Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000444.1 Hibiscus syriacus cultivar Beakdansim tig00000810_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: 122641
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:293 original size:59 final size:60
Alignment explanation
Indices: 178--298 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 60
168 GTACGCGAAC
* * *
178 TCCAATTTCGCAACACAGTTTCTAATTCGCAACTCATTTCTGCAATCGCAATCGCG-ATT
1 TCCAAATTCGCAACACAATTTCTAATTCACAACTCATTTCTGCAATCGCAATCGCGAATT
237 TCCAAATTCGCAACACGAAATTTC-AATTCAC-ACTCGATTTCTG-AATTCGCAA-CGCGAATT
1 TCCAAATTCGCAACAC--AATTTCTAATTCACAACTC-ATTTCTGCAA-TCGCAATCGCGAATT
297 TC
1 TC
299 TTTTTCGCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
59 25 0.46
60 24 0.44
61 5 0.09
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (60 bp):
TCCAAATTCGCAACACAATTTCTAATTCACAACTCATTTCTGCAATCGCAATCGCGAATT
Found at i:298 original size:21 final size:19
Alignment explanation
Indices: 196--309 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 19
186 CGCAACACAG
*
196 TTTCTAATTCGCAACTC-A
1 TTTCTAATTCGCAACGCGA
214 TTTCTGCAA-TCGCAATCGCGA
1 TTTCT--AATTCGCAA-CGCGA
* *
235 TTTCCAAATTCGCAACACGAAA
1 TTT-CTAATTCGCAACGCG--A
* *
257 TTTC-AATTCAC-ACTCGA
1 TTTCTAATTCGCAACGCGA
274 TTTCTGAATTCGCAACGCGAA
1 TTTCT-AATTCGCAACGCG-A
**
295 TTTCTTTTTCGCAAC
1 TTTCTAATTCGCAAC
310 ACAAATTCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
17 5 0.07
18 5 0.07
19 16 0.21
20 27 0.36
21 17 0.23
22 5 0.07
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.33
Consensus pattern (19 bp):
TTTCTAATTCGCAACGCGA
Found at i:325 original size:39 final size:39
Alignment explanation
Indices: 282--395 Score: 129
Period size: 40 Copynumber: 2.9 Consensus size: 39
272 GATTTCTGAA
* * **
282 TTCGCAACGCGAATTTCTTTTTCGCAACACAAATTCCTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTCCTT
* * **
321 TTCGCAACAAGATTTTCTAAATCGCAACACAAATTTTGTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAA-TTCCTT
* *
361 TTCGCAACTCGATTTTCGAATTCGCAACACAAATT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATT
396 TTAATTCGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
39 29 0.47
40 33 0.53
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (39 bp):
TTCGCAACACGATTTTCTAATTCGCAACACAAATTCCTT
Found at i:365 original size:20 final size:19
Alignment explanation
Indices: 282--436 Score: 77
Period size: 20 Copynumber: 7.9 Consensus size: 19
272 GATTTCTGAA
* *
282 TTCGCAACGCGAATTTCTTT
1 TTCGCAACACAAATTT-TTT
**
302 TTCGCAACACAAATTCCTT
1 TTCGCAACACAAATTTTTT
* *
321 TTCGCAACA-AGATTTTCTAA
1 TTCGCAACACAAATTTT-T-T
*
341 ATCGCAACACAAATTTTGTT
1 TTCGCAACACAAATTTT-TT
* * **
361 TTCGCAACTC-GATTTTCGAA
1 TTCGCAACACAAATTTT--TT
**
381 TTCGCAACACAAATTTTAA
1 TTCGCAACACAAATTTTTT
400 TTCGCAACAGC---TTTTATT
1 TTCGCAACA-CAAATTTT-TT
418 TTCGCAACACAAATGTTTT
1 TTCGCAACACAAAT-TTTT
437 GGGTATAAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
17 5 0.05
18 13 0.13
19 28 0.27
20 42 0.41
21 15 0.15
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (19 bp):
TTCGCAACACAAATTTTTT
Found at i:581 original size:14 final size:15
Alignment explanation
Indices: 562--599 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
552 TCCCCATCTC
562 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
576 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
592 TAATTTTT
1 TAATTTTT
600 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:1385 original size:24 final size:24
Alignment explanation
Indices: 1340--1385 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1330 TATTCGAAAT
* *
1340 TTGATCTTGGTTAATTCCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
1364 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
1386 TTTTGATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:1391 original size:24 final size:24
Alignment explanation
Indices: 1339--1392 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1329 GTATTCGAAA
* *
1339 TTTGATCTTGGTTAATTCCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
1363 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1387 TTTGAT
1 TTTGAT
1393 GTTCAGAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:3623 original size:18 final size:18
Alignment explanation
Indices: 3600--3635 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3590 AAGCAAAAGG
*
3600 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
3618 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
3636 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:3995 original size:20 final size:20
Alignment explanation
Indices: 3970--4032 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
3960 TTCGCAACGC
*
3970 GAATTTGACTTCCGCGTTGT
1 GAATTTGACTTTCGCGTTGT
3990 GAATTTGACTTTCGCGTTGT
1 GAATTTGACTTTCGCGTTGT
* * *
4010 AAATTTGATTTTCGTGTTGT
1 GAATTTGACTTTCGCGTTGT
4030 GAA
1 GAA
4033 AGTGTACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGT
Found at i:5560 original size:42 final size:42
Alignment explanation
Indices: 5497--5586 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
5487 AATCGGGCTC
* * *
5497 TTGAATGGTGGGAGTGACCTCTTGCACGATGAGAGGGGCCTA
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
* * *
5539 TTGAACGGTGGGAGAGGCCTCTTGAACGATGAGAGGGTCCTC
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
5581 TTGAAC
1 TTGAAC
5587 AATAGGAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (42 bp):
TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
Found at i:5563 original size:21 final size:20
Alignment explanation
Indices: 5514--5586 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
5504 GTGGGAGTGA
*
5514 CCTCTTGCACGATGAGAGGGG
1 CCTCTTGAACGATGAGA-GGG
* * *
5535 CCTATTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAG-GG
5556 CCTCTTGAACGATGAGAGGG
1 CCTCTTGAACGATGAGAGGG
5576 TCCTCTTGAAC
1 -CCTCTTGAAC
5587 AATAGGAGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.07
21 40 0.93
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (20 bp):
CCTCTTGAACGATGAGAGGG
Found at i:5606 original size:42 final size:42
Alignment explanation
Indices: 5522--5612 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
5512 GACCTCTTGC
** * * *
5522 ACGATGAGAGGGGCCTATTGAACGGTGGGAGAGGCCTCTTGA
1 ACGATGAGAGGGGCCTATTGAACAATAGGAGAGGCATATTGA
* * *
5564 ACGATGAGAGGGTCCTCTTGAACAATAGGAGGGGCATATTGA
1 ACGATGAGAGGGGCCTATTGAACAATAGGAGAGGCATATTGA
5606 ACGATGA
1 ACGATGA
5613 CAGGTGAATC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.36, T:0.20
Consensus pattern (42 bp):
ACGATGAGAGGGGCCTATTGAACAATAGGAGAGGCATATTGA
Found at i:5910 original size:21 final size:21
Alignment explanation
Indices: 5886--5927 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5876 ATGAACAATC
*
5886 TCACGTAGAGT-GACTACCTCA
1 TCACGTAAAGTAGA-TACCTCA
5907 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGTAGATACCTCA
5928 CCACATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGTAGATACCTCA
Found at i:6034 original size:21 final size:21
Alignment explanation
Indices: 5962--6059 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
5952 TAAAACATCT
*
5962 ACCTCACCACGTAAAG-ACCG
1 ACCTCATCACGTAAAGCACCG
** *
5982 TACCTCATCACGCCAAGCA-CT
1 -ACCTCATCACGTAAAGCACCG
** * *
6003 ATTATCGTCACGTAAAGTACCG
1 A-CCTCATCACGTAAAGCACCG
*
6025 ACCTCATCACGTAAAGCACTG
1 ACCTCATCACGTAAAGCACCG
6046 ACCTCATCACGTAA
1 ACCTCATCACGTAA
6060 CTCCCCTAAC
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 54 0.93
22 3 0.05
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.19
Consensus pattern (21 bp):
ACCTCATCACGTAAAGCACCG
Found at i:6056 original size:42 final size:41
Alignment explanation
Indices: 5960--6059 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
5950 CGTAAAACAT
* *
5960 CTACCTCACCACGTAAAGACCGTACCTCATCACGCCAAGCA
1 CTACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCA
** * *
6001 CTATTATCGTCACGTAAAGTACCG-ACCTCATCACGTAAAGCA
1 CTA-CCTCATCACGTAAAG-ACCGTACCTCATCACGCAAAGCA
6043 CTGACCTCATCACGTAA
1 CT-ACCTCATCACGTAA
6060 CTCCCCTAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.06
42 39 0.83
43 5 0.11
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (41 bp):
CTACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCA
Found at i:6806 original size:20 final size:20
Alignment explanation
Indices: 6781--6824 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6771 TGTTCCATGC
*
6781 ATTTGACTTCCGCGCTGCGA
1 ATTTGACTTCCACGCTGCGA
* *
6801 ATTTGACTTTCACGTTGCGA
1 ATTTGACTTCCACGCTGCGA
6821 ATTT
1 ATTT
6825 TATTATCGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTTGACTTCCACGCTGCGA
Found at i:6874 original size:20 final size:20
Alignment explanation
Indices: 6849--6888 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6839 GAAAATCGTA
6849 ATGCAAATTTAACTTTCGCG
1 ATGCAAATTTAACTTTCGCG
* *
6869 ATGCAAATTTGATTTTCGCG
1 ATGCAAATTTAACTTTCGCG
