Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 60 of 182
Found at i:18519860 original size:108 final size:108
Alignment explanation
Indices: 18519611--18520228 Score: 997
Period size: 108 Copynumber: 5.7 Consensus size: 108
18519601 AATTTGGCTA
* * * *
18519611 AACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
18519676 TTATTTTTGAAAAGTTTTTTAAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAAG-TTTTGAAAAGGATATTGAGTC-ATTTGGTCG
*
18519721 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
18519786 TTATTTTGAAAAGTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAAGTTTTGAAAAGGATATTGAGTCATTTGGTCG
* * * *
18519829 AATGAGAAATCGAAACCTAGTACCTTGGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
18519894 TTATTTTGAAAAGTTTTTAAAAGGATATTTAG-CTATTTGGTCG
66 TTATTTTGAAAAGTTTTGAAAAGGATATTGAGTC-ATTTGGTCG
* * *
18519937 AACAAGAAATCGAAAACTAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
18520002 TTATTTTGAAAATTTTTGAAAAGGATATTGAGTCATTTGGTCG
66 TTATTTTGAAAAGTTTTGAAAAGGATATTGAGTCATTTGGTCG
18520045 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
18520110 TTATTTTGAAAATTTTTGAAAAGGATATTGAGTCATTTGGTCG
66 TTATTTTGAAAAGTTTTGAAAAGGATATTGAGTCATTTGGTCG
*
18520153 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
18520218 TTATTTTGAAA
66 TTATTTTGAAA
18520229 TATTTTCCTT
Statistics
Matches: 477, Mismatches: 28, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
107 1 0.00
108 401 0.84
109 12 0.03
110 63 0.13
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAAGTTTTGAAAAGGATATTGAGTCATTTGGTCG
Found at i:18522978 original size:17 final size:18
Alignment explanation
Indices: 18522944--18522989 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
18522934 CCGTTATGTC
18522944 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
18522959 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
18522976 CGCGACCGCGACCG
1 CGCGACCGCGACCG
18522990 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:18529601 original size:5 final size:5
Alignment explanation
Indices: 18529557--18529625 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
18529547 AAGAATGTTC
* *
18529557 AAAA- AAAAG AGAAAG -AAAG AAAAAG AAAGAA AAAAT AAAAG AAAAG
1 AAAAG AAAAG A-AAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAAAG
*
18529603 AAAAG AAAAG AAGA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
18529626 AGGAGAGGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
4 11 0.20
5 31 0.57
6 12 0.22
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:18529602 original size:27 final size:27
Alignment explanation
Indices: 18529559--18529624 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
18529549 GAATGTTCAA
18529559 AAAAAAGAGAAAGAAAGAAAA-AGAAAG
1 AAAAAAGAGAAAGAAAGAAAAGA-AAAG
*
18529586 AAAAAATA-AAAGAAAAGAAAAGAAAAG
1 AAAAAAGAGAAAG-AAAGAAAAGAAAAG
18529613 AAGAAAA-AGAAA
1 AA-AAAAGAGAAA
18529625 AAGGAGAGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 4 0.12
27 22 0.65
28 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAAGAGAAAGAAAGAAAAGAAAAG
Found at i:18529612 original size:31 final size:30
Alignment explanation
Indices: 18529557--18529627 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 30
18529547 AAGAATGTTC
18529557 AAAAAAAAGAGAAAGAAAGAAAAAGAAAGAA
1 AAAAAAAAGAGAAAGAAAGAAAAAG-AAGAA
18529588 AAAATAAAAGA-AAAGAAA-AGAAAAGAAGAA
1 AAAA-AAAAGAGAAAGAAAGA-AAAAGAAGAA
18529618 AAAGAAAAAG
1 AAA-AAAAAG
18529628 GAGAGGCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
30 14 0.38
31 17 0.46
32 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (30 bp):
AAAAAAAAGAGAAAGAAAGAAAAAGAAGAA
Found at i:18531019 original size:44 final size:43
Alignment explanation
Indices: 18530925--18531073 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 43
18530915 TAGATCTCTT
* * * * *
18530925 TGAAGTTGCAGTAGAGTAGGTTGAAATAACAAACCTTGTCTCTC
1 TGAAGTTGCAGTAGAGCAGGTTGAAGT-ACTAACCTTATCTCCC
* *
18530969 TAAAGTTGCAGTAGAGCAGGTTGAAGTCACTAACCTTATCCCCC
1 TGAAGTTGCAGTAGAGCAGGTTGAAGT-ACTAACCTTATCTCCC
* * * *
18531013 TGAAGTTCCAGTGGGGCAAGTTGAAGATA-TAAGTCC-TATCTCCC
1 TGAAGTTGCAGTAGAGCAGGTTGAAG-TACTAA--CCTTATCTCCC
*
18531057 TGAAGTTGCAGTGGAGC
1 TGAAGTTGCAGTAGAGC
18531074 GGGTCAAAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
43 3 0.03
44 80 0.93
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TGAAGTTGCAGTAGAGCAGGTTGAAGTACTAACCTTATCTCCC
Found at i:18531701 original size:44 final size:44
Alignment explanation
Indices: 18531653--18531802 Score: 155
Period size: 44 Copynumber: 3.4 Consensus size: 44
18531643 CTACAGTCGC
18531653 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
1 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
* * *
18531697 AGTGGAGCAGGTTGAAG-ATACAAGTCTTATTTCCCT-AAAGTTGT
1 AGTGGAGCAGGTTAAAGCA-ATAAGTCTTATCTCCCTGAAA-TTGT
** * * * *
18531741 AGTGGAGCAGACTGAAGCTACTAA-TCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGGTTAAAGC-AATAAGTCTTATCTCCCTGAAATTGT
18531785 AGTGGAGC-GGATTAAAGC
1 AGTGGAGCAGG-TTAAAGC
18531803 GATGAATCCC
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
43 5 0.06
44 77 0.89
45 4 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
Found at i:18531811 original size:44 final size:44
Alignment explanation
Indices: 18531636--18531805 Score: 148
Period size: 44 Copynumber: 3.9 Consensus size: 44
18531626 AATCAAACAT
* * * *
18531636 TATCTCCCT-ACAGTCGCAGTGGAGCAGGTTAAAGCAATAAGTCT
1 TATCTCCCTGA-AGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
* * ** * *
18531680 TATCTCCCTGAAATTGTAGTGGAGCAGGTTGAAGATACAAGTCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
* * ** * *
18531724 TATTTCCCTAAAGTTGTAGTGGAGCAGACTGAAGCTACTAA-TCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGA-TAAGTCC
18531768 TATCTCCCTGAAGTTGTAGTGGAGC-GGATTAAAGCGAT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGG-TTAAAGCGAT
18531806 GAATCCCATA
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.02
44 97 0.95
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
Found at i:18532273 original size:19 final size:19
Alignment explanation
Indices: 18532251--18532290 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18532241 ACTACATTAA
*
18532251 CCCAAACCAGGCCCAACAC
1 CCCAAACCAGGCCCAAAAC
**
18532270 CCCAAATTAGGCCCAAAAC
1 CCCAAACCAGGCCCAAAAC
18532289 CC
1 CC
18532291 GAAGCCTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.47, G:0.10, T:0.05
Consensus pattern (19 bp):
CCCAAACCAGGCCCAAAAC
Found at i:18532659 original size:12 final size:13
Alignment explanation
Indices: 18532622--18532662 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
18532612 ATTTTTGAAA
18532622 AAAATACAAAAA-
1 AAAATACAAAAAG
*
18532634 AAAATAGAGAAAAG
1 AAAATACA-AAAAG
18532648 AAAATA-AAAAAG
1 AAAATACAAAAAG
18532660 AAA
1 AAA
18532663 CGTTGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
13 5 0.19
14 6 0.23
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAATACAAAAAG
Found at i:18534360 original size:102 final size:103
Alignment explanation
Indices: 18534225--18534453 Score: 361
Period size: 102 Copynumber: 2.2 Consensus size: 103
18534215 ATTGAACATA
* * * *
18534225 AAAGGGGGTTGCTAAGTGCTGATTCCCCTAAGGGGTTGTTAAGTGTTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
* * * *
18534290 TGGTTGCTAAGTTCTGATTCCACTATATTTTAAATGTG
66 AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
18534328 -AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
*
18534392 AGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
*
18534430 AAAAGGGGTTGCTAAGTGCTGATT
1 AAAGGGGGTTGCTAAGTGCTGATT
18534454 ACCCGATTCA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
102 93 0.81
103 22 0.19
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
Found at i:18534482 original size:76 final size:76
Alignment explanation
Indices: 18534356--18534525 Score: 261
Period size: 76 Copynumber: 2.2 Consensus size: 76
18534346 TGATTCCCCC
*
18534356 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
18534420 CTTAAATGTGAA
66 CTTAAATGTG-A
* * * *
18534432 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
* *
18534497 TTTGAATGTGA
66 CTTAAATGTGA
18534508 AAGGGGTTGCTAAGTGCT
1 AAGGGGTTGCTAAGTGCT
18534526 AATTCCCTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 77 0.90
77 9 0.10
