Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006490.1 Hibiscus syriacus cultivar Beakdansim tig00015784_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: 106404
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4056 original size:30 final size:30
Alignment explanation
Indices: 3987--4057 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
3977 ATTTTTAATC
* *
3987 CATTTTAGTATTTAAACATTTATTTTATTT
1 CATTTTAATACTTAAACATTTATTTTATTT
*** *
4017 CAAAATAATACTT-AACATTTAGTTTTGTTT
1 CATTTTAATACTTAAACATTTA-TTTTATTT
4047 CATTTTAATAC
1 CATTTTAATAC
4058 CTCACCATTA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (30 bp):
CATTTTAATACTTAAACATTTATTTTATTT
Found at i:4295 original size:24 final size:24
Alignment explanation
Indices: 4268--4319 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 24
4258 AAAAAATATA
4268 TTAATCGAACCGAATAAAGTTCGG
1 TTAATCGAACCGAATAAAGTTCGG
4292 -T--T--AACCGAATAAAGTTCGG
1 TTAATCGAACCGAATAAAGTTCGG
*
4311 TTAACCGAA
1 TTAATCGAA
4320 TTAAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 10
0.67 0.03 0.30
Matches are distributed among these distances:
19 17 0.77
20 1 0.05
21 1 0.05
23 1 0.05
24 2 0.09
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (24 bp):
TTAATCGAACCGAATAAAGTTCGG
Found at i:4299 original size:19 final size:19
Alignment explanation
Indices: 4275--4320 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
4265 ATATTAATCG
4275 AACCGAATAAAGTTCGGTT
1 AACCGAATAAAGTTCGGTT
4294 AACCGAATAAAGTTCGGTT
1 AACCGAATAAAGTTCGGTT
4313 AACCGAAT
1 AACCGAAT
4321 TAAATGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (19 bp):
AACCGAATAAAGTTCGGTT
Found at i:5052 original size:2 final size:2
Alignment explanation
Indices: 5045--5092 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
5035 TATTTTTACA
5045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5085 AT A- AT AT A
1 AT AT AT AT A
5093 AGGTTATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7248 original size:22 final size:22
Alignment explanation
Indices: 7223--7279 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
7213 AGTGTTAAGG
* *
7223 CACTTTAGTATCAGTGCGAACA
1 CACTTTTGTATCAGTGCAAACA
*
7245 CACTTTTGTACCAGTGCAAACA
1 CACTTTTGTATCAGTGCAAACA
7267 CACTTTTGTATCA
1 CACTTTTGTATCA
7280 ATGCCGAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (22 bp):
CACTTTTGTATCAGTGCAAACA
Found at i:15591 original size:29 final size:29
Alignment explanation
Indices: 15549--15624 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
15539 GTCCCCATAT
*
15549 AGGTCGTCATGCACGCCCAGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
15578 AGGTCGCCATGCACGCCCAGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
15607 AGGTCGCCATGCACGCCC
1 AGGTCGCCATGCACGCCC
15625 CAACACGCTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.20, C:0.43, G:0.25, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:15659 original size:14 final size:14
Alignment explanation
Indices: 15640--15706 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
15630 CGCTGGGCAT
15640 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
15654 CCGAGGCCATCCGAAAGCA
1 CCGAGGCCATCC----G-A
15673 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
15688 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
15702 ACGAG
1 CCGAG
15707 CTATGCGAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 30 0.65
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.26
ACGTcount: A:0.25, C:0.39, G:0.28, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:15674 original size:34 final size:34
Alignment explanation
Indices: 15636--15702 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
15626 AACACGCTGG
15636 GCATCCGAGGCCATCCGACCGAGGCCATCCGAAA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAAA
15670 GCATCCGAGGCCATCCGACCGAGGCCATCCGAA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAA
15703 CGAGCTATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.39, G:0.27, T:0.09
Consensus pattern (34 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAAA
Found at i:15740 original size:33 final size:33
Alignment explanation
Indices: 15688--15770 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
15678 GGCCATCCGA
* * * *
15688 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
15721 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
15754 CCGA--GCAACCGAGCGAG
1 CCGAGGGCAACCGAGCGAG
15771 GGTAGGTCGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 13 0.28
33 33 0.72
ACGTcount: A:0.27, C:0.29, G:0.36, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:15858 original size:14 final size:14
Alignment explanation
Indices: 15836--15868 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15826 CCTCGCATAG
*
15836 CTCGCTCGGATGGC
1 CTCGGTCGGATGGC
15850 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
15864 CTCGG
1 CTCGG
15869 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.39, T:0.21