6889 TTGCGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGCAAATTTAACTTTCGCG
Found at i:8384 original size:21 final size:21
Alignment explanation
Indices: 8358--8470 Score: 118
Period size: 21 Copynumber: 5.4 Consensus size: 21
8348 GTGAATCGGG
* *
8358 CTCTTGAACGGTGGGAGTGAC
1 CTCTTGAACGGTGGGAGGGGC
* *
8379 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
8400 CTCTTGAACGGTAGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
* * *
8421 CTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
** *
8442 CTCTTGAACAATAGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
8463 CTATTGAA
1 CTCTTGAA
8471 TGATGATAGG
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:8424 original size:42 final size:42
Alignment explanation
Indices: 8358--8476 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
8348 GTGAATCGGG
* * * *
8358 CTCTTGAACGGTGGGAGTGACCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAATGATGAGAGGGGC
8400 CTCTTGAACGGTAGGAGGGGCCTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAATGATGAGAGGGGC
** *
8442 CTCTTGAACAATAGGAGGGGCCTATTGAATGATGA
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAATGATGA
8477 TAGGTAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGGGGCCTCTTGAATGATGAGAGGGGC
Found at i:8914 original size:21 final size:21
Alignment explanation
Indices: 8890--8930 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8880 GTCGTCATGT
*
8890 AAAGTACCGACCTCATCACGC
1 AAAGCACCGACCTCATCACGC
*
8911 AAAGCACTGACCTCATCACG
1 AAAGCACCGACCTCATCACG
8931 TAACTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACGC
Found at i:10500 original size:20 final size:20
Alignment explanation
Indices: 10471--10529 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
10461 TCGCGTTGCA
*
10471 ATTTTTGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
* *
10491 ATTTTCGTGTTACAAATTTC
1 ATTTTCGTGTTGCGAATTTC
*
10511 ATTTTCGTGTTGTGAATTT
1 ATTTTCGTGTTGCGAATTT
10530 AAGTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:10904 original size:22 final size:22
Alignment explanation
Indices: 10874--10924 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10864 ATAGAGGGGG
* *
10874 GTCGTCGGATATGAGGACAGAT
1 GTCGCCGGAGATGAGGACAGAT
* *
10896 TTCGCCGGAGATGGGGACAGAT
1 GTCGCCGGAGATGAGGACAGAT
10918 GTCGCCG
1 GTCGCCG
10925 TAGAGAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.20
Consensus pattern (22 bp):
GTCGCCGGAGATGAGGACAGAT
Found at i:11094 original size:19 final size:19
Alignment explanation
Indices: 11052--11099 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
11042 TAAACGTGCT
11052 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTA-GTG
11072 TTGCGAATTTGACTCTA-TG
1 TTGCGAATTTGACT-TAGTG
11091 TTGCGAATT
1 TTGCGAATT
11100 ACAAATTCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.41
20 14 0.52
21 2 0.07
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGCGAATTTGACTTAGTG
Found at i:11115 original size:20 final size:21
Alignment explanation
Indices: 11090--11142 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
11080 TTGACTCTAT
11090 GTTGCGAATTACAAA-TTCGC
1 GTTGCGAATTACAAATTTCGC
* * *
11110 GTTGCGATTTACAAATTTTGT
1 GTTGCGAATTACAAATTTCGC
11131 GTTGCGAATTAC
1 GTTGCGAATTAC
11143 TTGTTGGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (21 bp):
GTTGCGAATTACAAATTTCGC
Found at i:30702 original size:21 final size:21
Alignment explanation
Indices: 30676--30715 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30666 CCCCCTTTGA
*
30676 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
30697 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
30716 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:34241 original size:15 final size:15
Alignment explanation
Indices: 34217--34249 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34207 GATTTGAAGA
34217 TTTAATTAATTTTAAT
1 TTTAATTAATTTT-AT
34233 TTTAA-TAATTTTAT
1 TTTAATTAATTTTAT
34247 TTT
1 TTT
34250 GCACCAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTAATTTTAT
Found at i:34313 original size:19 final size:19
Alignment explanation
Indices: 34289--34326 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34279 GTCCACCTTT
34289 GGTGGAAAGAAAATTAAAA
1 GGTGGAAAGAAAATTAAAA
34308 GGTGGAAAGAAAATTAAAA
1 GGTGGAAAGAAAATTAAAA
34327 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (19 bp):
GGTGGAAAGAAAATTAAAA
Found at i:34526 original size:18 final size:18
Alignment explanation
Indices: 34484--34533 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
34474 TATTTTATAT
* **
34484 ATCTTAACTTAAATTCGC
1 ATCTTAAATTAAATTAAC
*
34502 ATATTAAATTAAATTAAC
1 ATCTTAAATTAAATTAAC
34520 ATCTTAACATTAAA
1 ATCTTAA-ATTAAA
34534 AATATATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (18 bp):
ATCTTAAATTAAATTAAC
Found at i:34577 original size:29 final size:29
Alignment explanation
Indices: 34523--34605 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
34513 AATTAACATC
34523 TTAACATTAAAAATATATATTATATTCTAATA
1 TTAAC-TTAAAAATATAT-TT-TATTCTAATA
* * *
34555 TTAACTTAAAAATCTATTTTATTCTTATT
1 TTAACTTAAAAATATATTTTATTCTAATA
34584 TTAACTTAAAAATAT-TTTTATT
1 TTAACTTAAAAATATATTTTATT
34606 AACTTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.15
29 22 0.47
30 2 0.04
31 11 0.23
32 5 0.11
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTATTCTAATA
Found at i:34623 original size:20 final size:20
Alignment explanation
Indices: 34584--34625 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34574 TATTCTTATT
*
34584 TTAACTTAAAAATATTTTTA
1 TTAACTTAAAAATATATTTA
34604 TTAACTTAAAAA-ATAATTTA
1 TTAACTTAAAAATAT-ATTTA
34624 TT
1 TT
34626 CTCACATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAACTTAAAAATATATTTA
Found at i:34692 original size:26 final size:26
Alignment explanation
Indices: 34663--34797 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 26
34653 TATTCTTATA
34663 ATATTTTAAAATAAAAATAAAAATAT
1 ATATTTTAAAATAAAAATAAAAATAT
* *
34689 ATATTTTTAAATTAAAAAAATAAAATAT
1 ATA-TTTTAAAATAAAAATA-AAAATAT
* *
34717 AT-TTTTAAATTAAAACAAAAACAAAATAT
1 ATATTTTAAA--ATAA-AAATA-AAAATAT
* * *
34746 ACATTTTTAAATTAAAATAAAAATAT
1 ATATTTTAAAATAAAAATAAAAATAT
* ** *
34772 ACATTTTTAAGTTAAAAATAAGAATA
1 ATA-TTTTAAAATAAAAATAAAAATA
34798 AAATATATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
26 20 0.23
27 35 0.40
28 13 0.15
29 13 0.15
30 6 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (26 bp):
ATATTTTAAAATAAAAATAAAAATAT
Found at i:34737 original size:31 final size:30
Alignment explanation
Indices: 34702--34810 Score: 102
Period size: 31 Copynumber: 3.7 Consensus size: 30
34692 TTTTTAAATT
*
34702 AAAAAAATAAAATATATTTTTAAATTAAAA
1 AAAAAAATAAAATACATTTTTAAATTAAAA
*
34732 CAAAAACAA-AATATACATTTTTAAATT-AAA
1 -AAAAA-AATAAAATACATTTTTAAATTAAAA
* *
34762 ATAAAAAT---ATACATTTTTAAGTTAAAA
1 AAAAAAATAAAATACATTTTTAAATTAAAA
* * *
34789 ATAAGAATAAAATATATTTTTA
1 AAAAAAATAAAATACATTTTTA
34811 TGTTAAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
26 14 0.21
27 10 0.15
28 2 0.03
29 4 0.06
30 13 0.20
31 21 0.32
32 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAAAATAAAATACATTTTTAAATTAAAA
Found at i:34756 original size:57 final size:58
Alignment explanation
Indices: 34668--34821 Score: 167
Period size: 57 Copynumber: 2.7 Consensus size: 58
34658 TTATAATATT
* * *
34668 TTAAAATAAAAATAAAAATATATATTTTTAAATTAAAA-AAATAAAATATATTTTTAAA
1 TTAAAACAAAAATAAAAATATACATTTTTAAATTAAAATAAA-AAAATACATTTTTAAA
* * *
34726 TTAAAACAAAAA-CAAAATATACATTTTTAAATTAAAATAAAAATATACATTTTTAAG
1 TTAAAACAAAAATAAAAATATACATTTTTAAATTAAAATAAAAAAATACATTTTTAAA
**
34783 TTAAAA-ATAAGAAT-AAAATAT--ATTTTTATGTTAAAATAA
1 TTAAAACA-AA-AATAAAAATATACATTTTTAAATTAAAATAA
34822 GGATAAATTA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
56 17 0.20
57 44 0.52
58 23 0.27
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (58 bp):
TTAAAACAAAAATAAAAATATACATTTTTAAATTAAAATAAAAAAATACATTTTTAAA
Found at i:34810 original size:30 final size:29
Alignment explanation
Indices: 34668--35067 Score: 222
Period size: 30 Copynumber: 13.6 Consensus size: 29
34658 TTATAATATT
* *
34668 TTAAAATAAAAATAAAAATATATATTTTTAAA
1 TTAAAATAAGAAT--AAA-ATATATTTTTAAG
*
34700 TT-AAA-AA-AATAAAATATATTTTTAAA
1 TTAAAATAAGAATAAAATATATTTTTAAG
* * * *
34726 TTAAAACAAAAACAAAATATACATTTTTAAA
1 TTAAAATAAGAATAAAATAT--ATTTTTAAG
* *
34757 TTAAAAT-A-AA-AATATACATTTTTAAG
1 TTAAAATAAGAATAAAATATATTTTTAAG
*
34783 TTAAAAATAAGAATAAAATATATTTTTATG
1 TT-AAAATAAGAATAAAATATATTTTTAAG
* * * *
34813 TTAAAATAAGGATAAATTATATTTAATAAT
1 TTAAAATAAGAATAAAATATATTT-TTAAG
** * * * *
34843 TTAATGTAAGACTATAATATATTTAATAAT
1 TTAAAATAAGAATAAAATATATTT-TTAAG
** * * **
34873 TTAAGTTAAGAATATATTATATGTAATAAG
1 TTAAAATAAGAATAAAATATAT-TTTTAAG
* * * *
34903 TTAAAATAAAAAATAAGATATACTTTTAAAAT
1 TTAAAAT-AAGAATAAAATATA-TTTT-TAAG
* *
34935 TTAAGATAAAAAGTAAAATATATTTTTAAG
1 TTAAAATAAGAA-TAAAATATATTTTTAAG
*** * *
34965 TTTTGATAAGATTGAAATATA-TTTTAAG