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
CTTAAATGTGA
Found at i:18534547 original size:76 final size:75
Alignment explanation
Indices: 18534356--18534568 Score: 259
Period size: 76 Copynumber: 2.8 Consensus size: 75
18534346 TGATTCCCCC
* *
18534356 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATC
18534421 TTAAATGTGAA
65 TTAAATGTGAA
* *
18534432 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTA-T
* *
18534497 TTTGAATGTG-A
64 CTTAAATGTGAA
* * ** * *
18534508 AAGGGGTTGCTAAGTGCTAATTCCCTGAGTCCCTAGTGGTTGT-TAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCC-GAATCATTGGTGGTT-TCTAAGTGCTGATTCCACCG
18534569 ATAACGGATA
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
75 3 0.03
76 107 0.89
77 10 0.08
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATCT
TAAATGTGAA
Found at i:18538579 original size:22 final size:22
Alignment explanation
Indices: 18538532--18538576 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
18538522 ATGCAATCTT
*
18538532 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCATAGA
* *
18538554 AGATATGATTTTGTAATCATAGA
1 AGATATGA-TATGCAATCATAGA
18538577 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCATAGA
Found at i:18539014 original size:23 final size:22
Alignment explanation
Indices: 18538967--18539015 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
18538957 CCTATATTTG
* *
18538967 TTATTTTTTATTATTAAATTAA
1 TTATTTTATATTATTAAACTAA
18538989 TTATTTTAATATTATTAATACT-A
1 TTATTTT-ATATTATTAA-ACTAA
18539012 TTAT
1 TTAT
18539016 GTGGCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 14 0.61
24 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTTTATATTATTAAACTAA
Found at i:18539498 original size:3 final size:3
Alignment explanation
Indices: 18539492--18539518 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18539482 TTTTCTTTTC
18539492 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
18539519 GTTCTTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18544870 original size:9 final size:9
Alignment explanation
Indices: 18544856--18544889 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
18544846 TTGTTCCATT
18544856 CAATTAATA
1 CAATTAATA
18544865 CAATT-A-A
1 CAATTAATA
18544872 CAATTAATA
1 CAATTAATA
18544881 CAATTAATA
1 CAATTAATA
18544890 ATTTGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.26
8 2 0.09
9 15 0.65
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
CAATTAATA
Found at i:18544875 original size:16 final size:16
Alignment explanation
Indices: 18544856--18544892 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
18544846 TTGTTCCATT
18544856 CAATTAATACAATTAA
1 CAATTAATACAATTAA
18544872 CAATTAATACAATTAA
1 CAATTAATACAATTAA
*
18544888 TAATT
1 CAATT
18544893 TGATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
CAATTAATACAATTAA
Found at i:18544983 original size:16 final size:16
Alignment explanation
Indices: 18544962--18545003 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18544952 AATAATTTGA
*
18544962 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
18544978 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
18544994 TAGTTTTAAT
1 TAATTTTAAT
18545004 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:18544987 original size:22 final size:23
Alignment explanation
Indices: 18544977--18545032 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
18544967 TTACTAACAA
* * *
18544977 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
18544999 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
18545022 TTAATTTTAAT
1 TTAATTTTAAT
18545033 GCAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:18546032 original size:53 final size:53
Alignment explanation
Indices: 18545969--18546074 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
18545959 GGAAATTGCA
*
18545969 AAATTACGATATTTTGCACCGGGGTAAGTAAACATGTGATTTAATGCATTATT
1 AAATTACGATATTTTGCACCGAGGTAAGTAAACATGTGATTTAATGCATTATT
18546022 AAATTACGATATTTTGCACCGAGGTAAGTAAACATGTGATTTAATGCATTATT
1 AAATTACGATATTTTGCACCGAGGTAAGTAAACATGTGATTTAATGCATTATT
18546075 TTGATATTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (53 bp):
AAATTACGATATTTTGCACCGAGGTAAGTAAACATGTGATTTAATGCATTATT
Found at i:18546366 original size:102 final size:103
Alignment explanation
Indices: 18546230--18546459 Score: 345
Period size: 102 Copynumber: 2.2 Consensus size: 103
18546220 ATTGAATATA
* *
18546230 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGTTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
* * * * *
18546295 TGGTTGCTAAGTTCTGATTCCACTGTATTTTAAATGTG
66 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
18546333 -AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
18546397 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* * * *
18546435 AAAAGGGTTTCCTAAGTGTTGATTC
1 AAAGGGGGTTGCTAAGTGCTGATTC
18546460 TCTGATTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 94 0.82
103 20 0.18
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:18546550 original size:76 final size:76
Alignment explanation
Indices: 18546361--18546573 Score: 248
Period size: 76 Copynumber: 2.8 Consensus size: 76
18546351 TGATTCCCCC
* *
18546361 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
18546426 TTAAATGTGAA
66 TTAAATGTGAA
* * * * * * * * *
18546437 AAGGGTTTCCTAAGTGTTGATTCTCTGATTTATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
18546502 TTTGAATGTG-A
65 CTTAAATGTGAA
* * ** *
18546513 AAGGGGTTGCTAAGTGCTAATTCCCCGAGTCCCTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
18546574 ATAACGGATA
Statistics
Matches: 110, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
76 101 0.92
77 9 0.08
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGAA
Found at i:18548852 original size:4 final size:4
Alignment explanation
Indices: 18548843--18548867 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18548833 TTCTCATAAT
18548843 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
18548868 ATTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:18550309 original size:13 final size:14
Alignment explanation
Indices: 18550291--18550323 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18550281 TAATTACAAG
18550291 TATAATGT-AAATT
1 TATAATGTCAAATT
*
18550304 TATAATTTCAAATT
1 TATAATGTCAAATT
18550318 TATAAT
1 TATAAT
18550324 TCATCTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TATAATGTCAAATT
Found at i:18550482 original size:44 final size:44
Alignment explanation
Indices: 18550414--18550508 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
18550404 AAAACATTGA
*
18550414 GTAGAGATAGAAAAAAGCTTACTTGAATGGCAACACAAGTTTAT
1 GTAGGGATAGAAAAAAGCTTACTTGAATGGCAACACAAGTTTAT
18550458 GTAGGGATAGAAAAAAGCTTACTTGAATGGCAACACAAGTTTAT
1 GTAGGGATAGAAAAAAGCTTACTTGAATGGCAACACAAGTTTAT
18550502 GTAGGGA
1 GTAGGGA
18550509 AATAACCTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (44 bp):
GTAGGGATAGAAAAAAGCTTACTTGAATGGCAACACAAGTTTAT
Found at i:18560374 original size:29 final size:31
Alignment explanation
Indices: 18560336--18560420 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 31
18560326 TGATGATCCA
*
18560336 ATTCACATGTTAAGCATGCCATA-T-TTCTG
1 ATTCGCATGTTAAGCATGCCATATTATTCTG
*
18560365 ATTCGCATGTTAAGCATGTCATATTTTTTATTCTG
1 ATTCGCATGTTAAGCATGCCATA----TTATTCTG
18560400 ATTCGCATGTTAAGCATGCCA
1 ATTCGCATGTTAAGCATGCCA
18560421 CTGTGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 21 0.45
34 1 0.02
35 25 0.53
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (31 bp):
ATTCGCATGTTAAGCATGCCATATTATTCTG
Found at i:18569061 original size:20 final size:21
Alignment explanation
Indices: 18569038--18569076 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18569028 AAATACATTC
18569038 AAAACATCTAA-TAATATAAA
1 AAAACATCTAATTAATATAAA
* *
18569058 AAAACTTGTAATTAATATA
1 AAAACATCTAATTAATATA
18569077 TATTCCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAACATCTAATTAATATAAA
Found at i:18574296 original size:5 final size:5
Alignment explanation
Indices: 18574286--18574353 Score: 55
Period size: 5 Copynumber: 13.6 Consensus size: 5
18574276 TATTCGATAA
* * * ** * *
18574286 CATAT CTTAT CATAT CATAA CGTAT CGGAT CATAT CATAT CAGAT CATAC
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
**
18574336 CATAT CGGAT CATAT CAT
1 CATAT CATAT CATAT CAT