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:15868 original size:10 final size:10
Alignment explanation
Indices: 15855--15911 Score: 73
Period size: 10 Copynumber: 5.7 Consensus size: 10
15845 ATGGCCTCGG
15855 TCGGATGGCC
1 TCGGATGGCC
15865 TCGGAT-GCTC
1 TCGGATGGC-C
15875 TCGGATGGCC
1 TCGGATGGCC
*
15885 TCGGAT-GCTT
1 TCGGATGGC-C
15895 TCGGATGGCC
1 TCGGATGGCC
15905 TCGGATG
1 TCGGATG
15912 CCCAGCGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 4 0.10
10 33 0.80
11 4 0.10
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:15880 original size:20 final size:20
Alignment explanation
Indices: 15855--15912 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
15845 ATGGCCTCGG
15855 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
15875 TCGGATGGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
15895 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
15913 CCAGCGTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.28, G:0.36, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:16097 original size:2 final size:2
Alignment explanation
Indices: 16090--16116 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16080 TCACTAAGAG
16090 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16117 GATACCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17397 original size:17 final size:18
Alignment explanation
Indices: 17347--17397 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
17337 GGAATGTTTA
17347 TGAAGGAATTAGAATCTG
1 TGAAGGAATTAGAATCTG
*
17365 TGAAGGAATTGGAATCTG
1 TGAAGGAATTAGAATCTG
* *
17383 T-CAGGAATTAAAATC
1 TGAAGGAATTAGAATC
17398 CAATTCCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (18 bp):
TGAAGGAATTAGAATCTG
Found at i:18255 original size:257 final size:251
Alignment explanation
Indices: 17782--18334 Score: 589
Period size: 257 Copynumber: 2.2 Consensus size: 251
17772 AAAGTTTCAC
* *
17782 CCGACCCGACCCGACCCGAAATAATAAAAAAACTATTTTTATTCAATAAAAACAATGACTTAATT
1 CCGACCCGA-CCGACCCGAAATAATAAAAAAA-TATTTTTATTAAATAAAAACAATAACTTAATT
* *
17847 GGAAAAAATATAGAGAGAGAGAGGAGTATTATTATAATTATTCCTAAATATAAGGTAAAATTATA
64 GAAAAAAATATAGAGAGAGAGAGGAGTATTATTATAATTATTCCTAAATATAAAGTAAAATTATA
*
17912 TATTTTTTAGGTCGGATCAGGTATTTTTCACCCTAAACCCGACCAGAATATCACATTTAAAAAAA
129 TATTTTTTAGGT--GA-CAGGTATTTTTCACCCTAAACCCGACCAGAATATCACACTTAAAAAAA
* * * **
17977 CCGATCCGACCAGATCAAAATAAAGTTT-C-ACCCAACCTGACCTTAATATATGAATTAGAAAT
191 CCAATCCGACC--A-CAAAATAAAATTTCCGACCCAACCCGACCCGAATATATGAATTAGAAAT
*
18039 CCGACCCGAGCCGACCCGAAATAATAAAAAAATTATTTTTATTAAATAAAAACAGTAACTTAATT
1 CCGACCCGA-CCGACCCGAAATAATAAAAAAA-TATTTTTATTAAATAAAAACAATAACTTAATT
* *
18104 GAAAAAAATTATATATAGA-A-A-GA-TATTATTATAATTATTCCTAAATATATAAAGTAAAATT
64 GAAAAAAA-TATAGAGAGAGAGAGGAGTATTATTATAATTATTCCT-AA-ATATAAAGTAAAATT
18165 ATATATATTTTT-GAGT-A-AGGTATTTTT-ACCCTAAATCCGAATTCGACCCGACTCGAATATC
126 ATATAT-TTTTTAG-GTGACAGGTATTTTTCACCCTAAA-CC-----CGA-CC-A---GAATATC
** *
18226 ACACTTAAAAAAATTAATCCGA-C-CAAAATAAAATTTCACCCGACCCAACCCGGCCCGAATATA
178 ACACTTAAAAAAACCAATCCGACCACAAAATAAAATTT---CCGACCCAACCCGACCCGAATATA
18289 TGAATTAGAAAT
240 TGAATTAGAAAT
18301 CCGACCCGACC-A---GAAATAATAAAAAAATATTTTT
1 CCGACCCGACCGACCCGAAATAATAAAAAAATATTTTT
18335 CTTCAATATA
Statistics
Matches: 257, Mismatches: 18, Indels: 43
0.81 0.06 0.14
Matches are distributed among these distances:
251 8 0.03
252 12 0.05
254 20 0.08
255 4 0.02
256 29 0.11
257 105 0.41
258 10 0.04
259 1 0.00
260 1 0.00
261 4 0.02
262 63 0.25
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.28
Consensus pattern (251 bp):
CCGACCCGACCGACCCGAAATAATAAAAAAATATTTTTATTAAATAAAAACAATAACTTAATTGA
AAAAAATATAGAGAGAGAGAGGAGTATTATTATAATTATTCCTAAATATAAAGTAAAATTATATA
TTTTTTAGGTGACAGGTATTTTTCACCCTAAACCCGACCAGAATATCACACTTAAAAAAACCAAT
CCGACCACAAAATAAAATTTCCGACCCAACCCGACCCGAATATATGAATTAGAAAT
Found at i:22454 original size:85 final size:85
Alignment explanation
Indices: 22310--22473 Score: 283
Period size: 85 Copynumber: 1.9 Consensus size: 85
22300 TTTCGCAGCA
* *
22310 CAGTTTTCAAATTCGCAAAGCGATTCTCCAAAATCGCAACGCGAATTTCGCAACGATAATTACCG
1 CAGTTTTCAAATTCGCAAAGCGATTCTCCAAAATCGCAACGCGAATTTCGCAACAATAATTACCA
22375 ATATAGGTAAACACGCAACT
66 ATATAGGTAAACACGCAACT
* * *
22395 CAGTTTTCAAATTCGCAACGCGATTCTCTAAAATCGCAACGCGGATTTCGCAACAATAATTACCA
1 CAGTTTTCAAATTCGCAAAGCGATTCTCCAAAATCGCAACGCGAATTTCGCAACAATAATTACCA
22460 ATATAGGTAAACAC
66 ATATAGGTAAACAC
22474 AACTATTCGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (85 bp):
CAGTTTTCAAATTCGCAAAGCGATTCTCCAAAATCGCAACGCGAATTTCGCAACAATAATTACCA
ATATAGGTAAACACGCAACT
Found at i:22766 original size:20 final size:20
Alignment explanation
Indices: 22722--22759 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22712 ATTAGCGTTG
22722 CGAAATTCGAGTTGCGAAAT
1 CGAAATTCGAGTTGCGAAAT
*
22742 CGAAATTCGCGTTGCGAA
1 CGAAATTCGAGTTGCGAA
22760 TTTGAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
CGAAATTCGAGTTGCGAAAT
Found at i:22789 original size:92 final size:90
Alignment explanation
Indices: 22601--22959 Score: 319