1 TTAAAATAAGAATAAAATATATTTTTAAG
* * *
34993 TTGAAATAAAAATAAAATATATTTTTAGG
1 TTAAAATAAGAATAAAATATATTTTTAAG
* * * *
35022 TTAATACAAGAATAAAATATATTTAATAAT
1 TTAAAATAAGAATAAAATATATTT-TTAAG
35052 TTAAAATAA-AATAAAA
1 TTAAAATAAGAATAAAA
35068 AACATTTAAT
Statistics
Matches: 291, Mismatches: 60, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
26 25 0.09
27 11 0.04
28 30 0.10
29 77 0.26
30 90 0.31
31 39 0.13
32 19 0.07
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (29 bp):
TTAAAATAAGAATAAAATATATTTTTAAG
Found at i:35040 original size:57 final size:58
Alignment explanation
Indices: 34704--35067 Score: 166
Period size: 57 Copynumber: 6.2 Consensus size: 58
34694 TTTAAATTAA
* ** * * * *
34704 AAAAATAAAATATATTTTTAAATTAAAACAAAAACAAAATATACATTTTTAAATTAAAAT
1 AAAAATAAAATATATTTTTAAGTTATGACAAGAATAAAATAT--ATTTATAAGTTAAAAT
* ** * * *
34764 AAAAAT---ATACATTTTTAAGTTAAAAATAAGAATAAAATATATTTTTATGTTAAAAT
1 AAAAATAAAATATATTTTTAAGTT-ATGACAAGAATAAAATATATTTATAAGTTAAAAT
** * * * * * * * **
34820 AAGGATAAATTATATTTAATAATTTAATG-TAAGACTATAATATATTTAATAATTTAAGTT
1 AAAAATAAAATATATTT-TTAAGTT-ATGACAAGAATAAAATATATTT-ATAAGTTAAAAT
* * * ** ** * * * * * *
34880 AAGAATATATTATATGTAATAAGTTAAAATAAAAAATAAGATATACTTTTAAAATTTAAGAT
1 AAAAATAAAATATAT-TTTTAAGTTATGA-CAAGAATAAAATATA--TTTATAAGTTAAAAT
* * * * *
34942 AAAAAGTAAAATATATTTTTAAGTTTTGATAAGATTGAAATATATTT-TAAGTTGAAAT
1 AAAAA-TAAAATATATTTTTAAGTTATGACAAGAATAAAATATATTTATAAGTTAAAAT
* *
35000 AAAAATAAAATATATTTTTAGGTTAAT-ACAAGAATAAAATATATTTAATAATTTAAAAT
1 AAAAATAAAATATATTTTTAAGTT-ATGACAAGAATAAAATATATTT-ATAAGTTAAAAT
35059 -AAAATAAAA
1 AAAAATAAAA
35068 AACATTTAAT
Statistics
Matches: 230, Mismatches: 59, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
56 18 0.08
57 47 0.20
58 37 0.16
59 35 0.15
60 39 0.17
61 21 0.09
62 22 0.10
63 11 0.05
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (58 bp):
AAAAATAAAATATATTTTTAAGTTATGACAAGAATAAAATATATTTATAAGTTAAAAT
Found at i:35316 original size:9 final size:9
Alignment explanation
Indices: 35299--35329 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35289 CTTATTTGAA
*
35299 TATTAAATT
1 TATTTAATT
35308 TATTTAATT
1 TATTTAATT
35317 TATTTAATT
1 TATTTAATT
35326 TATT
1 TATT
35330 AAAATTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATTTAATT
Found at i:35625 original size:20 final size:20
Alignment explanation
Indices: 35602--35639 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35592 GTATTAATTC
35602 TATTGTCAT-TCTATTTTTGA
1 TATTG-CATCTCTATTTTTGA
35622 TATTGCATCTCTATTTTT
1 TATTGCATCTCTATTTTT
35640 CTTTTCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (20 bp):
TATTGCATCTCTATTTTTGA
Found at i:39516 original size:37 final size:36
Alignment explanation
Indices: 39440--39516 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
39430 TTTTTATATT
*
39440 TTTAATTTTGTAAAAAAATTTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAA-TTATATAAATATTATCAA
* *
39477 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
39514 TTT
1 TTT
39517 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 18 0.51
38 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:39679 original size:18 final size:19
Alignment explanation
Indices: 39656--39692 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
39646 CCAGTAATCC
39656 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
39674 TATTCCTACTGGTAATCTT
1 TATTCC-ACTGGTAATCTT
39693 ACATTCCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:39698 original size:20 final size:20
Alignment explanation
Indices: 39662--39699 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39652 ATCCTATTCC
**
39662 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTACATTCCTA
39682 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
39700 GTAAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTA
Found at i:39930 original size:12 final size:12
Alignment explanation
Indices: 39913--39937 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39903 TGATAGAAAA
39913 AAATAATATTTT
1 AAATAATATTTT
39925 AAATAATATTTT
1 AAATAATATTTT
39937 A
1 A
39938 TCAAAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:44545 original size:30 final size:30
Alignment explanation
Indices: 44511--44583 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
44501 CCCGAAGGAC
*
44511 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
*
44541 CTATCTAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
* *
44571 CTGTCCATAGGTC
1 CTATCCAGAGGTC
44584 CCGAAGAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCAGTAA
Found at i:49594 original size:30 final size:30
Alignment explanation
Indices: 49560--49632 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
49550 CCCGAATGAC
*
49560 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
49590 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
* *
49620 CTGTCCATAGGTC
1 CTATCCAAAGGTC
49633 CCAAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAAAGGTCATAAAGATCCTCGGTAA
Found at i:49639 original size:30 final size:30
Alignment explanation
Indices: 49563--49659 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
49553 GAATGACCTA
* * *
49563 TCCAGAGGTCATAAAGATCCTCGGTAACTA
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* *
49593 TCCAAAGGTCATAAAGATCCTCGGTAACTG
1 TCCATAGGTCACAAAGATCCTCGGTAACTG
* * *
49623 TCCATAGGTCCCAAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGATCCTCGGT-AACTG
49654 TCCATA
1 TCCATA
49660 TGTTCCTTAG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 48 0.81
31 11 0.19
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
TCCATAGGTCACAAAGATCCTCGGTAACTG
Found at i:49656 original size:31 final size:31
Alignment explanation
Indices: 49605--49682 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
49595 CAAAGGTCAT
* *
49605 AAAGATCCTCGGT-AACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
* *
49635 AAAGAACCTAGGTAAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
** *
49666 TTAGAACATAGGTAAAC
1 AAAGAACCTAGGTAAAC
49683 CCTCGACTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 11 0.28
31 29 0.73
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (31 bp):
AAAGAACCTAGGTAAACTGTCCATAGGTCCC
Found at i:51011 original size:7 final size:7
Alignment explanation
Indices: 50994--51023 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50984 TTCACGTATG
50994 AAGAA-A
1 AAGAAGA
51000 AAGAAGA
1 AAGAAGA
51007 AAGAAGA
1 AAGAAGA
51014 AAGAAGA
1 AAGAAGA
51021 AAG
1 AAG
51024 CTCTGGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:54807 original size:19 final size:19
Alignment explanation
Indices: 54783--54830 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
54773 CATTGATTGT
54783 CAAGTGCTCCATAGGTCGC
1 CAAGTGCTCCATAGGTCGC
54802 CAAGTGCTCCATAGGTCGC
1 CAAGTGCTCCATAGGTCGC
54821 CAAGTGCTCC
1 CAAGTGCTCC
54831 TTGTGACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (19 bp):
CAAGTGCTCCATAGGTCGC
Found at i:56075 original size:20 final size:21
Alignment explanation
Indices: 56036--56078 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
56026 TCCACAGTGA
* *
56036 AAAAAGTATGGACACTTTTAT
1 AAAAAGGATAGACACTTTTAT
56057 AAAAAGGATAGACAC-TTTAT
1 AAAAAGGATAGACACTTTTAT
56077 AA
1 AA
56079 TATAACCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (21 bp):
AAAAAGGATAGACACTTTTAT
Found at i:56105 original size:23 final size:23
Alignment explanation
Indices: 56078--56150 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
56068 ACACTTTATA
56078 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
56101 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
56124 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
56147 ATAT
1 ATAT
56151 TTTTATCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 37 0.86
24 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:56202 original size:22 final size:22
Alignment explanation
Indices: 56168--56212 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56158 TATTATATTG
* *
56168 AAAGTATCTATACTT-TTTATAA
1 AAAGGATCGATACTTCTTT-TAA
56190 AAAGGATCGATACTTCTTTTAA
1 AAAGGATCGATACTTCTTTTAA
56212 A
1 A
56213 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAGGATCGATACTTCTTTTAA
Found at i:56350 original size:29 final size:29
Alignment explanation
Indices: 56296--56361 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
56286 TCATTTGCAC
* *
56296 AAAAAATTATTTGATTTTTGATATTTTAT
1 AAAATATTATTTGATTTTTGATATTTAAT
56325 AAAATATTATTTAGAATTTTT-A-ATTTAAT
1 AAAATATTATTT-G-ATTTTTGATATTTAAT
56354 AATAATAT
1 AA-AATAT
56362 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 19 0.59
30 7 0.22
31 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTGATTTTTGATATTTAAT
Found at i:56531 original size:23 final size:23
Alignment explanation
Indices: 56505--56577 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
56495 ACACTTTACA