18574354 GTCACATAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (5 bp):
CATAT
Found at i:18574321 original size:30 final size:30
Alignment explanation
Indices: 18574286--18574353 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
18574276 TATTCGATAA
* * *
18574286 CATATCTTATCATATCATAACGTATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
*
18574316 CATATCATATCAGATCATACCATATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
18574346 CATATCAT
1 CATATCAT
18574354 GTCACATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CATATCATATCAGATCATAACATATCGGAT
Found at i:18580846 original size:21 final size:21
Alignment explanation
Indices: 18580803--18580855 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
18580793 ACAAAGCCCA
*
18580803 GGCTGTGTGGCTCAGTGACAT
1 GGCTGTGTGGCTCAGGGACAT
* *
18580824 GG-TCGTGTGGCTTAGGGATAT
1 GGCT-GTGTGGCTCAGGGACAT
18580845 GGCTGTGTGGC
1 GGCTGTGTGGC
18580856 CAAACTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.11, C:0.15, G:0.43, T:0.30
Consensus pattern (21 bp):
GGCTGTGTGGCTCAGGGACAT
Found at i:18580911 original size:12 final size:12
Alignment explanation
Indices: 18580894--18580920 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18580884 CAAGTGGCTG
18580894 TGTGCCCGATCA
1 TGTGCCCGATCA
18580906 TGTGCCCGATCA
1 TGTGCCCGATCA
18580918 TGT
1 TGT
18580921 AGAATTCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (12 bp):
TGTGCCCGATCA
Found at i:18583496 original size:35 final size:35
Alignment explanation
Indices: 18583455--18583525 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
18583445 TGTCTAGGAT
* *
18583455 AACATATCTTTGAATATCACCTTCCATATTTGCCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
*
18583490 AACATATCTTTGAAGATCACTTTCCATATTTACCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
18583525 A
1 A
18583526 GCTCCGGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (35 bp):
AACATATCTTTGAAGATCACCTTCCATATTTACCA
Found at i:18588621 original size:35 final size:35
Alignment explanation
Indices: 18588581--18588651 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
18588571 TCTAGGATCA
*
18588581 CATATCTTTCAAGATCACCTTCCATATTTTCCAAG
1 CATATCTTTCAAGATCACCTTCCATATTTACCAAG
* *
18588616 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTCAAGATCACCTTCCATATTTACCAAG
18588651 C
1 C
18588652 TCTGAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (35 bp):
CATATCTTTCAAGATCACCTTCCATATTTACCAAG
Found at i:18600618 original size:17 final size:17
Alignment explanation
Indices: 18600596--18600638 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18600586 AGAGTTCGCA
*
18600596 GGTGAGCTCTCAAG-CTT
1 GGTGAGCTCGC-AGTCTT
18600613 GGTGAGCTCGCAGTCTT
1 GGTGAGCTCGCAGTCTT
18600630 GGTGAGCTC
1 GGTGAGCTC
18600639 ACCGTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (17 bp):
GGTGAGCTCGCAGTCTT
Found at i:18600683 original size:17 final size:17
Alignment explanation
Indices: 18600663--18600696 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18600653 CTTGCATATT
*
18600663 TGGTGAGCTTGTAGTTC
1 TGGTGAGCTCGTAGTTC
18600680 TGGTGAGCTCGTAGTTC
1 TGGTGAGCTCGTAGTTC
18600697 GCAGTTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (17 bp):
TGGTGAGCTCGTAGTTC
Found at i:18616066 original size:7 final size:7
Alignment explanation
Indices: 18616046--18616089 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
18616036 CTTCTTCATC
18616046 ATCACAT
1 ATCACAT
* *
18616053 CTTACAT
1 ATCACAT
18616060 ATCACAT
1 ATCACAT
18616067 ATCACAT
1 ATCACAT
18616074 ATCACAT
1 ATCACAT
18616081 ATCACAT
1 ATCACAT
18616088 AT
1 AT
18616090 TGGTGGTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (7 bp):
ATCACAT
Found at i:18621908 original size:15 final size:15
Alignment explanation
Indices: 18621867--18621909 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18621857 TTTCTCATCA
*
18621867 TTTCCTACTTCATAAC
1 TTTCCTAC-TCTTAAC
* *
18621883 TTTCATCCTCTTAAC
1 TTTCCTACTCTTAAC
18621898 TTTCCTACTCTT
1 TTTCCTACTCTT
18621910 CCCCTTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTCCTACTCTTAAC
Found at i:18622015 original size:19 final size:21
Alignment explanation
Indices: 18621991--18622031 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
18621981 TTAGCTTCGC
18621991 TACTCTCA-CCTAT-TTTTCT
1 TACTCTCATCCTATCTTTTCT
*
18622010 TACTCTCATCGTATCTTTTCT
1 TACTCTCATCCTATCTTTTCT
18622031 T
1 T
18622032 TAGAGCGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (21 bp):
TACTCTCATCCTATCTTTTCT
Found at i:18628845 original size:50 final size:50
Alignment explanation
Indices: 18628777--18628886 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
18628767 CTCTATTCAA
*
18628777 TGGG-ACATGTGAGAGGAAATAAGGGGAACGTTAACTTTATGCTTCACTT
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
* **
18628826 TGGGAACATGTGAGGGGAAATAAGGAGAGTGTTAACTTTATGCTTCACTT
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
*
18628876 TTGGAACATGT
1 TGGGAACATGT
18628887 TTGACTCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (50 bp):
TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
Found at i:18629111 original size:39 final size:39
Alignment explanation
Indices: 18629067--18629245 Score: 209
Period size: 39 Copynumber: 4.6 Consensus size: 39
18629057 AATATGTTTT
* *
18629067 TGAGTATTGTGACATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
18629106 TGAGTATTGCGAAAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** *
18629145 TGAGTATTGTGATATATGCTTAAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
18629184 TGA-TATTGTTG-TATATGCTTAAAGGTTATGTGATTATA
1 TGAGTATTG-TGATATATGCTTAAATGTTATGTGATTATA
* * * *
18629222 TGTGTAATGTGATACATGCCTAAA
1 TGAGTATTGTGATATATGCTTAAA
18629246 AGTGAATATG
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 33 0.28
39 87 0.73
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:18634028 original size:42 final size:40
Alignment explanation
Indices: 18633981--18634067 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 40
18633971 TATTCTACTT
*
18633981 TTGGTCCATCTATCTCAACTCATAAAGTATTTTAGGGTCTGC
1 TTGGTCCATCTATCCCAACTCATAAAGTA-TTT-GGGTCTGC
18634023 TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
1 TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
18634063 TTGGT
1 TTGGT
18634068 TTGAAGGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 13 0.30
41 3 0.07
42 28 0.64
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
Found at i:18637905 original size:15 final size:15
Alignment explanation
Indices: 18637885--18637914 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18637875 ACTGATATAC
18637885 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
18637900 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
18637915 AATTTGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:18638022 original size:106 final size:105
Alignment explanation
Indices: 18637901--18638262 Score: 492
Period size: 106 Copynumber: 3.4 Consensus size: 105
18637891 GGAAAAAAAG
* *
18637901 AAAAAGGAAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAA
*
18637966 AAATTATTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
65 AAATTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
* * * * *
18638007 AAAAAGTAAAAAAAAAAAATTTTGGTGCTGGTCTGTTAATGGCCAGCACCCAGTACAATTTTTAA
1 AAAAAGT---AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TTTAAA
* * *
18638072 AAAAAATTCTTTTTTTTCATGTTAGAATCAGATATCAGAATACGA
62 AAAAAATT-TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
* * * *
18638117 AAAAAAT-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAAAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
* * *
18638181 ATTCTTTTTTTTTCGTTTCAGAATCAGATATCAATATACGA
66 AAT-TTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
18638222 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
18638263 AGCTCCACCT
Statistics
Matches: 221, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
105 48 0.22
106 79 0.36
109 53 0.24
110 41 0.19
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (105 bp):
AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
AATTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
Found at i:18638610 original size:108 final size:109
Alignment explanation
Indices: 18638470--18638844 Score: 473