Period size: 92 Copynumber: 3.9 Consensus size: 90
22591 AAAAACTGAG
* * * * **
22601 TTGTGTTTACCTATATCGGTAATTAGAGTTGCGAAATTCGAGTTACGAATTTGAAAATCGC--CA
1 TTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATTCGAGTTGCGAA-ATGAAATTCGCGTTG
*
22664 CGAATTTAAAAACTGAGTTGTGAATA
65 CGAATTTGAAAACTGAGTTGTGAATA
* *
22690 GTTGTGTTAACATATATCGGTAATTAGCGTTGCGAAATTCGAGTTGCGAAATCGAAATTCGCGTT
1 -TTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATTCGAGTTGCGAAAT-GAAATTCGCGTT
22755 GCGAATTTGAAAACTGAGTTGTGAATAA
64 GCGAATTTGAAAACTGAGTTGTGAAT-A
* **
22783 TTGTGTTTACCTATATCGTTAATTAGCGTTGCGAAAAATGAAATTC-ACGTTGCGATTTTGGAGA
1 TTGTGTTTACCTATATCGGTAATTAGCGTTGC-------GAAATTCGA-GTTGCGA-AAT-GA-A
* *
22847 ATT-GCATTGTGAATTTGAAAACTGAG-T-TG----
55 ATTCGCGTTGCGAATTTGAAAACTGAGTTGTGAATA
* *
22876 -CGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATTCGCA-TTGCGAAAATGAAATTTGCGTT
1 TTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATTCG-AGTTGCG-AAATGAAATTCGCGTT
* *
22939 GCGAATTTGAGAACTGTGTTG
64 GCGAATTTGAAAACTGAGTTG
22960 CGAAACTGGA
Statistics
Matches: 224, Mismatches: 25, Indels: 44
0.76 0.09 0.15
Matches are distributed among these distances:
83 4 0.02
84 21 0.09
85 14 0.06
86 1 0.00
87 1 0.00
89 1 0.00
90 53 0.24
92 82 0.37
93 1 0.00
98 3 0.01
99 15 0.07
100 24 0.11
101 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (90 bp):
TTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAATTCGAGTTGCGAAATGAAATTCGCGTTGC
GAATTTGAAAACTGAGTTGTGAATA
Found at i:26819 original size:31 final size:27
Alignment explanation
Indices: 26763--26821 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 27
26753 TTTTTATCAC
26763 TAAATTTTAATAATTATAAATAATTAT
1 TAAATTTTAATAATTATAAATAATTAT
26790 TAAATTTATAGATATATTATAAGATAATTAT
1 TAAATTT-TA-ATA-ATTATAA-ATAATTAT
26821 T
1 T
26822 GCGATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 7 0.25
28 2 0.07
29 3 0.11
30 7 0.25
31 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
TAAATTTTAATAATTATAAATAATTAT
Found at i:28067 original size:2 final size:2
Alignment explanation
Indices: 28060--28092 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
28050 CCAACACAAT
28060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28093 TAATTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28502 original size:12 final size:12
Alignment explanation
Indices: 28495--28548 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
28485 TTATAACAGT
28495 AATAATAAATCAAGC
1 AATAAT-AAT-AA-C
*
28510 AATAATAATAAT
1 AATAATAATAAC
*
28522 AATAATAATAAT
1 AATAATAATAAC
28534 AATAATAATACAC
1 AATAATAATA-AC
28547 AA
1 AA
28549 ACCCCATAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
12 22 0.61
13 5 0.14
14 3 0.08
15 6 0.17
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:28516 original size:3 final size:3
Alignment explanation
Indices: 28510--28543 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
28500 TAAATCAAGC
28510 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
28544 CACAAACCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33827 original size:95 final size:95
Alignment explanation
Indices: 33702--33890 Score: 326
Period size: 95 Copynumber: 2.0 Consensus size: 95
33692 TACCAATGAG
* *
33702 GTAGTATCGATACCATGGTAAGGGTATCGATACCA-AACAACATCGAATCTAAATTTGGTATCGA
1 GTAGTATCGATACCATGGTAAGGGTATCGATACCAGAA-AACATCGAACCTAAATTTGGTATCAA
33766 TACCAGAAGGGGGTATCAGTACCATAGTATT
65 TACCAGAAGGGGGTATCAGTACCATAGTATT
*
33797 GTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTAAATTTGGTATCAAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAACCTAAATTTGGTATCAAT
*
33862 ACCGGAAGGGGGTATCAGTACCATAGTAT
66 ACCAGAAGGGGGTATCAGTACCATAGTAT
33891 AAAAGTATCG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 88 0.99
96 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAACCTAAATTTGGTATCAAT
ACCAGAAGGGGGTATCAGTACCATAGTATT
Found at i:33898 original size:95 final size:95
Alignment explanation
Indices: 33704--33911 Score: 319
Period size: 95 Copynumber: 2.2 Consensus size: 95
33694 CCAATGAGGT
* *
33704 AGTATCGATACCATGGTAAGGGTATCGATACCAAACAACATCGAATCTAAATTTGGTATCGATAC
1 AGTATCGATACCATGGTAAGGGTATCGATACCAAACAACATCGAACCTAAATTTGGTATCAATAC
***
33769 CAGAAGGGGGTATCAGTACCATAGTATTGT
66 CAGAAGGGGGTATCAGTACCATAGTATAAA
*
33799 AGTATCGATACCATGGTAAGGGTATCGATACCAGGA-AACATCGAACCTAAATTTGGTATCAATA
1 AGTATCGATACCATGGTAAGGGTATCGATACCA-AACAACATCGAACCTAAATTTGGTATCAATA
*
33863 CCGGAAGGGGGTATCAGTACCATAGTATAAA
65 CCAGAAGGGGGTATCAGTACCATAGTATAAA
* *
33894 AGTATCGGTACCAGGGTA
1 AGTATCGATACCATGGTA
33912 GCAATATCGA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 102 0.99
96 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTATCGATACCAAACAACATCGAACCTAAATTTGGTATCAATAC
CAGAAGGGGGTATCAGTACCATAGTATAAA
Found at i:34331 original size:54 final size:54
Alignment explanation
Indices: 34247--34785 Score: 691
Period size: 54 Copynumber: 9.9 Consensus size: 54
34237 TTACCAAATA
* * *