56505 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
56528 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * * *
56551 ATATAAGCGCTACATATTACATC
1 ATATAACCACTACCTATTACATT
56574 ATAT
1 ATAT
56578 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.86
24 4 0.10
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:56548 original size:44 final size:45
Alignment explanation
Indices: 56482--56577 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 45
56472 ATGGACACTT
* * *
56482 TTATAAAAAGGATACACTTTACA-ATATAACCACTACCTATTACA
1 TTATATAAACGATACACTTTACATATATAACCACTACATATTACA
* *
56526 TTATATAAACGATAC-CTATTACATTATATAAGCGCTACATATTACA
1 TTATATAAACGATACACT-TTACA-TATATAACCACTACATATTACA
*
56572 TCATAT
1 TTATAT
56578 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 2 0.05
44 18 0.42
46 23 0.53
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (45 bp):
TTATATAAACGATACACTTTACATATATAACCACTACATATTACA
Found at i:56777 original size:29 final size:29
Alignment explanation
Indices: 56723--56788 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
56713 TCATTTGCAC
* *
56723 AAAAAATTATTTGATTTTTGATATTTTAT
1 AAAATATTATTTGATTTTTGATATTTAAT
56752 AAAATATTATTTAGAATTTTT-A-ATTTAAT
1 AAAATATTATTT-G-ATTTTTGATATTTAAT
56781 AATAATAT
1 AA-AATAT
56789 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 19 0.59
30 7 0.22
31 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTGATTTTTGATATTTAAT
Found at i:56959 original size:21 final size:22
Alignment explanation
Indices: 56934--56985 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
56924 ACACTTTACA
*
56934 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
56957 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
56980 ATATAA
1 ATATAA
56986 GTGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:56970 original size:23 final size:23
Alignment explanation
Indices: 56944--57006 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
56934 ATATAACCAC
56944 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
56967 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAACGA
*
56990 TACCTATTACATCATAT
1 TACCTATTACATTATAT
57007 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:57245 original size:429 final size:429
Alignment explanation
Indices: 55728--57638 Score: 3618
Period size: 429 Copynumber: 4.5 Consensus size: 429
55718 ACCTATTACA
55728 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
55793 AATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
55857 TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
131 TTCATTTGCACAAAAAATTATTTGATT-TTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
55922 TTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
195 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
55985 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
260 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
*
56050 CTTTTATAAAAAGGATAGACACTTTATAATATAACCACTACCTATTACATTATATAAACGATACC
325 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
56115 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
390 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
* * *
56155 ATCTATTATATTGAAAGTATCTATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
56220 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
56285 TTCATTTGCACAAAAAATTATTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
131 TTCATTTGCACAAAAAATTATTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
56350 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
196 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
*
56415 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATGGACAC
261 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
56480 TTTTATAAAAAGGAT--ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
326 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
*
56543 ATTACATTATATAAGCGCTACATATTACATCATATTTTT
391 ATTACATTATATAAGCGCTACCTATTACATCATATTTTT
*
56582 ACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
56647 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
56712 TTCATTTGCACAAAAAATTATTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
131 TTCATTTGCACAAAAAATTATTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
*
56777 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATA
196 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
56842 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
261 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
56907 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
326 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
*
56972 ATTACATTATATAAGTGCTACCTATTACATCATATTTTT
391 ATTACATTATATAAGCGCTACCTATTACATCATATTTTT
*
57011 ACCTATTATAATGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
57076 AATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
57140 TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
131 TTCATTTGCACAAAAAATTATTTGATT-TTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
*
57205 TTAATAATAATATATATTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
195 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
* *
57270 ATCTTAAAACTCACTTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACA
260 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
57335 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
325 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
57400 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
390 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
57440 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
* *
57505 AATTTGTGTTTCAATTTTTTTTAATAGTGTTTCGTGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
57570 TTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
131 TTCATTTGCACAAAAAATTATTTGA-TTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
57635 TTAA
195 TTAA
57639 CAACATTAAC
Statistics
Matches: 1454, Mismatches: 22, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
427 542 0.37
428 155 0.11
429 640 0.44
430 115 0.08
431 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (429 bp):
ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
TTCATTTGCACAAAAAATTATTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
ATTACATTATATAAGCGCTACCTATTACATCATATTTTT
Found at i:57399 original size:23 final size:23
Alignment explanation
Indices: 57373--57435 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
57363 ATATAACCAC
57373 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
57396 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
57419 TACCTATTACATCATAT
1 TACCTATTACATTATAT
57436 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:57912 original size:39 final size:39
Alignment explanation
Indices: 57858--57943 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
57848 CAACTTGTAG
*
57858 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
57897 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
57936 ATTTTGAT
1 ATTTTGAT
57944 GAGCATCAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:58225 original size:18 final size:18
Alignment explanation
Indices: 58202--58238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58192 CGAAATATAT
58202 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
58220 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
58238 A
1 A
58239 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:58702 original size:23 final size:23
Alignment explanation
Indices: 58676--58738 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
58666 ATATAACCAC
58676 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
58699 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
58722 TACCTATTACATCATAT
1 TACCTATTACATTATAT
58739 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:62300 original size:183 final size:183
Alignment explanation
Indices: 61594--62267 Score: 1192
Period size: 183 Copynumber: 3.7 Consensus size: 183
61584 TTAAAATTAC
* *
61594 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
61659 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
61724 ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
*
61777 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
61842 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA-TTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
61906 ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
*
61959 CGATAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
62023 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * *
62088 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
* *
62141 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
*
62205 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
62268 ATAGCATTGC
Statistics
Matches: 475, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
181 110 0.23
182 136 0.29
183 226 0.48
