTTTTATTTATTTTTATT
142160 ATTATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTATTTTTATTTATTTTTATT
Found at i:142161 original size:13 final size:13
Alignment explanation
Indices: 142119--142176 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
142109 GTCTTTTTTA
142119 TTTATT-TTTATT
1 TTTATTATTTATT
*
142131 TTTATTTTTTATT
1 TTTATTATTTATT
142144 TTTATTTATTT-TT
1 TTTA-TTATTTATT
* *
142157 ATTATTATTAATT
1 TTTATTATTTATT
*
142170 ATTATTA
1 TTTATTA
142177 ACTATTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
12 11 0.28
13 24 0.60
14 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTATTTATT
Found at i:142166 original size:6 final size:6
Alignment explanation
Indices: 142120--142189 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
142110 TCTTTTTTAT
* * * *
142120 TTATTT TTATTT TTATT- TT-TTA TTTTTA TTTATTT TTATTA TTATTAA
1 TTATTA TTATTA TTATTA TTATTA TTATTA -TTATTA TTATTA TTATT-A
*
142168 TTATTA TTAACTA TTATTA TTA
1 TTATTA TT-ATTA TTATTA TTA
142190 ATTTTACATA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
4 2 0.04
5 4 0.07
6 33 0.61
7 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (6 bp):
TTATTA
Found at i:142171 original size:29 final size:29
Alignment explanation
Indices: 142113--142172 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
142103 GTCCGGGTCT
* **
142113 TTTTTATTTATTTTTATTTTTATTTTTTA
1 TTTTTATTTATTTTTATTATTATTAATTA
142142 TTTTTATTTATTTTTATTATTATTAATTA
1 TTTTTATTTATTTTTATTATTATTAATTA
142171 TT
1 TT
142173 ATTAACTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTTATTTATTTTTATTATTATTAATTA
Found at i:142173 original size:10 final size:10
Alignment explanation
Indices: 142139--142186 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
142129 TTTTTATTTT
* *
142139 TTATTTTTAT
1 TTATTATTAA
*
142149 TTATT-TTTA
1 TTATTATTAA
142158 TTATTATTAA
1 TTATTATTAA
142168 TTATTATTAA
1 TTATTATTAA
*
142178 CTATTATTA
1 TTATTATTA
142187 TTAATTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATTATTAA
Found at i:142721 original size:23 final size:23
Alignment explanation
Indices: 142690--142734 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
142680 ATAAATCAAG
142690 GGAACGAAACCAAAAAAAAAAAA
1 GGAACGAAACCAAAAAAAAAAAA
* * *
142713 GGAAGGAAACGAAAAAGAAAAA
1 GGAACGAAACCAAAAAAAAAAA
142735 TACAGAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.09, G:0.20, T:0.00
Consensus pattern (23 bp):
GGAACGAAACCAAAAAAAAAAAA
Found at i:152543 original size:43 final size:43
Alignment explanation
Indices: 152495--152583 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
152485 TTCATGCTAA
*
152495 AATAAAGTTTTATTAATTCTAAGTACTTAATACAATTTACATT
1 AATAAAGTTTTATTAATTCTAAATACTTAATACAATTTACATT
*
152538 AATAAAGTTTTATTAATTCTAAATACTTAATACGATTTACATT
1 AATAAAGTTTTATTAATTCTAAATACTTAATACAATTTACATT
152581 AAT
1 AAT
152584 TGGACTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (43 bp):
AATAAAGTTTTATTAATTCTAAATACTTAATACAATTTACATT
Found at i:161439 original size:2 final size:2
Alignment explanation
Indices: 161432--161481 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
161422 CGTTACTGAT
161432 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
161474 TA TA TA TA
1 TA TA TA TA
161482 ATAATGACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:166776 original size:28 final size:28
Alignment explanation
Indices: 166744--166798 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
166734 CTCCGTTTAT
*
166744 ATTATGTCATCGAGCCAATGCTTGAAAC
1 ATTATGTCATCGAACCAATGCTTGAAAC
* * *
166772 ATTATGTTATCGAACTAGTGCTTGAAA
1 ATTATGTCATCGAACCAATGCTTGAAA
166799 ACAACAACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (28 bp):
ATTATGTCATCGAACCAATGCTTGAAAC
Found at i:169549 original size:16 final size:16
Alignment explanation
Indices: 169528--169568 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
169518 TTAACATTGT
169528 TTAACATTTGTATTCC
1 TTAACATTTGTATTCC
169544 TTAACATTTGTATTCC
1 TTAACATTTGTATTCC
169560 TTAACATTT
1 TTAACATTT
169569 TATGCTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAACATTTGTATTCC
Found at i:171875 original size:2 final size:2
Alignment explanation
Indices: 171868--171938 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
171858 AAGTACAAAG
171868 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
171910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
171939 ATTGAATTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:176335 original size:2 final size:2
Alignment explanation