34247 GGCACTAAGTGTGCATTTCATGAAATTCATCCTAAGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* *
34301 GACACTAAGTGTGCATTTCACGAAATTCATCCTAAGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
*
34355 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
** *
34409 GATACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* *
34463 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* * * *
34517 GACACTAAGTATGCATTTCATGGAATTCATCCTAAGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* ** * *
34571 GGTACTAAGTGTGCATTTCACATAATTCATCCTAAGCGGATGAATAAACGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* * * * **
34625 GGCACTAAGTGTACATTTCATGAAATTCATTCTAAGTGGATGAATAATTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* * * ** * * *
34679 GGCACTAAGTGTGCAAATCCACGGAATTCATCATAAGTTTATGAATAACCATATA
1 GGCACTAAGTGTGC-ATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
* * * * * * *
34734 GGCACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGT
1 GGCACTAAGTGTGC-ATTTCACGGAATTCATCCTAAGTGGATGAATAACCGT
34786 ACAGGCACGA
Statistics
Matches: 430, Mismatches: 54, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
54 356 0.83
55 74 0.17
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAATAACCGTTTC
Found at i:34389 original size:27 final size:27
Alignment explanation
Indices: 34359--34500 Score: 89
Period size: 27 Copynumber: 5.3 Consensus size: 27
34349 CGTTTCGGCA
34359 CTAAGTGTGCATTTCACGGAATTCATC
1 CTAAGTGTGCATTTCACGGAATTCATC
* * * * *
34386 CTAAGTG-G-ATGAATAACTG-TTTCGATA
1 CTAAGTGTGCAT--TTCACGGAATTC-ATC
34413 CTAAGTGTGCATTTCACGGAATTCATC
1 CTAAGTGTGCATTTCACGGAATTCATC
* * * * **
34440 CTAAGTG-G-ATGAATAACTG-TTTCGGC
1 CTAAGTGTGCAT--TTCACGGAATTCATC
34466 ACTAAGTGTGCATTTCACGGAATTCATC
1 -CTAAGTGTGCATTTCACGGAATTCATC
34494 CTAAGTG
1 CTAAGTG
34501 GATGAATAAC
Statistics
Matches: 81, Mismatches: 22, Indels: 24
0.64 0.17 0.19
Matches are distributed among these distances:
25 4 0.05
26 9 0.11
27 55 0.68
28 9 0.11
29 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (27 bp):
CTAAGTGTGCATTTCACGGAATTCATC
Found at i:34782 original size:55 final size:55
Alignment explanation
Indices: 34687--34832 Score: 213
Period size: 55 Copynumber: 2.7 Consensus size: 55
34677 TCGGCACTAA
* * *
34687 GTGTGCAAATCCACGGAATTCATCATAAGTTTATGAATAACCATATAGGCACGAT
1 GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACAGGCACGAT
*
34742 GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACGAT
1 GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACAGGCACGAT
* ** *
34797 GTGTGC-AACCCACATAATTCATCATGAGTCGATGAA
1 GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA
34833 CTACCGTATA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 26 0.31
55 57 0.69
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (55 bp):
GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACAGGCACGAT
Found at i:35201 original size:68 final size:67
Alignment explanation
Indices: 35011--35201 Score: 247
Period size: 68 Copynumber: 2.8 Consensus size: 67
35001 TAATAATGAT
* * ** * *
35011 CTAACTGTGCAATTGGCATGAATGTGTCAATTATGTCAGTTAGATGAAAGACTAAGTGCTTTTGA
1 CTAACTGTGCATTTGACAAAAATGTGTCAATTATGTCAGTTAGATAAAAG-CTAAGTGCCTTTGA
35076 GGC
65 GGC
* * * * *
35079 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTTCCTTTGA
1 CTAACTGTGCATTTGACAAAAATGTGTCAATTATGTCAGTTAGAT-AAAAGCTAAGTGCCTTTGA
35144 GGC
65 GGC
*
35147 CTAACTGTGCATTTGACAAAAATGTGTCAATTATATCAGTTAGATAAACAGCTAA
1 CTAACTGTGCATTTGACAAAAATGTGTCAATTATGTCAGTTAGATAAA-AGCTAA
35202 ACACTGTTGA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 3 0.03
68 100 0.94
69 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (67 bp):
CTAACTGTGCATTTGACAAAAATGTGTCAATTATGTCAGTTAGATAAAAGCTAAGTGCCTTTGAG
GC
Found at i:35318 original size:2 final size:2
Alignment explanation
Indices: 35311--35336 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35301 TGAAGGGATG
35311 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35337 TGTACAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35443 original size:45 final size:45
Alignment explanation
Indices: 35394--35608 Score: 322
Period size: 45 Copynumber: 4.8 Consensus size: 45
35384 GTAAACAGAA
* *
35394 TATAAAAGGAATGAAATGATGCCATAAATGAAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
*
35439 TATAAAAGGCATGAAAGGATGTCATAAATGAAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* * *
35484 TATAAAAGGAATGAAAAGATGTCATAAATGAAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* *
35529 TATAAAAGGCATGAAAGGATGCCAGAAATGAAATGTATAATATTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* ** *
35574 TATAAAAGGCATGAAAGAATGTTATAATTGAAATG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATG
35609 CATATAGGTG
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 155 1.00
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (45 bp):
TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
Found at i:35631 original size:90 final size:90
Alignment explanation
Indices: 35394--35640 Score: 320