Period size: 107 Copynumber: 3.4 Consensus size: 109
18638460 ATTACAAGGT
* * *
18638470 GGTGCCCGCCATTGACAAGCCAGCA-TCAAAAATTTTTTTTTACTTTTTT-GTATACTGATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTTTTCGTATACTGATATCT
18638533 GATTCTGACGCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
66 GATTCTGAC-CGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
* * *
18638578 GATGCTGGCCATTGACAGGCCAGCACCC-AAAA-TTTTTTTTA-TTTTGTTCGTATACTAATATC
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTT-TTCGTATACTGATATC
*
18638640 TGATTCTGACACGAAAAAAAAAAGAA--TTTTTTTTAATTTGTACTG
65 TGATTCTGAC-CG-AAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
*
18638685 GGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTACTTTTTTCGTATACTGATA
1 GGTGCCGGCCATTGACAGGCCAGCACCC--AAAAA-TTTTTTTTTACTTTTTTCGTATACTGATA
* * *
18638750 TCTGATTTTGA-C--ACAAAAAATAATTTTTTTTTTAAAATTGTACTG
63 TCTGATTCTGACCGAAAAAAAAAGAATTTTTTTTTT-AAATTGTACTG
* * *
18638795 GGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAGTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCC-AAAAATTTTTTTTTACTTTTT
18638845 CTTTTTTTTT
Statistics
Matches: 234, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
106 4 0.02
107 63 0.27
108 63 0.27
109 27 0.12
110 41 0.18
112 32 0.14
113 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (109 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTTTTCGTATACTGATATCT
GATTCTGACCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
Found at i:18638697 original size:107 final size:107
Alignment explanation
Indices: 18638470--18638844 Score: 463
Period size: 108 Copynumber: 3.4 Consensus size: 107
18638460 ATTACAAGGT
* * * *
18638470 GGTGCCCGCCATTGACAAGCCAGCATCAAAAATTTTTTTTTACTTTTTT-GTATACTGATATCTG
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTTTTCGTATACTGATATCTG
*
18638534 ATTCTGACGCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
66 ATTCTGACACGAAAAAAAAAGAA--TTTTTTTTAAATTGTACTG
* * *
18638578 GATGCTGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTA-TTTTGTTCGTATACTAATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTT-TTCGTATACTGATATCT
*
18638641 GATTCTGACACGAAAAAAAAAAGAATTTTTTTTAATTTGTACTG
65 GATTCTGACACG-AAAAAAAAAGAATTTTTTTTAAATTGTACTG
*
18638685 GGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTACTTTTTTCGTATACTGATA
1 GGTGCCGGCCATTGACAGGCCAGCACCC---AAAA-TTTTTTTTTACTTTTTTCGTATACTGATA
* * **
18638750 TCTGATTTTGACAC-AAAAAATAA-TTTTTTTTTTAAAATTGTACTG
62 TCTGATTCTGACACGAAAAAAAAAGAATTTTTTTT-AAATTGTACTG
* * *
18638795 GGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAGTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTTTACTTTTT
18638845 CTTTTTTTTT
Statistics
Matches: 235, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
106 4 0.02
107 54 0.23
108 64 0.27
109 26 0.11
110 48 0.20
112 35 0.15
113 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (107 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTTTTCGTATACTGATATCTG
ATTCTGACACGAAAAAAAAAGAATTTTTTTTAAATTGTACTG
Found at i:18638852 original size:17 final size:17
Alignment explanation
Indices: 18638830--18638862 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18638820 CCCAAAAAAG
18638830 TTTTTTTTCCTTTTTCT
1 TTTTTTTTCCTTTTTCT
18638847 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
18638863 GTATATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCCTTTTTCT
Found at i:18640890 original size:19 final size:17
Alignment explanation
Indices: 18640866--18640917 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
18640856 AAATAATTTA
18640866 AAAATTATAAAAATATTC
1 AAAA-TATAAAAATATTC
18640884 TAAAAT-TAAAAATAATTC
1 -AAAATATAAAAAT-ATTC
18640902 AAAAATATAAAAATAT
1 -AAAATATAAAAATAT
18640918 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAAAAATATTC
Found at i:18640925 original size:36 final size:37
Alignment explanation
Indices: 18640856--18640931 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
18640846 TCATGCCAAC
* ***
18640856 AAATAATTTAAAAATTATAAAAATATTCTAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
18640893 AAATAATTCAAAAA-TATAAAAATATAAAAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
18640929 AAA
1 AAA
18640932 GATAGCATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 22 0.63
37 13 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (37 bp):
AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
Found at i:18642450 original size:106 final size:106
Alignment explanation
Indices: 18642261--18642585 Score: 508
Period size: 106 Copynumber: 3.1 Consensus size: 106
18642251 CATATATCAA
* *
18642261 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTACTAGAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
*
18642326 CTATCACACGCGTAGGTATGTGAAAATCACATATTTATAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
*
18642367 ATTGCACATTGAAACAAAGTTCATGTATGAATTTGATATTTATCCCTTTATATTTATTAGAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
* *
18642432 CTATCACACACGTCGGTATGTGAAAATCACATATTTAGAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
* * *
18642473 ATTGCACATTGAAACAAAATTCATGTATAAATTTGAGATTTATCCCTTTATATTTGTTAGAAAAT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAG-AAAT
* * * *
18642538 T-TATTACACGCGTATGTATATGAAAATCGCATATTTAGAAT
65 TCTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
18642579 ATGTGCA
1 AT-TGCA
18642586 TGCATTTAAA
Statistics
Matches: 201, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
106 192 0.96
107 9 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (106 bp):
ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
Found at i:18643878 original size:11 final size:11
Alignment explanation
Indices: 18643837--18643877 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
18643827 TGTTTTTTTC
18643837 ACTATTTTACT
1 ACTATTTTACT
*
18643848 ACCATTTTACT
1 ACTATTTTACT
*
18643859 ACTATTTTGCT
1 ACTATTTTACT
18643870 ACTATTTT
1 ACTATTTT
18643878 GTTGTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (11 bp):
ACTATTTTACT
Found at i:18646785 original size:62 final size:62
Alignment explanation
Indices: 18646704--18646827 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
18646694 CAATCCCACC
* *
18646704 AATTTAGTCTTGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATAGCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
*
18646766 AATTTAGTCATGTAAATTAACTACCAAATTTACCATTCAAGTGACATCTATACCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
18646828 GACTACCACT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (62 bp):
AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
Found at i:18651373 original size:11 final size:11
Alignment explanation
Indices: 18651357--18651381 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18651347 GATGATTAAC
18651357 AAACAAAACAT
1 AAACAAAACAT
18651368 AAACAAAACAT
1 AAACAAAACAT
18651379 AAA
1 AAA
18651382 AAAGGGGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (11 bp):
AAACAAAACAT
Found at i:18652680 original size:12 final size:12
Alignment explanation
Indices: 18652663--18652687 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18652653 TTCATCATAT
18652663 TCAATTTATCAA
1 TCAATTTATCAA
18652675 TCAATTTATCAA
1 TCAATTTATCAA
18652687 T
1 T
18652688 TCTTCATGAT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAATTTATCAA
Found at i:18653506 original size:21 final size:20
Alignment explanation
Indices: 18653478--18653528 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18653468 CATTTGATTG
*
18653478 TTTTATTTTAT-ATATTTTA
1 TTTTATTTTATAAAATTTTA
*
18653497 TATTTCATTTGATAAAATTTTA
1 T-TTT-ATTTTATAAAATTTTA
18653519 TTTTATTTTA
1 TTTTATTTTA
18653529 ATTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 9 0.35
22 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATAAAATTTTA
Found at i:18654329 original size:71 final size:71
Alignment explanation
Indices: 18654232--18654374 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
18654222 TGAACAAGGG
* ** * *
18654232 GAAATTGTTATAGCCCTACCTTAAGGATGACACGTGGCAGAACGAATGACAACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
*
18654297 TAGGTA
66 CAGGTA
* *
18654303 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCGGAACAAATGACGACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
18654368 CAGGTA
66 CAGGTA
18654374 G
1 G