184 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATCTGGGCTCCGATGTGTAAATGT
Found at i:63772 original size:3 final size:3
Alignment explanation
Indices: 63764--63844 Score: 74
Period size: 3 Copynumber: 27.0 Consensus size: 3
63754 ACTTGTTTGG
* * *
63764 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC -TCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT-C
* * * * *
63812 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
63845 GTCAGCTTCA
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
2 1 0.02
3 59 0.98
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:63851 original size:36 final size:36
Alignment explanation
Indices: 63780--63856 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
63770 ATCTTCATCA
*
63780 TCATCATCATCATCGTCATCATCTTCATCTCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCTCCAGCT
* *
63816 TCATCGTCATCATCATCGTCATCTTCATCGT-CAGCT
1 TCATCATCATCATCATCATCATCTTCATC-TCCAGCT
63852 TCATC
1 TCATC
63857 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCTCCAGCT
Found at i:63859 original size:6 final size:6
Alignment explanation
Indices: 63768--63859 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
63758 GTTTGGATCA
* * * * * * *
63768 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCT CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
63816 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
63860 TGCGACCGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:65680 original size:199 final size:199
Alignment explanation
Indices: 65321--66487 Score: 2166
Period size: 199 Copynumber: 5.9 Consensus size: 199
65311 TTTAAATTAG
65321 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
65384 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
65449 TCGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
65514 AAAAA
195 AAAAA
65519 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65584 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65649 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
65714 AAAA
196 AAAA
65718 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65783 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGTGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65848 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
65912 AAAA
196 AAAA
65916 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65981 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66046 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
66109 AAAA
196 AAAA
* * *
66113 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66178 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66243 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
66308 AAAA
196 AAAA
*
66312 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
66377 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC-ATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
66441 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
66488 GGCCATATTG
Statistics
Matches: 947, Mismatches: 17, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
197 194 0.20
198 213 0.22
199 536 0.57
200 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:66470 original size:594 final size:595
Alignment explanation
Indices: 65321--66487 Score: 2180
Period size: 594 Copynumber: 2.0 Consensus size: 595
65311 TTTAAATTAG
*
65321 TATCGACACAAACTATAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTATAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
65386 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
65451 GACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
*
65516 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGT
65581 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGG
65646 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
65711 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
391 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
*
65776 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGTGTTCGATGATT
456 CGGTAGAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGTGTTCGATGATT
65841 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
521 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
65906 TGGAAAAAAA
586 TGGAAAAAAA
65916 TATCGACACAAACTATATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
65980 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
64 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
66045 TCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG-AA
129 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
* *
66108 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACTG
194 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
*
66173 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
259 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTT
66238 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
324 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
66303 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
389 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
* *
66368 ACCGGTAGACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC-ATG
454 ACCGGTAGAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GTGTTCGATG
* *
66432 TTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
518 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
66488 GGCCATATTG
Statistics
Matches: 558, Mismatches: 11, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
594 367 0.66
595 50 0.09
596 140 0.25
597 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (595 bp):
TATCGACACAAACTATAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACATTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
CGGTAGAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGTGTTCGATGATT
TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
TGGAAAAAAA
Found at i:66653 original size:19 final size:19
Alignment explanation
Indices: 66607--66655 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
66597 TTATATTCAC
*
66607 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
66626 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
66645 ATACAAAATTA
1 ATACAAAATTA
66656 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:68480 original size:33 final size:33
Alignment explanation
Indices: 68443--68508 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
68433 CATCTTAATA
* *
68443 TCACCCCTTAACACCCCAACTTCTTTTACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
68476 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
68509 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:68567 original size:21 final size:21
Alignment explanation
Indices: 68542--68606 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
68532 CCCCTTATGC
* *
68542 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
68563 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
68584 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
68605 CT
1 CT
68607 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:70869 original size:20 final size:19
Alignment explanation
Indices: 70823--70869 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
70813 TCCGATATCA
*
70823 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
70842 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
70863 TTTTACC
1 TTTTACC
70870 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:71031 original size:20 final size:20
Alignment explanation
Indices: 71004--71050 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
70994 TCCGGTAACG
71004 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
71023 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
71044 TTTTACC
1 TTTTACC
71051 TAGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:71094 original size:181 final size:183
Alignment explanation
Indices: 70790--71254 Score: 668
Period size: 181 Copynumber: 2.6 Consensus size: 183
70780 CGTACTTACG
* * * * *
70790 AAAGTATCGACACTTTCAATATATCCGATATCATTTTACCGTTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
70855 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
70920 AGGCGCTATAACTGCTTCTC-TTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
70971 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
*
71036 TATCATATTTTTACCTAG-TATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TATCATATTTTTACCT-GTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
71100 TAGGATTTAAAACTGCTTCTCTTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
71154 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
71218 TTGTCATAGTTTTACATGTTATATCGTTTTGGATCGA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGA
71255 CACGAACCGG
Statistics
Matches: 254, Mismatches: 25, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
181 134 0.53
182 31 0.12
183 88 0.35