Period size: 90 Copynumber: 2.7 Consensus size: 90
35384 GTAAACAGAA
* * * *
35394 TATAAAAGGAATGAAATGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGGAT
1 TATAAAAGGAATGAAAAGATGTCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAAGGAT
* *
35459 GTCATAAATGAAATGTATAATAGTG
66 GCCAGAAATGAAATGTATAATAGTG
* *
35484 TATAAAAGGAATGAAAAGATGTCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGGAT
1 TATAAAAGGAATGAAAAGATGTCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAAGGAT
*
35549 GCCAGAAATGAAATGTATAATATTG
66 GCCAGAAATGAAATGTATAATAGTG
* * * * *
35574 TATAAAAGGCATG-AAAGAATGTTATAATTGAAATGCAT-ATAGGTGCATTATAA-GCATGAATG
1 TATAAAAGGAATGAAAAG-ATGTCATAAATGAAATGCATAATA-GTGCA-TAAAAGGCATGAAAG
35636 GATGC
63 GATGC
35641 TATCAATTAA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
89 7 0.05
90 131 0.92
91 4 0.03
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.27
Consensus pattern (90 bp):
TATAAAAGGAATGAAAAGATGTCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAAGGAT
GCCAGAAATGAAATGTATAATAGTG
Found at i:40441 original size:32 final size:32
Alignment explanation
Indices: 40398--40463 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
40388 ATTAGGATGA
40398 TTCATTATTGTTAAATTTCTCCTAATTTGCAT
1 TTCATTATTGTTAAATTTCTCCTAATTTGCAT
* *
40430 TTCATTGTTGTTAAATTTCTCTTAATTTGCAT
1 TTCATTATTGTTAAATTTCTCCTAATTTGCAT
40462 TT
1 TT
40464 GATCACATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.14, G:0.08, T:0.56
Consensus pattern (32 bp):
TTCATTATTGTTAAATTTCTCCTAATTTGCAT
Found at i:42846 original size:21 final size:21
Alignment explanation
Indices: 42822--42874 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
42812 ACACTTAGGG
42822 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
42843 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
42864 TACCGATTCCC
1 AACCGATTCCC
42875 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:43091 original size:13 final size:13
Alignment explanation
Indices: 43070--43124 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
43060 AAGTTCGATA
*
43070 AATTCAAATACTT
1 AATTGAAATACTT
43083 AATTGAAATACTT
1 AATTGAAATACTT
* *
43096 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
43110 AATTGAAATACTT
1 AATTGAAATACTT
43123 AA
1 AA
43125 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:43206 original size:32 final size:33
Alignment explanation
Indices: 43110--43208 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
43100 AACTCAACAT
* * *
43110 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
43143 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
43176 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
43208 A
1 A
43209 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:45561 original size:12 final size:12
Alignment explanation
Indices: 45540--45584 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
45530 TCGGGATAAA
45540 AACCGGTTTTTT
1 AACCGGTTTTTT
*
45552 AACCGATTTTTT
1 AACCGGTTTTTT
45564 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
45578 ATCCGGT
1 AACCGGT
45585 AAAATAACCG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 17 0.61
14 11 0.39
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:45569 original size:14 final size:13
Alignment explanation
Indices: 45539--45578 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
45529 TTCGGGATAA
45539 AAACCGGTTTTTT
1 AAACCGGTTTTTT
*
45552 -AACCGATTTTTT
1 AAACCGGTTTTTT
45564 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
45578 A
1 A
45579 TCCGGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
13 1 0.04
14 11 0.48
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (13 bp):
AAACCGGTTTTTT
Found at i:48229 original size:4 final size:4
Alignment explanation
Indices: 48220--48245 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48210 TTACGCAGTG
48220 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
48246 ACATGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:48903 original size:21 final size:21
Alignment explanation
Indices: 48854--48908 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
48844 CGATTTTCCC
*
48854 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
* **
48875 AA-TCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGGA
48895 AATTCGCAATGCGA
1 AATTCGCAATGCGA
48909 TACTGACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:48964 original size:20 final size:21
Alignment explanation
Indices: 48939--48990 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
48929 TAATAAAAAA
*
48939 TCGCAACGA-GATACTTACTT
1 TCGCAACGACGATACTGACTT
48959 TCGCAAC-ACGATACTGACTT
1 TCGCAACGACGATACTGACTT
*
48979 TTGCAACG-CGAT
1 TCGCAACGACGAT
48991 TTACTTAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
TCGCAACGACGATACTGACTT
Found at i:49555 original size:19 final size:19
Alignment explanation
Indices: 49512--49576 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
49502 CGAGAATGAG
* *
49512 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