18654375 GCCCCCTTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (71 bp):
GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
CAGGTA
Found at i:18657129 original size:18 final size:19
Alignment explanation
Indices: 18657108--18657148 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
18657098 TATGTATCTA
*
18657108 TATTGTTTTAGTT-TTTTT-
1 TATTATTTTA-TTATTTTTC
18657126 TATTATTTTATTATTTTTC
1 TATTATTTTATTATTTTTC
18657145 TATT
1 TATT
18657149 TCGTTTCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTATTTTATTATTTTTC
Found at i:18659010 original size:16 final size:17
Alignment explanation
Indices: 18658979--18659014 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
18658969 AATAAATGCT
18658979 TTAAAATTATAAAAAAA
1 TTAAAATTATAAAAAAA
18658996 TTAAAATTA-AAAAAAA
1 TTAAAATTATAAAAAAA
18659012 TTA
1 TTA
18659015 GCGTAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATTATAAAAAAA
Found at i:18660814 original size:19 final size:19
Alignment explanation
Indices: 18660781--18660819 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18660771 TAAAATATTG
*
18660781 AAAAATTAAATTTAACTAAA
1 AAAAATCAAATTTAAC-AAA
18660801 AAAAATCAAA-TTAACAAA
1 AAAAATCAAATTTAACAAA
18660819 A
1 A
18660820 TATGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATCAAATTTAACAAA
Found at i:18662084 original size:15 final size:15
Alignment explanation
Indices: 18662047--18662098 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
18662037 TTAAATTAAG
* **
18662047 TTAATTAATAAAAAA
1 TTAATTAATTAAACC
* *
18662062 TTATTTAATTAAGCC
1 TTAATTAATTAAACC
*
18662077 TTAATTAATTAAATC
1 TTAATTAATTAAACC
18662092 TTAATTA
1 TTAATTA
18662099 CAATTAACCA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAATTAATTAAACC
Found at i:18669035 original size:42 final size:43
Alignment explanation
Indices: 18668989--18669069 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
18668979 ATAAACACTG
18668989 CTAAAGATCATATTCTTTAG-CACGTTTGTAGCAAAAGCACCA
1 CTAAAGATCATATTCTTTAGTCACGTTTGTAGCAAAAGCACCA
* * ** *
18669031 CTAAAGATCATGTTTTTTAGTGGCGTTTGTAGGAAAAGC
1 CTAAAGATCATATTCTTTAGTCACGTTTGTAGCAAAAGC
18669070 GCTGCTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 18 0.55
43 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (43 bp):
CTAAAGATCATATTCTTTAGTCACGTTTGTAGCAAAAGCACCA
Found at i:18669078 original size:43 final size:42
Alignment explanation
Indices: 18668984--18669078 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
18668974 TTCCTATAAA
18668984 CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
1 CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
** * * ** *
18669026 CACCACTAAAGATCATGTTTTTTAGTGGCGTTTGTAGGAAAAG
1 CACTGCTAAAGATCATATTCTTTAG-CACGTTTGTAGCAAAAG
*
18669069 CGCTGCTAAA
1 CACTGCTAAA
18669079 TACCATGACT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 21 0.50
43 21 0.50
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (42 bp):
CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
Found at i:18672252 original size:36 final size:37
Alignment explanation
Indices: 18672212--18672286 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
18672202 TGCCCTAACC
18672212 ATTCATGAAAAGATTCTATGAATAACTTATGAA-AAG
1 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
18672248 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
1 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
18672285 AT
1 AT
18672287 CTCAAGACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (37 bp):
ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
Found at i:18672257 original size:12 final size:12
Alignment explanation
Indices: 18672212--18672269 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
18672202 TGCCCTAACC
18672212 ATTCATGAAAAG
1 ATTCATGAAAAG
18672224 ATTCTATGAATAA-
1 ATTC-ATGAA-AAG
*
18672237 CTT-ATGAAAAG
1 ATTCATGAAAAG
18672248 ATTCATGAAAAG
1 ATTCATGAAAAG
18672260 ATTCTATGAA
1 ATTC-ATGAA
18672270 TAACTTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 16 0.41
13 12 0.31
14 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (12 bp):
ATTCATGAAAAG
Found at i:18673540 original size:195 final size:194
Alignment explanation
Indices: 18673208--18673599 Score: 676
Period size: 195 Copynumber: 2.0 Consensus size: 194
18673198 GGGGATGAAG
18673208 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
1 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
*
18673273 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAGCATTCTTTTCAATATGCATGACATCAAGA
66 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
**
18673338 TTGTGTCGCAAAATGTGATGCTTTTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTTCCACAA
131 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTC-TTTTTTTCCACAA
* * * *
18673403 GTCACGTCGAATTCCCATGTCAACTAGATCAAGTCAACTCTGAAGATTGTCTTTCAATTTTCTAT
1 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
* *
18673468 TGACATTTAGAATTGTCCCGATGATGTTCTTGCAAACATTCTTTTCAATATGCATGACATCAAGA
66 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
* *
18673533 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAGATACTTCTTTTTTTCCACAA
131 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTCCACAA
18673597 GTC
1 GTC
18673600 CGCCTCATTA
Statistics
Matches: 186, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
194 16 0.09
195 170 0.91
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (194 bp):
GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTCCACAA
Found at i:18676462 original size:54 final size:55
Alignment explanation
Indices: 18676380--18676494 Score: 214
Period size: 54 Copynumber: 2.1 Consensus size: 55
18676370 TAACTTACTG
18676380 GGTTTTGAATTTCTCATTTGACCCAAATAATCAGATATCCTTTTCAAAATGCAT-
1 GGTTTTGAATTTCTCATTTGACCCAAATAATCAGATATCCTTTTCAAAATGCATA
*
18676434 GGTTTTGATTTTCTCATTTGACCCAAATAATCAGATATCCTTTTCAAAATGCATA
1 GGTTTTGAATTTCTCATTTGACCCAAATAATCAGATATCCTTTTCAAAATGCATA
18676489 GGTTTT
1 GGTTTT
18676495 AAAAGTCAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 53 0.90
55 6 0.10
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (55 bp):
GGTTTTGAATTTCTCATTTGACCCAAATAATCAGATATCCTTTTCAAAATGCATA
Found at i:18677726 original size:6 final size:7
Alignment explanation
Indices: 18677704--18677756 Score: 81
Period size: 7 Copynumber: 7.4 Consensus size: 7
18677694 CCATTTTTAC
18677704 TTTCATT
1 TTTCATT
18677711 TTTCATT
1 TTTCATT
18677718 TTTCATT
1 TTTCATT
18677725 TTTCA-T
1 TTTCATT
18677731 TTTCATTT
1 TTTCA-TT
18677739 TTTCATT
1 TTTCATT
18677746 TTTCACTT
1 TTTCA-TT
18677754 TTT
1 TTT
18677757 TTTGAGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.14
7 26 0.60
8 11 0.26
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCATT
Found at i:18678652 original size:6 final size:6
Alignment explanation
Indices: 18678641--18678716 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
18678631 TCTTCTCTCT
* * * ** *
18678641 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTC TTCTT-T
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA
* * *
18678689 TTTTGT TTTTGA TCTTGA TTTTGC TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
18678717 TTTTTTGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
5 2 0.03
6 54 0.93
7 2 0.03
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:18678699 original size:30 final size:30
Alignment explanation
Indices: 18678660--18678723 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
18678650 TCATTTTGAC
* *
18678660 TTTGATTTTGATTTTGATTTTTCTTCTTTT
1 TTTGATTTTGATCTTGATTTTGCTTCTTTT
* *
18678690 TTTGTTTTTGATCTTGATTTTGCTTTTTTT
1 TTTGATTTTGATCTTGATTTTGCTTCTTTT
18678720 TTTG
1 TTTG
18678724 CTTGAATCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.08, C:0.06, G:0.12, T:0.73
Consensus pattern (30 bp):
TTTGATTTTGATCTTGATTTTGCTTCTTTT
Found at i:18686983 original size:19 final size:20
Alignment explanation
Indices: 18686959--18686996 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18686949 GATTATTTAT
18686959 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
18686978 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
18686997 TTATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:18686997 original size:59 final size:59
Alignment explanation
Indices: 18686934--18687068 Score: 243
Period size: 59 Copynumber: 2.3 Consensus size: 59