Indices: 176280--176317 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
176270 CCAGCCAAGC
176280 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
176318 GCATATACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:177155 original size:2 final size:2
Alignment explanation
Indices: 177148--177217 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
177138 AAACAGGGTG
177148 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
177190 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
177218 TAATTAATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178917 original size:29 final size:29
Alignment explanation
Indices: 178875--178961 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
178865 CGCCATAGGA
***
178875 CGCCATGCAATCCAGGCGACCTTGGAGGT
1 CGCCATGCAATCCAGGCGACCTCCAAGGT
178904 CGCCATGCAATCCAGGCGACCTCCAAGGT
1 CGCCATGCAATCCAGGCGACCTCCAAGGT
178933 CGCCATGCAATCCAGGCGACCTCCAAGGT
1 CGCCATGCAATCCAGGCGACCTCCAAGGT
178962 ATATTGCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (29 bp):
CGCCATGCAATCCAGGCGACCTCCAAGGT
Found at i:179638 original size:21 final size:21
Alignment explanation
Indices: 179613--179656 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
179603 AATCTAGTTA
179613 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
179634 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
179655 AT
1 AT
179657 ATTATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:180517 original size:26 final size:25
Alignment explanation
Indices: 180488--180546 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
180478 TAATCATATT
*
180488 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
180514 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
180540 ATTATTA
1 ATTATTA
180547 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:183442 original size:26 final size:25
Alignment explanation
Indices: 183413--183670 Score: 184
Period size: 26 Copynumber: 10.4 Consensus size: 25
183403 TTTGATGATT
183413 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
183439 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
183465 TAATAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
183491 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
183513 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
183537 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
183563 TAGTAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
183589 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
183611 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
183635 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
183661 TAATAATGAT
1 TAGTAATGAT
183671 AAATAATTTG
Statistics
Matches: 193, Mismatches: 19, Indels: 40
0.77 0.08 0.16
Matches are distributed among these distances:
19 2 0.01
20 10 0.05
22 6 0.03
23 22 0.11
24 18 0.09
25 18 0.09
26 105 0.54
27 12 0.06
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (25 bp):
TAGTAATGATTTATAATAATCATTA
Found at i:183533 original size:124 final size:124
Alignment explanation
Indices: 183358--183606 Score: 464
Period size: 124 Copynumber: 2.0 Consensus size: 124
183348 ATGTATTTAT
183358 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* *
183423 TTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTAG-TAATAATCATTATAAAAATGATTTAATAA
183482 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
183547 TTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAA
66 TTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAA
183606 T
1 T
183607 GATTTAAATA
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
124 121 0.99
125 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.43
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAA
Found at i:183541 original size:98 final size:98
Alignment explanation
Indices: 183439--183670 Score: 455
Period size: 98 Copynumber: 2.4 Consensus size: 98
183429 ATAATCATTA
183439 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
183504 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
*
183537 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
183602 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
183635 TAGTAATGATTTGATAATAATCATTATAATAATGAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGAT
183671 AAATAATTTG
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 132 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (98 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
ATAATGATTTAAATATTTAATGATTTGATGATT
Found at i:185089 original size:45 final size:47
Alignment explanation