49532 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
49551 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
49570 AATCGCA
1 AATCGCA
49577 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:49620 original size:20 final size:19
Alignment explanation
Indices: 49572--49737 Score: 145
Period size: 20 Copynumber: 9.1 Consensus size: 19
49562 GAAACCAAAA
*
49572 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49591 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49610 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
49630 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
49646 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
49663 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
49677 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
49696 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
49716 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
49736 TC
1 TC
49738 AACCAAAAGA
Statistics
Matches: 121, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 42 0.35
20 50 0.41
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:49662 original size:33 final size:33
Alignment explanation
Indices: 49625--49712 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
49615 GTTGCGATTT
* *
49625 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
49658 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
49691 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
49713 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:51817 original size:21 final size:21
Alignment explanation
Indices: 51793--51859 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
51783 TCATTCCTCG
51793 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
51814 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
51835 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
51856 AGAG
1 AGAG
51860 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:51817 original size:42 final size:42
Alignment explanation
Indices: 51737--51859 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
51727 GCTCGACTTG
* * *
51737 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGACC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGACC
* * * *
51779 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGACC
* * ** * *
51821 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
51860 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
42 61 0.94
43 4 0.06
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGACC
Found at i:55648 original size:14 final size:15
Alignment explanation
Indices: 55629--55666 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
55619 CATCAATTAA
55629 ACAAATCAA-CATTT
1 ACAAATCAATCATTT
*
55643 ACAAAT-AATCTTTT
1 ACAAATCAATCATTT
55657 ACAAATCAAT
1 ACAAATCAAT
55667 TAAACAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:56055 original size:20 final size:20
Alignment explanation
Indices: 56030--56085 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
56020 ATTCATTTGA
*
56030 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
56050 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
56070 TTATCGCAACGAGAAA
1 CTATCGCAACGAGAAA
56086 TGAAAATCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:56136 original size:19 final size:19
Alignment explanation
Indices: 56114--56158 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
56104 TTTCTCGTTG
56114 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
*
56133 CGA-TTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTA
56151 CGATTTTC
1 CGATTTTC
56159 TCGTTGCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:56294 original size:14 final size:13
Alignment explanation
Indices: 56275--56310 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
56265 CATCAATTAA
56275 ACAAATCAACATTT
1 ACAAATCAAC-TTT
*
56289 ACAAATCATCTTT
1 ACAAATCAACTTT
56302 ACAAATCAA
1 ACAAATCAA
56311 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (13 bp):
ACAAATCAACTTT
Found at i:58200 original size:18 final size:19
Alignment explanation
Indices: 58177--58212 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58167 ACGAAACTTA
58177 AAATCGCAACG-CAAAATG
1 AAATCGCAACGACAAAATG
58195 AAATCGCAACGACAAAAT
1 AAATCGCAACGACAAAAT
58213 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.11
Consensus pattern (19 bp):
AAATCGCAACGACAAAATG
Found at i:58272 original size:14 final size:14
Alignment explanation
Indices: 58253--58310 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
58243 TTTCATTTCG
58253 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
58267 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
58283 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
58299 CGTTGCGATTTT
1 CGTTGCGATTTT
58311 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:58283 original size:32 final size:33
Alignment explanation
Indices: 58236--58318 Score: 159
Period size: 32 Copynumber: 2.5 Consensus size: 33
58226 ACAAATCGCA