18686924 TATGATTATC
18686934 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
* * *
18686993 ATTATTATGAAATATGATTATTTATTTAATTAATCAGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
18687052 ATTATTATGAAATATGA
1 ATTATTATGAAATATGA
18687069 CCCAGCTTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 73 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
Found at i:18690617 original size:18 final size:18
Alignment explanation
Indices: 18690594--18690665 Score: 126
Period size: 18 Copynumber: 4.0 Consensus size: 18
18690584 GACCGTTTAT
18690594 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
18690612 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
18690630 GGCACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
18690648 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
18690666 AGTAGTTGGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:18691658 original size:47 final size:47
Alignment explanation
Indices: 18691585--18691678 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
18691575 CTAATAAGGA
* * *
18691585 CTGGTTTTCTAGTCTTGAAGAACTAGAAGGTGGAGTTGTTTTTATGG
1 CTGGTTTTCTAGTCTTAAAGAACTAGAAGGTGGAATTGTTCTTATGG
* * *
18691632 CTGGTTTTTTAGTCTTAAAGAGCTAGAATGTGGAATTGTTCTTATGG
1 CTGGTTTTCTAGTCTTAAAGAACTAGAAGGTGGAATTGTTCTTATGG
18691679 GCAATAATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (47 bp):
CTGGTTTTCTAGTCTTAAAGAACTAGAAGGTGGAATTGTTCTTATGG
Found at i:18691825 original size:67 final size:67
Alignment explanation
Indices: 18691711--18691842 Score: 203
Period size: 67 Copynumber: 2.0 Consensus size: 67
18691701 AATGGTAGTG
* * *
18691711 GGTACAGTCCAATTGAAGAATCACGACGGCTCAATCCAAGTCTTGACAGATGTTCGCTACGTACC
1 GGTACAATCAAATTGAAGAACCACGACGGCTCAATCCAAGTCTTGACAGATGTTCGCTACGTACC
18691776 TA
66 TA
* *
18691778 GGTACAATCAAATTGAAGAACCATGACGGCTCAATCCAAGT-TCTGACAGATGTTCGCTATGTAC
1 GGTACAATCAAATTGAAGAACCACGACGGCTCAATCCAAGTCT-TGACAGATGTTCGCTACGTAC
18691842 C
65 C
18691843 CAGCTTGAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 1 0.02
67 58 0.98
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (67 bp):
GGTACAATCAAATTGAAGAACCACGACGGCTCAATCCAAGTCTTGACAGATGTTCGCTACGTACC
TA
Found at i:18692974 original size:72 final size:72
Alignment explanation
Indices: 18692889--18693033 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
18692879 GATGTGACTT
* *
18692889 TTGATGAATCAACCATGTTAAAGTACAAGGATTCACAAAAGGATGACAAAACCAGTAGTACTTTG
1 TTGATGAATCAACCATGATAAAGAACAAGGATTCACAAAAGGATGACAAAACCAGTAGTACTTTG
18692954 CAGCAGG
66 CAGCAGG
* *
18692961 TTGATGAATCAACCATGATGAAGAACGAGGATTCACAAAAGGATGACAAAACCAGTAGTACTTTG
1 TTGATGAATCAACCATGATAAAGAACAAGGATTCACAAAAGGATGACAAAACCAGTAGTACTTTG
18693026 CAGCAGG
66 CAGCAGG
18693033 T
1 T
18693034 GGAGTTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (72 bp):
TTGATGAATCAACCATGATAAAGAACAAGGATTCACAAAAGGATGACAAAACCAGTAGTACTTTG
CAGCAGG
Found at i:18693251 original size:49 final size:49
Alignment explanation
Indices: 18693179--18693274 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
18693169 TCGCTTTGAC
*
18693179 GATATGGTGGCCTATGCACTTCCAATTGCAGATGATGATGTTCCTTCCT
1 GATATAGTGGCCTATGCACTTCCAATTGCAGATGATGATGTTCCTTCCT
18693228 GATATAGTGGCCTATGCACTTCCAATTGCAGATGATGATGTTCCTTC
1 GATATAGTGGCCTATGCACTTCCAATTGCAGATGATGATGTTCCTTC
18693275 TACTTACACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (49 bp):
GATATAGTGGCCTATGCACTTCCAATTGCAGATGATGATGTTCCTTCCT
Found at i:18693394 original size:63 final size:63
Alignment explanation
Indices: 18693306--18693432 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
18693296 TAACCCTGAT
18693306 GGTGTAAAGTGGAAGCAAGCAATGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACCTGG
1 GGTGTAAAGTGGAAGCAAGCAATGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACCTGG
* *
18693369 GGTGTAAAGTGGAAGCAAGCTATGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACTTGG
1 GGTGTAAAGTGGAAGCAAGCAATGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACCTGG
18693432 G
1 G
18693433 AGTTGGTGAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.22
Consensus pattern (63 bp):
GGTGTAAAGTGGAAGCAAGCAATGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACCTGG
Found at i:18695601 original size:18 final size:18
Alignment explanation
Indices: 18695578--18695634 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
18695568 TACGACCGTT
18695578 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
18695596 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
18695614 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
18695632 TAC
1 TAC
18695635 AGTAGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:18701536 original size:14 final size:13
Alignment explanation
Indices: 18701513--18701544 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18701503 TTTCTAAATT
18701513 ATACAAAAATATG
1 ATACAAAAATATG
18701526 ATACAAAAA-AT-
1 ATACAAAAATATG
18701537 ATACAAAA
1 ATACAAAA
18701545 TAACATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (13 bp):
ATACAAAAATATG
Found at i:18701540 original size:11 final size:12
Alignment explanation
Indices: 18701508--18701544 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
18701498 TTTATTTTCT
18701508 AAAT-TATACAA
1 AAATATATACAA
18701519 AAATATGATACAA
1 AAATAT-ATACAA
18701532 AAA-ATATACAA
1 AAATATATACAA
18701543 AA
1 AA
18701545 TAACATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 3 0.12
13 9 0.38
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (12 bp):
AAATATATACAA
Found at i:18706374 original size:3 final size:3
Alignment explanation
Indices: 18706349--18706391 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
18706339 GTTATTTTTG
*
18706349 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18706392 ACATATATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18706584 original size:26 final size:26
Alignment explanation
Indices: 18706536--18706585 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18706526 TATAAATTTA
*
18706536 CATTTTATAATACATATACATTTTTC
1 CATTTTATAATACATACACATTTTTC
* *
18706562 CATTTTATAATTCATACATATTTT
1 CATTTTATAATACATACACATTTT
18706586 CACATACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (26 bp):
CATTTTATAATACATACACATTTTTC
Found at i:18706973 original size:19 final size:20
Alignment explanation
Indices: 18706932--18706973 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
18706922 ACCATTCATC
* *
18706932 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
*
18706952 AAGGTT-TTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
18706971 AAG
1 AAG
18706974 CATTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:18708630 original size:19 final size:20
Alignment explanation
Indices: 18708586--18708630 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
18708576 AACGTCTCTT
*
18708586 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
18708605 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
18708624 TATGCAT
1 TATGCAT
18708631 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:18711425 original size:7 final size:7
Alignment explanation
Indices: 18711413--18711442 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
18711403 GAGTCTCAAA
18711413 AAAAAAG
1 AAAAAAG
18711420 AAAAAAG
1 AAAAAAG
18711427 AAAAAAG
1 AAAAAAG
18711434 AAAAAAG
1 AAAAAAG
18711441 AA
1 AA
18711443 GTGATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:18713213 original size:89 final size:89
Alignment explanation
Indices: 18712801--18713775 Score: 1431
Period size: 89 Copynumber: 11.0 Consensus size: 89
18712791 GCTGAAAAGA
18712801 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
*
18712866 TACTGGTGGTGAAGTAGATCGAA-
66 TACTGGTGGCGAAGTAGATCGAAG
*
18712889 AAAGAAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
*
18712954 TACTGGTGGTGAAGTAGATCGAA-
66 TACTGGTGGCGAAGTAGATCGAAG
*
18712977 AAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
*
18713042 TACTGGTGGTGAAGTAGATCGAA-
66 TACTGGTGGCGAAGTAGATCGAAG
*
18713065 AAAGAAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
** * *
18713130 TACTAATGGCGAAGCAAATCGGAA-
66 TACTGGTGGCGAAGTAGATC-GAAG
* *
18713154 AAAGCGGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
18713219 TACTGGTGGCGAAGTAGATCGAAG
66 TACTGGTGGCGAAGTAGATCGAAG
* * *