Indices: 185014--185102 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 47
185004 TTCAACAACA
*
185014 ATATAACTTAACTATTTAACTAACACAACTAATTAATAATTTTTTTT
1 ATATAACTTAACTATTTAACAAACACAACTAATTAATAATTTTTTTT
*
185061 ATATAAC-TAACTA-TTAACAATACA-AACTAATTAATTATTTTT
1 ATATAACTTAACTATTTAACAA-ACACAACTAATTAATAATTTTT
185103 AACTATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 23 0.59
46 9 0.23
47 7 0.18
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (47 bp):
ATATAACTTAACTATTTAACAAACACAACTAATTAATAATTTTTTTT
Found at i:185110 original size:46 final size:46
Alignment explanation
Indices: 185014--185115 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 46
185004 TTCAACAACA
* **
185014 ATATAACTTAACTATTTAACTAACACAACTAATTAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACAAACACAACTAATTAATAATTTTTACT
*
185061 ATATAACTAACTA-TTAACAATACA-AACTAATTAATTATTTTTAACT
1 ATATAACTAACTATTTAACAA-ACACAACTAATTAATAATTTTT-ACT
185107 ATATAACTA
1 ATATAACTA
185116 TCAAACATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 23 0.47
46 19 0.39
47 7 0.14
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (46 bp):
ATATAACTAACTATTTAACAAACACAACTAATTAATAATTTTTACT
Found at i:185171 original size:41 final size:39
Alignment explanation
Indices: 185040--185171 Score: 88
Period size: 41 Copynumber: 3.2 Consensus size: 39
185030 TAACTAACAC
* *
185040 AACTAATTAATAATTTTTTTTA-TATAACTAACTATTAACAATACA
1 AACTAATTAATAA--TTTTTAACTAT-A-TAACTATAAAC-AT--A
*
185085 AACTAATTAATTATTTTTAACTATATAACTATCAAACATA
1 AACTAATTAATAATTTTTAACTATATAACTAT-AAACATA
* * * *
185125 TACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTTA
1 AACTAATT-AATAATTTTTAA-CTATATA-ACTATAAACATA
185166 AACTAA
1 AACTAA
185172 CAATCATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
40 8 0.11
41 21 0.29
42 14 0.19
43 15 0.21
44 3 0.04
45 12 0.16
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (39 bp):
AACTAATTAATAATTTTTAACTATATAACTATAAACATA
Found at i:185336 original size:21 final size:21
Alignment explanation
Indices: 185306--185364 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
185296 CCCTTTCTTC
185306 TTCTTACTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
185327 TTCTTCCTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
185348 TTCTTTCTTT-CTTTCTC
1 TTCTTACTTTCCTTTCTC
185365 GGCTGCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTTACTTTCCTTTCTCCCT
Found at i:185397 original size:23 final size:23
Alignment explanation
Indices: 185367--185412 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
185357 TCTTTCTCGG
185367 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
185390 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
185413 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:185525 original size:18 final size:18
Alignment explanation
Indices: 185502--185536 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
185492 GTACCAATAA
185502 TCAAATGGTTCACATGCC
1 TCAAATGGTTCACATGCC
185520 TCAAATGGTTCACATGC
1 TCAAATGGTTCACATGC
185537 ATGCATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TCAAATGGTTCACATGCC
Found at i:185588 original size:36 final size:37
Alignment explanation
Indices: 185541--185614 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
185531 ACATGCATGC
185541 ATTGGGAGGTGTAGGC-ATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
185577 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
185614 A
1 A
185615 GGAATCTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
Found at i:191737 original size:11 final size:12
Alignment explanation
Indices: 191721--191749 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
191711 CCAACTTTAA
191721 TATTAT-GATTT
1 TATTATGGATTT
191732 TATTATGGATTT
1 TATTATGGATTT
191744 TATTAT
1 TATTAT
191750 TCTAGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:191988 original size:18 final size:18
Alignment explanation
Indices: 191961--191995 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
191951 ATTGCCGTTT
*
191961 CCCGTCCCCGTATCCGTC
1 CCCGTACCCGTATCCGTC
191979 CCCGTACCCGTATCCGT
1 CCCGTACCCGTATCCGT
191996 GCAACATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.51, G:0.17, T:0.23
Consensus pattern (18 bp):
CCCGTACCCGTATCCGTC
Found at i:195298 original size:2 final size:2
Alignment explanation
Indices: 195291--195323 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
195281 CCTTACCTCT
195291 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 T
195324 GGGGTTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.