58236 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
58269 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
58301 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
58319 ATTGAGATAG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 32 0.65
33 17 0.35
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:58353 original size:20 final size:20
Alignment explanation
Indices: 58324--58365 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
58314 TTCGCATTGA
58324 GATAGCCATTTTAGCGTTGC
1 GATAGCCATTTTAGCGTTGC
* * *
58344 GATAGTCATTTTCGTGTTGC
1 GATAGCCATTTTAGCGTTGC
58364 GA
1 GA
58366 AAGTAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GATAGCCATTTTAGCGTTGC
Found at i:58864 original size:18 final size:18
Alignment explanation
Indices: 58838--58882 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
58828 GTCGATCAGA
*
58838 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
58856 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
58874 TGATGGCTC
1 TGATGGCTC
58883 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:60227 original size:20 final size:19
Alignment explanation
Indices: 60202--60255 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
60192 AATAGTTTCT
60202 GAAAATAAAAATCGCAACAC
1 GAAAAT-AAAATCGCAACAC
** *
60222 GAAAATGACTATCGCAACGC
1 GAAAAT-AAAATCGCAACAC
*
60242 GAAACTAAAATCGC
1 GAAAATAAAATCGC
60256 GTTGCGATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.13
Consensus pattern (19 bp):
GAAAATAAAATCGCAACAC
Found at i:60513 original size:22 final size:22
Alignment explanation
Indices: 60488--60531 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
60478 GATTTAGATA
60488 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
60510 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
60532 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:60744 original size:20 final size:20
Alignment explanation
Indices: 60719--60812 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
60709 GATTATGTAT
60719 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
60739 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
60759 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
60780 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
60800 TATCGCATTGCGA
1 TATCGCGTTGCGA
60813 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:60813 original size:20 final size:20
Alignment explanation
Indices: 60699--60813 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
60689 CGCTTTGAAA
*
60699 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
60720 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
60740 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
60760 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
60781 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
60801 ATCGCATTGCGAT
1 ATCGCATTGCGAT
60814 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:60832 original size:41 final size:41
Alignment explanation
Indices: 60741--60875 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
60731 AAAGTCAGTA
* * * ** *
60741 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
60781 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
60823 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
60864 TCGCGTTGCGAT
1 TCGCGTTGCGAT
60876 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:60846 original size:20 final size:20
Alignment explanation
Indices: 60802--60894 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
60792 ATAGTCAGTA
* **
60802 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
60823 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
60843 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
60864 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
60884 TCGCATTGCGA
1 TCGCATTGCGA
60895 ATTGAGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:60876 original size:41 final size:41
Alignment explanation
Indices: 60802--60897 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
60792 ATAGTCAGTA
*
60802 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
60843 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
60884 TCGCATTGCGAATT
1 TCGCATTGCGAATT
60898 GAGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:61111 original size:2 final size:2
Alignment explanation
Indices: 61104--61184 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
61094 TTATTTTCTC
61104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61185 GTCACCGTAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64457 original size:130 final size:130
Alignment explanation
Indices: 64318--64578 Score: 513
Period size: 130 Copynumber: 2.0 Consensus size: 130
64308 TTAACAACAT
64318 TATGATATGGACATATTTAATCAAAACGGCGTCATTTTAGTCTAAAATTTATTTTTTTCCAAGAA
1 TATGATATGGACATATTTAATCAAAACGGCGTCATTTTAGTCTAAAATTTATTTTTTTCCAAGAA
*
64383 ATCAGAACGACGTCGGTTTGATGTAAAGTTTAGTAAATACGTTAAAAAAATTAAAAGTAGTAAAA
66 ATCAGAACGACATCGGTTTGATGTAAAGTTTAGTAAATACGTTAAAAAAATTAAAAGTAGTAAAA