18713243 AAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
18713308 TACTGGTGGCGAAGTAGATCGAAG
66 TACTGGTGGCGAAGTAGATCGAAG
* * *
18713332 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATTTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
*
18713397 TATTGGTGGCGAAGTAGATCGAAG
66 TACTGGTGGCGAAGTAGATCGAAG
** *
18713421 AAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTG-CTTTCCC
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC-TTCCC
* *
18713485 ATACTGGCGGCGAAGCAGATCGAAG
65 ATACTGGTGGCGAAGTAGATCGAAG
*
18713510 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACTAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
* *
18713575 TATTGGTGGCGAAGCAGATCGAAG
66 TACTGGTGGCGAAGTAGATCGAAG
* * * * * * * *
18713599 AAAACAAATCTTGTCTCCATGTA-TCGGCGTGAAGTAGATCAAATACAACAGATATTGTCTCCCC
1 AAAGCAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCC
* * *
18713663 ATACTGGTGGTGGAGTAGGTCGAAG
65 ATACTGGTGGCGAAGTAGATCGAAG
* * * ** * * * *
18713688 AAAACAGATCGTGTCTTCATGTACTGACGTGAAGTAGATCAAAGATAGTAGGTCCTGTCCTCCTA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
* * *
18713753 TATTGGTAGCGAAGTGGATCGAA
66 TACTGGTGGCGAAGTAGATCGAA
18713776 TATACATATT
Statistics
Matches: 814, Mismatches: 67, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
88 258 0.32
89 554 0.68
90 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
TACTGGTGGCGAAGTAGATCGAAG
Found at i:18714189 original size:44 final size:44
Alignment explanation
Indices: 18714009--18714200 Score: 104
Period size: 44 Copynumber: 4.4 Consensus size: 44
18713999 TTGAAGTTTA
*
18714009 CAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* * * * * * * ***
18714053 CGGATTTTACCTCCCTGAG--GTTACAGTGGAGTACATTGAAGCCAG
1 CAGATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGATGG
* ** * * ** * * **
18714098 TA-AT-TCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAAATTA
1 CAGATCT-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
18714141 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* *
18714185 CAGATTTTACCTCCCT
1 CAGATCTTATCTCCCT
18714201 GAAGTTGCAT
Statistics
Matches: 104, Mismatches: 36, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
42 1 0.01
43 17 0.16
44 69 0.66
45 16 0.15
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
Found at i:18714276 original size:132 final size:132
Alignment explanation
Indices: 18714008--18714285 Score: 351
Period size: 132 Copynumber: 2.1 Consensus size: 132
18713998 ATTGAAGTTT
* *
18714008 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * * * *
18714073 TTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAAA
66 TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
**
18714138 TT
131 CC
*
18714140 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * * * * *
18714205 TTGCATTGGAGCAGATTAAAATCAATAATCCTATCTCCTTGAAGTTGCAATGGAGTGGATT-AAA
66 TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTG-AGTAGCAATGGAATAGATTGAAA
18714269 ACC
130 ACC
*
18714272 ACAGATCTCATCTC
1 ACAGATCTTATCTC
18714286 TTTGAAGTTG
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
132 110 0.89
133 14 0.11
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
CC
Found at i:18717632 original size:84 final size:84
Alignment explanation
Indices: 18717491--18717667 Score: 331
Period size: 84 Copynumber: 2.1 Consensus size: 84
18717481 TTGGAAGAAA
18717491 ACAAATACTCTCTTTTTATTCTCCCCAAATGTGTAGAAAACAAGCCTATTTATAGGCAAATTACA
1 ACAAATACTCTCTTTTTATTCTCCCCAAATGTGTAGAAAACAAGCCTATTTATAGGCAAATTACA
18717556 AGAGTAATTGAATCCTAAT
66 AGAGTAATTGAATCCTAAT
*
18717575 ACAAATACTCTCTTTTTATTCTCCCCAAATGTGTAGAAAACAAGTCTATTTATAGGCAAATTACA
1 ACAAATACTCTCTTTTTATTCTCCCCAAATGTGTAGAAAACAAGCCTATTTATAGGCAAATTACA
18717640 AGAGTAATTGAATCCTAAT
66 AGAGTAATTGAATCCTAAT
18717659 A-AAA-ACTCT
1 ACAAATACTCT
18717668 TTAAAGAGTA
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 5 0.05
83 3 0.03
84 84 0.91
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (84 bp):
ACAAATACTCTCTTTTTATTCTCCCCAAATGTGTAGAAAACAAGCCTATTTATAGGCAAATTACA
AGAGTAATTGAATCCTAAT
Found at i:18717700 original size:31 final size:32
Alignment explanation
Indices: 18717639--18717703 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
18717629 GGCAAATTAC
18717639 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
18717671 AAGAGTAATTGAATCCTAAT-ATAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
18717702 AA
1 AA
18717704 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:18721072 original size:31 final size:31
Alignment explanation
Indices: 18721036--18721159 Score: 248
Period size: 31 Copynumber: 4.0 Consensus size: 31
18721026 AGATAATTTT
18721036 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
18721067 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
18721098 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
18721129 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
18721160 TAATTTGCCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:18726623 original size:15 final size:15
Alignment explanation
Indices: 18726603--18726637 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18726593 CGTCTTTCTC
18726603 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
18726618 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
18726633 -TCTTT
1 CTCTTT
18726638 CCTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:18728160 original size:6 final size:6
Alignment explanation
Indices: 18728149--18728176 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18728139 AACTGGGCTG
18728149 TCAGGT TCAGGT TCAGGT TCAGGT TCAG
1 TCAGGT TCAGGT TCAGGT TCAGGT TCAG
18728177 TTTTAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (6 bp):
TCAGGT
Found at i:18739770 original size:16 final size:16
Alignment explanation
Indices: 18739749--18739781 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18739739 TTCGTTGTAT
*
18739749 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
18739765 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
18739781 T
1 T
18739782 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:18744594 original size:49 final size:49
Alignment explanation
Indices: 18744449--18744598 Score: 167
Period size: 49 Copynumber: 3.0 Consensus size: 49
18744439 TCGTCCATTC
* * * * *
18744449 GAAACACCATTTATGGGCAAGCCACCACTGGTTTGTAGATAAACTGCCACT
1 GAAACA-C-TTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
* * *
18744500 GATAACACTTTGTGGACAAGCCACCAT-TGATATGCAGATATACTACCACT
1 GA-AACACTTTATGGACAAGCCACC-TCTGATTTGCAGATAAACTACCACT
* *
18744550 GAAACACTTTATGGACAAGCCACCTCTAATTTGCAAATAAACTACCACT
1 GAAACACTTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
18744599 TACTTCCACC
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 40 0.48
50 35 0.42
51 3 0.04
52 4 0.05
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (49 bp):
GAAACACTTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
Found at i:18746225 original size:8 final size:8
Alignment explanation
Indices: 18746212--18746240 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
18746202 TTTTAAATGA
18746212 TATTTTAT
1 TATTTTAT
18746220 TATTTTAT
1 TATTTTAT
18746228 TATTTTAT
1 TATTTTAT
18746236 TATTT
1 TATTT
18746241 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18754928 original size:45 final size:45
Alignment explanation
Indices: 18754877--18754969 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
18754867 GAATTATAGA
18754877 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
1 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
18754922 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
1 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
18754967 TTA
1 TTA
18754970 GTAGTGGACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (45 bp):
TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
Found at i:18762977 original size:6 final size:6
Alignment explanation
Indices: 18762968--18762995 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18762958 GATGAATACG
18762968 AAGACC AAGACC AAGACC AAGACC AAGA
1 AAGACC AAGACC AAGACC AAGACC AAGA
18762996 TCAACACGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.29, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGACC
Found at i:18764533 original size:21 final size:20