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (183 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:71711 original size:230 final size:229
Alignment explanation
Indices: 71309--71797 Score: 863
Period size: 230 Copynumber: 2.1 Consensus size: 229
71299 ACCTACTTTT
*
71309 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTAA
*
71374 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTAATTTACACAAA
*
71439 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
71504 CAAATATAAT-AATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAAATAAATATATTTTC-ACAGTGAA
71538 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTGAAAGTTATGTAATTTATGTTTA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTT-AAAGTTATGTAATTTATGTTTA
*
71603 AATTTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAA
65 AATTTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTAATTTACACAA
*
71668 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAA
130 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
* *
71733 CTAAAGATAATAAATAAATATATTTTCATAGTGAA
195 CCAAAGATAATAAATAAATATATTTTCACAGTGAA
*
71768 ATAAATATGGACACTTTTATAAAAATGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
71798 GATAATTTAC
Statistics
Matches: 248, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
229 42 0.17
230 192 0.77
231 14 0.06
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTAA
ATTTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAAATAAATATATTTTCACAGTGAA
Found at i:75882 original size:17 final size:17
Alignment explanation
Indices: 75862--75894 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
75852 ATAGTATATT
75862 TTTTAATATTT-TTTATC
1 TTTTAAT-TTTATTTATC
75879 TTTTAATTTTATTTAT
1 TTTTAATTTTATTTAT
75895 TATGTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTAATTTTATTTATC
Found at i:76767 original size:31 final size:31
Alignment explanation
Indices: 76729--76794 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
76719 GCACTCAACC
* *
76729 CGAATCTAACGGGTTTCGATCCGACCTGATT
1 CGAATCTAACGAGTTTCGATCCGACCCGATT
*
76760 CGAATCTAACGAGTTTTGATCCGACCCGATT
1 CGAATCTAACGAGTTTCGATCCGACCCGATT
76791 -GAAT
1 CGAAT
76795 TAGTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (31 bp):
CGAATCTAACGAGTTTCGATCCGACCCGATT
Found at i:77915 original size:22 final size:23
Alignment explanation
Indices: 77885--77941 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
77875 AACCATTTTT
*
77885 TTTATAAAAC-AATTAAATGTTA
1 TTTAAAAAACGAATTAAATGTTA
* *
77907 TTTAAAAAACGATTTTAATGTTA
1 TTTAAAAAACGAATTAAATGTTA
77930 TTTAAAAAACGA
1 TTTAAAAAACGA
77942 TTTTGTTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 9 0.29
23 22 0.71
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTAAAAAACGAATTAAATGTTA
Found at i:77930 original size:23 final size:23
Alignment explanation
Indices: 77900--77945 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
77890 AAAACAATTA
77900 AATGTTATTTAAAAAACGATTTT
1 AATGTTATTTAAAAAACGATTTT
77923 AATGTTATTTAAAAAACGATTTT
1 AATGTTATTTAAAAAACGATTTT
77946 GTTCTAATTT
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:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AATGTTATTTAAAAAACGATTTT
Found at i:77955 original size:23 final size:23
Alignment explanation
Indices: 77906--77955 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
77896 ATTAAATGTT
* *
77906 ATTTAAAAAACGATTTTAATGTT
1 ATTTAAAAAACGATTTTAATCTA
**
77929 ATTTAAAAAACGATTTTGTTCTA
1 ATTTAAAAAACGATTTTAATCTA
77952 ATTT
1 ATTT
77956 GACAAATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (23 bp):
ATTTAAAAAACGATTTTAATCTA
Found at i:78756 original size:22 final size:23
Alignment explanation
Indices: 78731--78774 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78721 TATATTCACA
78731 TGAAGATTA-AAATAAAAATGAG
1 TGAAGATTACAAATAAAAATGAG
* *
78753 TGAATATTACAAATTAAAATGA
1 TGAAGATTACAAATAAAAATGA
78775 AATGACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (23 bp):
TGAAGATTACAAATAAAAATGAG
Found at i:78900 original size:30 final size:30
Alignment explanation
Indices: 78796--78905 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 30
78786 ATAAGTATTT
* * *
78796 GAAA-TTACAAGGACTAAAATAGCAAATACA
1 GAAACTTA-AAGGACTAAAATAGAAAAAATA
* * *
78826 -ATAACTTAAAGGATTTAAATAACAAAAAATA
1 GA-AACTTAAAGGACTAAAAT-AGAAAAAATA
* *
78857 GAAACTT-AGGGACTAAAATAGTAAAAATA
1 GAAACTTAAAGGACTAAAATAGAAAAAATA
*
78886 GAAACTTAAAGGACTGAAAT
1 GAAACTTAAAGGACTAAAAT
78906 GGTATTACCA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
29 16 0.26
30 31 0.50
31 14 0.23
32 1 0.02
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (30 bp):
GAAACTTAAAGGACTAAAATAGAAAAAATA
Found at i:80361 original size:3 final size:3
Alignment explanation
Indices: 80347--80482 Score: 224
Period size: 3 Copynumber: 46.0 Consensus size: 3
80337 CAAAATGTAT
80347 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
80394 TAA TAA TAA TAC TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
80440 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TTA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80483 AAAGACCCGG
Statistics
Matches: 125, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
2 5 0.04
3 117 0.94
4 3 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:81023 original size:130 final size:132
Alignment explanation
Indices: 80668--81002 Score: 419
Period size: 135 Copynumber: 2.5 Consensus size: 132
80658 GGTCTGGTCG
* * *
80668 TCTAAGGGTGACAC-AGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACTGCTCATACG
1 TCTAGGGGTGACACGA-CTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACAC-GTTCATACG
* * *
80732 TGATGAAGAGTTCTTGGCCATTTTTAGGTAGGGTGATAACTCGGTTCCTACGCGATGAGGACGAC
64 TGATGAAGAGTTC-TGGCCATATTTAGGTA-GATGATAACACGGTTCCTACGCGATGAGGACGAC
*
80797 TGGTTA
127 TGATTA
* * *
80803 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACGTCTCATACGT
1 TCTAGGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGT-TCATACGT
* * *
80868 GATGAAGAGTTCTGGCCATCTTTAGG-A-ATGATAACACGGTTCCTACGTGATGAGGACGA-TAT
65 GATGAAGAGTTCTGGCCATATTTAGGTAGATGATAACACGGTTCCTACGCGATGAGGACGACT-G
80930 ATTA
129 ATTA
* * * *
80934 TCT-GGGGTGACACGACTCCTACGTGATGAGGAGGTCTAGTCGGGGGACGACACGGTTCCTACGC
1 TCTAGGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACAC-GTTCATACGT
80998 GATGA
65 GATGA
81003 GGATGACATG
Statistics
Matches: 177, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
130 57 0.32
131 37 0.21
133 1 0.01
134 14 0.08
135 68 0.38
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (132 bp):
TCTAGGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGTTCATACGTG
ATGAAGAGTTCTGGCCATATTTAGGTAGATGATAACACGGTTCCTACGCGATGAGGACGACTGAT
TA
Found at i:81160 original size:31 final size:30
Alignment explanation
Indices: 81104--81178 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 30
81094 CGCTTAAAGG
*
81104 GAAACGACTCAAAGATAGTTTTGTTT-CAAGA
1 GAAACTACTCAAAGATA-TTTTGTTTCCAA-A
81135 GAAACATACTCAAAGAT-TTTGTGTTTCCAAA
1 GAAAC-TACTCAAAGATATTT-TGTTTCCAAA
81166 GAAACTACCTCAA
1 GAAACTA-CTCAA
81179 GGGAGACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 5 0.13
31 21 0.54
32 13 0.33
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (30 bp):
GAAACTACTCAAAGATATTTTGTTTCCAAA
Found at i:83418 original size:40 final size:40
Alignment explanation
Indices: 83363--83564 Score: 377
Period size: 40 Copynumber: 5.0 Consensus size: 40
83353 TGCAGATTTA
83363 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
83403 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
83443 TAATACACTTCGGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
83483 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
83523 TAATACACTTCGGTGTATATGATGGACACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
83563 TA
1 TA
83565 GCACTACGGT
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:84586 original size:27 final size:26
Alignment explanation
Indices: 84556--84626 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
84546 CCTCAAAGCT
84556 GATTTTGTTAAGAGAAACAAACTCAAA
1 GATTTT-TTAAGAGAAACAAACTCAAA
* * * *
84583 GATTTTTCAAAAGGAACAGACTCAAA
1 GATTTTTTAAGAGAAACAAACTCAAA
84609 GATTTATTTCAAGAGAAA
1 GATTT-TTT-AAGAGAAA
84627 TTGTCTCAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 21 0.60
27 8 0.23
28 6 0.17
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.27
Consensus pattern (26 bp):
GATTTTTTAAGAGAAACAAACTCAAA
Found at i:84901 original size:36 final size:36
Alignment explanation
Indices: 84842--84940 Score: 135
Period size: 36 Copynumber: 2.8 Consensus size: 36
84832 TTGTATCTCA
* * * * *
84842 GAGAAAAAATGTCTCAAGTGAGACGAAATTTGCTTT
1 GAGAGAAATTGTCTTAAGCGAGACAAAATTTGCTTT
*
84878 GAGAGAAATTGTCTTAAGCGAGACAAAATTTGTTTT
1 GAGAGAAATTGTCTTAAGCGAGACAAAATTTGCTTT
*
84914 TAGAGAAATTGTCTTAAGCGAGACAAA
1 GAGAGAAATTGTCTTAAGCGAGACAAA
84941 GTTTATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (36 bp):
GAGAGAAATTGTCTTAAGCGAGACAAAATTTGCTTT