64448 TATGATATGGACATATTTAATCAAAACGGCGTCATTTTAGTCTAAAATTTATTTTTTTCCAAGAA
1 TATGATATGGACATATTTAATCAAAACGGCGTCATTTTAGTCTAAAATTTATTTTTTTCCAAGAA
64513 ATCAGAACGACATCGGTTTGATGTAAAGTTTAGTAAATACGTTAAAAAAATTAAAAGTAGTAAAA
66 ATCAGAACGACATCGGTTTGATGTAAAGTTTAGTAAATACGTTAAAAAAATTAAAAGTAGTAAAA
64578 T
1 T
64579 GGGAAAGAAT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (130 bp):
TATGATATGGACATATTTAATCAAAACGGCGTCATTTTAGTCTAAAATTTATTTTTTTCCAAGAA
ATCAGAACGACATCGGTTTGATGTAAAGTTTAGTAAATACGTTAAAAAAATTAAAAGTAGTAAAA
Found at i:76992 original size:2 final size:2
Alignment explanation
Indices: 76936--76975 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
76926 AATAGAGAGA
76936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76976 TATTATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76992 original size:17 final size:18
Alignment explanation
Indices: 76970--77008 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
76960 ATATATATAT
76970 ATATATT-ATTATTAAAA
1 ATATATTAATTATTAAAA
76987 ATATATTAATTATTAAAA
1 ATATATTAATTATTAAAA
77005 ATAT
1 ATAT
77009 TACAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATTAATTATTAAAA
Found at i:82967 original size:19 final size:19
Alignment explanation
Indices: 82939--82979 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
82929 AAAACATACA
82939 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
* *
82958 GGGGGTATCTGTACCCTCT
1 GGGGGAATCTGTACCCCCT
82977 GGG
1 GGG
82980 CAATCTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.27, G:0.37, T:0.24
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCCT
Found at i:91663 original size:21 final size:21
Alignment explanation
Indices: 91626--91665 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91616 CCCCCTTTGA
*
91626 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
91647 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
91666 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:93797 original size:13 final size:13
Alignment explanation
Indices: 93779--93803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93769 GCCATGTCAC
93779 ATTAATTATGAAT
1 ATTAATTATGAAT
93792 ATTAATTATGAA
1 ATTAATTATGAA
93804 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTAATTATGAAT
Found at i:95448 original size:21 final size:20
Alignment explanation
Indices: 95402--95455 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
95392 TTATAATATA
95402 TAATTAAAAATAAGATGAAT
1 TAATTAAAAATAAGATGAAT
* *
95422 TTATTAAAAATTAGAATG-AT
1 TAATTAAAAATAAG-ATGAAT
*
95442 TAAATTAACAATAA
1 T-AATTAAAAATAA
95456 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAAAATAAGATGAAT
Found at i:95795 original size:21 final size:21
Alignment explanation
Indices: 95771--95823 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
95761 AATTAATTCG
95771 ATTAATTCGATCGA-CTACCGA
1 ATTAATTCGATCGATC-ACCGA
95792 ATTAATTCGATCGATCACCGA
1 ATTAATTCGATCGATCACCGA
95813 ATTAATTCGAT
1 ATTAATTCGAT
95824 TGAAGAACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (21 bp):
ATTAATTCGATCGATCACCGA
Found at i:101593 original size:21 final size:21
Alignment explanation
Indices: 101556--101595 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
101546 CCCCCTTTGA
*
101556 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
101577 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
101596 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:103727 original size:13 final size:13
Alignment explanation
Indices: 103709--103733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103699 GCCATGTCAC
103709 ATTAATTATGAAT
1 ATTAATTATGAAT
103722 ATTAATTATGAA
1 ATTAATTATGAA
103734 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTAATTATGAAT
Found at i:105384 original size:21 final size:20
Alignment explanation
Indices: 105338--105391 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
105328 TTATAATATA
105338 TAATTAAAAATAAGATGAAT
1 TAATTAAAAATAAGATGAAT
* *
105358 TTATTAAAAATTAGAATG-AT
1 TAATTAAAAATAAG-ATGAAT
*
105378 TAAATTAACAATAA
1 T-AATTAAAAATAA
105392 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAAAATAAGATGAAT
Found at i:105742 original size:25 final size:21
Alignment explanation
Indices: 105708--105763 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
105698 AATTAATTCG
*
105708 ATTAATTCGATCGA-CTACCGA
1 ATTAATTCGATCGATC-ACTGA
105729 ATTAATTCGATCGATCACTGA
1 ATTAATTCGATCGATCACTGA
105750 ATTAATTCGATCGA
1 ATTAATTCGATCGA
105764 GGAACGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (21 bp):
ATTAATTCGATCGATCACTGA
Found at i:105913 original size:18 final size:18
Alignment explanation
Indices: 105890--105932 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
105880 CAACCCATAC
* *
105890 TATTTAAAATCTAATTAA
1 TATTTAAAATCCAATAAA
*
105908 TATTTAAGATCCAATAAA
1 TATTTAAAATCCAATAAA
105926 T-TTTAAA
1 TATTTAAA
105933 CATAAATCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (18 bp):
TATTTAAAATCCAATAAA
Done.