Found at i:85095 original size:37 final size:37
Alignment explanation
Indices: 85019--85098 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
85009 TATCTTAAAG
* * **
85019 GGAAAATGTCTCAAGCGAAACAAAATTTATTTTTGAA
1 GGAAACTGTCTCAAACGAAACAAAATTTATTTTCAAA
* *
85056 GGAAACTGTCTCAAATGAGACAAAATTT-TGTTTCAAA
1 GGAAACTGTCTCAAACGAAACAAAATTTAT-TTTCAAA
85093 GGAAAC
1 GGAAAC
85099 AAACTCAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (37 bp):
GGAAACTGTCTCAAACGAAACAAAATTTATTTTCAAA
Found at i:85294 original size:33 final size:33
Alignment explanation
Indices: 85254--85322 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
85244 GTTGAATCCC
* *
85254 CAAAGATGCCCCAATATTCGATGTTGATTTCTT
1 CAAAGATGCCCCAATATTCAATGTTGATTGCTT
85287 CAAAGATGCCCCAATATTCAATGTTGATTGCTT
1 CAAAGATGCCCCAATATTCAATGTTGATTGCTT
85320 CAA
1 CAA
85323 CACTGATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (33 bp):
CAAAGATGCCCCAATATTCAATGTTGATTGCTT
Found at i:86370 original size:14 final size:14
Alignment explanation
Indices: 86351--86433 Score: 66
Period size: 14 Copynumber: 5.8 Consensus size: 14
86341 CTCTTTGTCC
*
86351 TCTTTTTGTTCTT-T
1 TCTTTTTCTT-TTGT
86365 TCTTTTTCTTTTGT
1 TCTTTTTCTTTTGT
86379 TCTTTTT-TCTTTGAT
1 TCTTTTTCT-TTTG-T
86394 T-TTTTTCTCTTTGTT
1 TCTTTTTCT-TTTG-T
86409 TCTTTTTC-TTTGT
1 TCTTTTTCTTTTGT
*
86422 TTTTTTGTCTTT
1 TCTTTT-TCTTT
86434 GCTCTTTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.15
14 32 0.54
15 12 0.20
16 6 0.10
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.78
Consensus pattern (14 bp):
TCTTTTTCTTTTGT
Found at i:86405 original size:30 final size:28
Alignment explanation
Indices: 86359--86517 Score: 119
Period size: 31 Copynumber: 5.4 Consensus size: 28
86349 CCTCTTTTTG
*
86359 TTCTTT-TCTTTTTCT-TTTGTTCT-TTT
1 TTCTTTGTTTTTTTCTCTTTGTT-TATTT
*
86385 TTCTTTGATTTTTTTCTCTTTGTTTCTTT
1 TTCTTTG-TTTTTTTCTCTTTGTTTATTT
*
86414 TTCTTTGTTTTTTTGTCTTTGCTCTTTATTT
1 TTCTTTGTTTTTTTCTCTTTG---TTTATTT
86445 TTCTTTGTTGTTTTTCTTTCTTTGTTT-TTT
1 TTCTTTGTT-TTTTTC--TCTTTGTTTATTT
* * * *
86475 CTCTTTTCTCTTTGTTTTTCTTTGTTTCTTT
1 TTC-TTTGT-TTT-TTTCTCTTTGTTTATTT
86506 TCTCTTTGTTTT
1 T-TCTTTGTTTT
86518 GATTTGATCT
Statistics
Matches: 109, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
26 6 0.06
28 22 0.20
29 16 0.15
30 17 0.16
31 31 0.28
32 11 0.10
34 6 0.06
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.77
Consensus pattern (28 bp):
TTCTTTGTTTTTTTCTCTTTGTTTATTT
Found at i:86451 original size:17 final size:14
Alignment explanation
Indices: 86362--86517 Score: 125
Period size: 15 Copynumber: 10.3 Consensus size: 14
86352 CTTTTTGTTC
86362 TTTTCTTTTTCTTTTG
1 TTTT-TTTTTC-TTTG
*
86378 TTCTTTTTTCTTTG
1 TTTTTTTTTCTTTG
*
86392 ATTTTTTTCTCTTTG
1 -TTTTTTTTTCTTTG
*
86407 TTTCTTTTTCTTTG
1 TTTTTTTTTCTTTG
*
86421 TTTTTTTGTCTTTG
1 TTTTTTTTTCTTTG
86435 CTCTTTATTTTTCTTTG
1 -T-TTT-TTTTTCTTTG
86452 TTGTTTTTCTTTCTTTG
1 -T-TTTTT-TTTCTTTG
*
86469 TTTTTTCTCTT-TTCTC
1 TTTTTT-T-TTCTT-TG
*
86485 TTTGTTTTTCTTTG
1 TTTTTTTTTCTTTG
*
86499 TTTCTTTTCTCTTTG
1 TTT-TTTTTTCTTTG
86514 TTTT
1 TTTT
86518 GATTTGATCT
Statistics
Matches: 116, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
14 35 0.30
15 43 0.37
16 17 0.15
17 21 0.18
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:86467 original size:34 final size:34
Alignment explanation
Indices: 86411--86497 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
86401 TCTTTGTTTC
*
86411 TTTTTCTTTG-T-TTTTT-TGTCTTTGCTCTTTA
1 TTTTTCTTTGTTGTTTTTCTTTCTTTGCTCTTTA
* * *
86442 TTTTTCTTTGTTGTTTTTCTTTCTTTGTTTTTTC
1 TTTTTCTTTGTTGTTTTTCTTTCTTTGCTCTTTA
*
86476 TCTTTTCTCT-TTGTTTTTCTTT
1 T-TTTTCTTTGTTGTTTTTCTTT
86498 GTTTCTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.21
32 1 0.02
33 5 0.11
34 24 0.51
35 7 0.15
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.77
Consensus pattern (34 bp):
TTTTTCTTTGTTGTTTTTCTTTCTTTGCTCTTTA
Found at i:86474 original size:47 final size:47
Alignment explanation
Indices: 86395--86517 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
86385 TTCTTTGATT
* *
86395 TTTTTCTCT-TTGTTTCTT-TTTCTTTGTTTTTTTGTCTTTGCTCTTTA
1 TTTTTCTTTGTTGTTT-TTCTTTCTTTG-TTTTTTCTCTTTGCTCTTTA
* *
86442 TTTTTCTTTGTTGTTTTTCTTTCTTTGTTTTTTCTCTTTTCTCTTTG
1 TTTTTCTTTGTTGTTTTTCTTTCTTTGTTTTTTCTCTTTGCTCTTTA
86489 TTTTTCTTTGTT-TCTTTTC--TCTTTGTTTT
1 TTTTTCTTTGTTGT-TTTTCTTTCTTTGTTTT
86518 GATTTGATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.14
46 1 0.01
47 44 0.64
48 14 0.20
ACGTcount: A:0.01, C:0.15, G:0.08, T:0.76
Consensus pattern (47 bp):
TTTTTCTTTGTTGTTTTTCTTTCTTTGTTTTTTCTCTTTGCTCTTTA
Found at i:86505 original size:25 final size:25
Alignment explanation
Indices: 86435--86517 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 25
86425 TTTGTCTTTG
* *
86435 CTCTTTATTTTTCTTTG-TTGTTTT
1 CTCTTTGTTTTTCTTTGTTTCTTTT
* *
86459 -TCTTTCTTTGTT-TTT-TCTCTTTT
1 CTCTTTGTTT-TTCTTTGTTTCTTTT
86482 CTCTTTGTTTTTCTTTGTTTCTTTT
1 CTCTTTGTTTTTCTTTGTTTCTTTT
86507 CTCTTTGTTTT
1 CTCTTTGTTTT
86518 GATTTGATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.37
24 13 0.27
25 18 0.37
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.76
Consensus pattern (25 bp):
CTCTTTGTTTTTCTTTGTTTCTTTT
Found at i:90137 original size:30 final size:29
Alignment explanation
Indices: 90103--90195 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 29
90093 ACAAGGACCA
90103 AAATAGCAAATACAATAACTTAAAGGACTT
1 AAATAGCAAA-ACAATAACTTAAAGGACTT
* * *
90133 AAATAACAAAAAAATAGAAACTT-AGGGAC-T
1 AAATAGCAAAACAAT---AACTTAAAGGACTT
* *
90163 AAATAGTAAAAACAA-AACTTAAAGGACTA
1 AAATAG-CAAAACAATAACTTAAAGGACTT
90192 AAAT
1 AAAT
90196 GGTATTAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
27 5 0.10
28 5 0.10
29 8 0.16
30 15 0.31
31 11 0.22
32 5 0.10
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (29 bp):
AAATAGCAAAACAATAACTTAAAGGACTT
Found at i:90195 original size:29 final size:29
Alignment explanation
Indices: 90095--90210 Score: 83
Period size: 29 Copynumber: 3.9 Consensus size: 29
90085 TTGAATTTAC
* * *
90095 AAGGACCAAAATAGCAAATACAATAACTTA
1 AAGGACTAAAATAGTAAAAACAA-AACTTA
* ** *
90125 AAGGACTTAAATAACAAAAAAATAGAAACTT-
1 AAGGACTAAAAT-A-GTAAAAACA-AAACTTA
*
90156 AGGGACT-AAATAGTAAAAACAAAACTTA
1 AAGGACTAAAATAGTAAAAACAAAACTTA
* **
90184 AAGGACTAAAATGGTATTAACAAAACT
1 AAGGACTAAAATAGTAAAAACAAAACT
90211 AGAAGAACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
27 6 0.09
28 12 0.18
29 17 0.25
30 14 0.21
31 7 0.10
32 10 0.15
33 1 0.01
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (29 bp):
AAGGACTAAAATAGTAAAAACAAAACTTA
Found at i:91628 original size:3 final size:3
Alignment explanation
Indices: 91614--91683 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
91604 CAAAATGTAT
* * *
91614 TAA TAA -AA TAA TAA TAA TAC TAA TATA TAT TAA TAA TAA -AA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
91658 -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
91684 AAGACCAGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91648 original size:22 final size:23
Alignment explanation
Indices: 91616--91682 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
91606 AAATGTATTA
*
91616 ATAA-AATAATAATAATACTAAT
1 ATAATAATAATAATAATAATAAT
*
91638 AT-ATATTAATAATAA-AATTAA-
1 ATAATAATAATAATAATAA-TAAT
91659 ATAATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAATAAT
91682 A
1 A
91683 AAAGACCAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.11
22 30 0.81
23 3 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:92260 original size:17 final size:16
Alignment explanation
Indices: 92229--92267 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
92219 GGTTGTAAAC
*
92229 ATTAATTTTTTTTATT
1 ATTATTTTTTTTTATT
*
92245 TTTATTTTTGTTTTATT
1 ATTATTTTT-TTTTATT
92262 ATTATT
1 ATTATT
92268 ATTATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
ATTATTTTTTTTTATT
Found at i:92265 original size:3 final size:3
Alignment explanation
Indices: 92257--92301 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
92247 TATTTTTGTT
* *
92257 TTA TTA TTA TTA TTA TTA ATA TTA GTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
92302 AATAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:99154 original size:14 final size:13
Alignment explanation
Indices: 99135--99174 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
99125 TCCAACAAAG
99135 AAAGAAGAAAAAAA
1 AAAGAA-AAAAAAA
*
99149 AAAGAAAAAAAAG
1 AAAGAAAAAAAAA
99162 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
99175 GAAAAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:99169 original size:23 final size:23
Alignment explanation
Indices: 99135--99180 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
99125 TCCAACAAAG
99135 AAAGAAGAAAAAAAAAAGAAAAA
1 AAAGAAGAAAAAAAAAAGAAAAA
99158 AAAGAA-AGAAAAAAAAAGAAAAA
1 AAAGAAGA-AAAAAAAAAGAAAAA
99181 GGAAAATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAGAAGAAAAAAAAAAGAAAAA
Found at i:99175 original size:14 final size:14
Alignment explanation
Indices: 99131--99178 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
99121 CTCATCCAAC
99131 AAAGAAAGAAGAAAA
1 AAAGAAAGAA-AAAA
99146 AAA-AAAG-AAAAA
1 AAAGAAAGAAAAAA
99158 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
99172 AAAGAAA
1 AAAGAAA
99179 AAGGAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 16 0.52
15 3 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:99185 original size:7 final size:7
Alignment explanation
Indices: 99131--99186 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
99121 CTCATCCAAC
99131 AAAGAAA
1 AAAGAAA
*
99138 GAAGAAA
1 AAAGAAA
99145 AAA-AAA
1 AAAGAAA
99151 AGAA-AAA
1 A-AAGAAA
99158 AAAGAAA
1 AAAGAAA
99165 GAAA-AAA
1 -AAAGAAA
99172 AAAGAAA
1 AAAGAAA
*
99179 AAGGAAA
1 AAAGAAA
99186 A
1 A
99187 TTGAATCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 9 0.21
7 30 0.71
8 3 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:103789 original size:50 final size:54
Alignment explanation
Indices: 103645--103795 Score: 202
Period size: 54 Copynumber: 2.9 Consensus size: 54
103635 GAAATCTTGG
*
103645 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* *
103699 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAGTGTTTTAC-ATC-TC-G-A
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* * * * *
103749 CAGAAACCACAGGAAAAGATGAATGTATTGTCAAACGTTTTATGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
103796 CAGTGATTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
50 38 0.44
51 3 0.03
52 2 0.02
53 2 0.02
54 41 0.48
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:104183 original size:22 final size:22
Alignment explanation
Indices: 104150--104209 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
104140 TCTACATCTA
* *
104150 CACTCTTCAAAGATGATAGATT
1 CACTTTTCAAAGATGACAGATT
*
104172 CACTTTTTAAAGATGACAGATT
1 CACTTTTCAAAGATGACAGATT
*
104194 CTCTTTTCAAAGATGA
1 CACTTTTCAAAGATGA
104210 AAACTTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (22 bp):
CACTTTTCAAAGATGACAGATT
Found at i:106464 original size:76 final size:76
Alignment explanation
Indices: 104865--106447 Score: 2841
Period size: 76 Copynumber: 20.8 Consensus size: 76
104855 CTATTTCTCA
* *
104865 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
104930 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
104941 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
105006 AGCCTTCGAGT
66 AGCCTTAGGGT
* *
105017 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105082 AGCCTTAGGGT
66 AGCCTTAGGGT
105093 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105158 AGCCTTAGGGT
66 AGCCTTAGGGT
** * *
105169 CATCTGTAAGTCCTTCAGTGCATGATGCGTCCAAAAAAACCTTCGGGAGATTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
105234 AAGCCTTAGGGT
65 AAGCCTTAGGGT
105246 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105311 AGCCTTAGGGT
66 AGCCTTAGGGT
*
105322 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
105387 AAGCCTTCGGGT
65 AAGCCTTAGGGT
*
105399 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105464 AGCCTTAGGGT
66 AGCCTTAGGGT
*
105475 CATCTGTAAGTGCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105540 AGCCTTAGGGT
66 AGCCTTAGGGT
105551 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
105616 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
105628 CATCTGTAACTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105693 AGCCTTAGGGT
66 AGCCTTAGGGT
*
105704 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
105769 AAGCCTTCA-GGT
65 AAGCCTT-AGGGT
*
105781 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
105846 AGCCTTCGGGT
66 AGCCTTAGGGT
*
105857 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105922 AGCCTTAGGGT
66 AGCCTTAGGGT
105933 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105998 AGCCTTAGGGT
66 AGCCTTAGGGT
*
106009 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
106074 AGTCTTCGGGT
66 AGCCTTAGGGT
*
106085 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
106150 AGCCTTCGGGT
66 AGCCTTAGGGT
106161 CATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
106223 AGCCTTAGGGT
66 AGCCTTAGGGT
106234 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
106299 AGCCTTAGGGT
66 AGCCTTAGGGT
106310 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
106375 AGCCTTAGGGT
66 AGCCTTAGGGT
*
106386 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT
106448 TAAACCCTCG
Statistics
Matches: 1455, Mismatches: 43, Indels: 18
0.96 0.03 0.01
Matches are distributed among these distances:
73 21 0.01
74 51 0.04
75 51 0.04
76 1039 0.71
77 292 0.20
78 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:106464 original size:152 final size:152
Alignment explanation
Indices: 104865--106447 Score: 2841
Period size: 153 Copynumber: 10.4 Consensus size: 152
104855 CTATTTCTCA
* *
104865 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
104930 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
104995 GATGTTTTCAAAGCCTTCGAGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
105017 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105082 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
105147 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
** * *
105169 CATCTGTAAGTCCTTCAGTGCATGATGCGTCCAAAAAAACCTTCGGGAGATTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
105234 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
105299 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
*
105322 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
105387 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
105452 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
*
105475 CATCTGTAAGTGCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105540 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
105605 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
*
105628 CATCTGTAACTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
105693 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAACCTTCGGGAGCTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
105758 TGATGTTTTCAAAGCCTTCA-GGT
130 TGATGTTTTCAAAGCCTT-AGGGT
*
105781 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
105846 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
105911 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
105933 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
105998 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
106063 GATATTTTCAAAGTCTTCGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
106085 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
106150 AGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
106213 GATGTTTTC-AAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
106234 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
106299 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
106364 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
106386 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT
106448 TAAACCCTCG
Statistics
Matches: 1378, Mismatches: 46, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
149 94 0.07
150 50 0.04
151 52 0.04
152 589 0.43
153 592 0.43
154 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGT
Found at i:106645 original size:3 final size:3
Alignment explanation
Indices: 106630--106680 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
106620 TATTTTTGTT
* * *
106630 TTA TTA CTA TTA TTA TTA TTA TTA ATA TTA GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106678 TTA
1 TTA
106681 AATAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:109155 original size:20 final size:21
Alignment explanation
Indices: 109122--109166 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
109112 ATACAGGGCG
109122 GACTATAGGGTATGCTAAATT
1 GACTATAGGGTATGCTAAATT
109143 GACTATA-GGTATGCTAAATT
1 GACTATAGGGTATGCTAAATT
109163 GACT
1 GACT
109167 GTAAAATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (21 bp):
GACTATAGGGTATGCTAAATT
Found at i:114724 original size:23 final size:23
Alignment explanation
Indices: 114706--114749 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
114696 ACCACATTTT
*
114706 TTTGCACCGAAGTGTCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
*
114729 TTTGCATCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
114750 ATTGTCCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:121668 original size:23 final size:23
Alignment explanation
Indices: 121638--121690 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
121628 TCCTGAATGA
121638 CCACATAGGTTTGCACCAAAGTG
1 CCACATAGGTTTGCACCAAAGTG
*
121661 CCACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCAAAGTG
121684 CCACATA
1 CCACATA
121691 ATTGTCCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGGTTTGCACCAAAGTG
Done.