Alignment explanation
Indices: 18764500--18764543 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18764490 GCTTCAGTTG
* *
18764500 AAAACCCCGAACCCTTTTACA
1 AAAACCCCAAACCCTATTA-A
*
18764521 AAAACCCTAAACCCTATTAA
1 AAAACCCCAAACCCTATTAA
18764541 AAA
1 AAA
18764544 CACTAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAACCCCAAACCCTATTAA
Found at i:18764570 original size:11 final size:11
Alignment explanation
Indices: 18764548--18764577 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18764538 TAAAAACACT
18764548 AATATT-AAAA
1 AATATTAAAAA
18764558 AATATTAAAAA
1 AATATTAAAAA
18764569 AATATTAAA
1 AATATTAAA
18764578 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATTAAAAA
Found at i:18764587 original size:9 final size:9
Alignment explanation
Indices: 18764548--18764593 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
18764538 TAAAAACACT
18764548 AATATTAAAA
1 AATATT-AAA
18764558 AATATTAAAAA
1 AATATT--AAA
18764569 AATATT--A
1 AATATTAAA
18764576 AATATTAAA
1 AATATTAAA
18764585 AATATTAAA
1 AATATTAAA
18764594 TCCCAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 7 0.21
9 10 0.30
10 6 0.18
11 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATATTAAA
Found at i:18784240 original size:49 final size:49
Alignment explanation
Indices: 18784167--18784270 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
18784157 TCATGTGTTA
* * *
18784167 TAATTTTATAAAGTGTTGAGCTTTT-AGTTTATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGCTGAGCTTTTGA-CTCATGATATTGAACTTAATTT
* * *
18784216 TAATTTTGTAAAGTGCTGATCTTTTGACTCATGATATTGAATTTAATTT
1 TAATTTTATAAAGTGCTGAGCTTTTGACTCATGATATTGAACTTAATTT
18784265 TAATTT
1 TAATTT
18784271 GTTTTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 47 0.98
50 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGCTGAGCTTTTGACTCATGATATTGAACTTAATTT
Found at i:18799616 original size:44 final size:44
Alignment explanation
Indices: 18799568--18799667 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
18799558 ATAATTTTAA
* *
18799568 TGATATATTGTACTATTAAATTAAATTGTAGGGTATAACTGCAG
1 TGATATATTGTACTATCAAATTAAAGTGTAGGGTATAACTGCAG
* * *
18799612 TGATATATTGTACTATCAAATTAAAGTGTAGTGTATAATTGTAG
1 TGATATATTGTACTATCAAATTAAAGTGTAGGGTATAACTGCAG
18799656 TGATATATTGTA
1 TGATATATTGTA
18799668 TTCTCTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (44 bp):
TGATATATTGTACTATCAAATTAAAGTGTAGGGTATAACTGCAG
Found at i:18801690 original size:2 final size:2
Alignment explanation
Indices: 18801683--18801712 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18801673 ATAACAAATG
18801683 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18801713 AAAGTCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18804217 original size:13 final size:13
Alignment explanation
Indices: 18804199--18804223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18804189 TTTCTACCTT
18804199 TATTTTTAAAATA
1 TATTTTTAAAATA
18804212 TATTTTTAAAAT
1 TATTTTTAAAAT
18804224 TAGTATTATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTAAAATA
Found at i:18805780 original size:6 final size:6
Alignment explanation
Indices: 18805764--18805798 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
18805754 TCTCTTACAC
* *
18805764 CAACAG AAACAA CAACAG CAACAG CAACAG CAACA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACA
18805799 AATGCTTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.57, C:0.31, G:0.11, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:18806021 original size:21 final size:21
Alignment explanation
Indices: 18805995--18806034 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18805985 CACTCCTAAT
18805995 TCACAA-CAACAGCAACAGCCC
1 TCACAATC-ACAGCAACAGCCC
18806016 TCACAATCACAGCAACAGC
1 TCACAATCACAGCAACAGC
18806035 AACAGCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.42, C:0.40, G:0.10, T:0.07
Consensus pattern (21 bp):
TCACAATCACAGCAACAGCCC
Found at i:18811956 original size:3 final size:3
Alignment explanation
Indices: 18811948--18812103 Score: 312
Period size: 3 Copynumber: 52.0 Consensus size: 3
18811938 GATTCTTTTG
18811948 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18811996 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18812044 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18812092 ATT ATT ATT ATT
1 ATT ATT ATT ATT
18812104 TACTTTTTAT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 153 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18814549 original size:109 final size:109
Alignment explanation
Indices: 18814357--18814664 Score: 465
Period size: 109 Copynumber: 2.8 Consensus size: 109
18814347 AATTCAAGAG
* * * * *
18814357 GATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTTGAAT
1 GATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAACACCTTAGGGCACGTTTCTCGAAT
18814421 TTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAA
65 TTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAA
*
18814466 GATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTTCTCGAATT
1 GATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAACACCTTAGGGCACGTTTCTCGAATT
* * *
18814531 TCCAAATGCAAAATATTGCCTTATTTTTGAAAAGTTTTTAAAAG
66 TCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAA
* *
18814575 GATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGA
1 GATATTTAGCTATTTGGTCGAACGAG--AAATCGAAACCCAACACCTTAGGGCACG-TTTCTCGA
*
18814640 CTTTCCAAACGCAAAACATTGCCTT
63 ATTTCCAAACGCAAAACATTGCCTT
18814665 TATTATTTTT
Statistics
Matches: 180, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
109 124 0.69
110 1 0.01
111 25 0.14
112 30 0.17
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (109 bp):
GATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAACACCTTAGGGCACGTTTCTCGAATT
TCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAA
Found at i:18815585 original size:12 final size:12
Alignment explanation
Indices: 18815558--18815597 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18815548 AAATAAAAAC
*
18815558 TAATAATAATTAA
1 TAATAGTAA-TAA
18815571 TAATAGTAATAA
1 TAATAGTAATAA
*
18815583 TAATAGCAATAA
1 TAATAGTAATAA
18815595 TAA
1 TAA
18815598 GGTTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (12 bp):
TAATAGTAATAA
Found at i:18818928 original size:28 final size:27
Alignment explanation
Indices: 18818889--18818946 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
18818879 GGTTAATTTT
* *
18818889 AAAATAAGTAATATGTAAAATAACTTA
1 AAAATAAATAATATATAAAATAACTTA
*
18818916 AAAATAAAATAATATATAAAGTAACTTA
1 AAAAT-AAATAATATATAAAATAACTTA
18818944 AAA
1 AAA
18818947 TGATTAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (27 bp):
AAAATAAATAATATATAAAATAACTTA
Found at i:18822807 original size:28 final size:28
Alignment explanation
Indices: 18822749--18822807 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
18822739 AACCTTGAAA
* ****
18822749 AAGGAACTTATGAAAAGAAAGTGCTTTC
1 AAGGAACTTATGAAAAGAAAATGAGCAC
*
18822777 AAGGAAGTTATGAAAAGAAAATGAGCAC
1 AAGGAACTTATGAAAAGAAAATGAGCAC
18822805 AAG
1 AAG
18822808 TGTTCTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.19
Consensus pattern (28 bp):
AAGGAACTTATGAAAAGAAAATGAGCAC
Found at i:18824551 original size:19 final size:18
Alignment explanation
Indices: 18824529--18824571 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
18824519 TTAAGTAATC
18824529 TTTTTTAAACAATTCAAAA
1 TTTTTTAAA-AATTCAAAA
18824548 TTTTATTAAAAATTCAAAA
1 TTTT-TTAAAAATTCAAAA
*
18824567 ATTTT
1 TTTTT
18824572 AGTTCAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTTTAAAAATTCAAAA
Found at i:18824567 original size:20 final size:20
Alignment explanation
Indices: 18824529--18824572 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
18824519 TTAAGTAATC
18824529 TTTT-TTAAACAATTCAAAA
1 TTTTATTAAACAATTCAAAA
18824548 TTTTATTAAA-AATTCAAAAA
1 TTTTATTAAACAATTC-AAAA
18824568 TTTTA
1 TTTTA
18824573 GTTCAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTATTAAACAATTCAAAA
Found at i:18825426 original size:20 final size:20
Alignment explanation
Indices: 18825378--18825427 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18825368 AATTAGATTT
18825378 TTTTAT-AAAAATTGTAAAA
1 TTTTATAAAAAATTGTAAAA
*** *
18825397 AAATAAAAAAAATTGTAAAA
1 TTTTATAAAAAATTGTAAAA
18825417 TTTTATAAAAA
1 TTTTATAAAAA
18825428 TCATAAAAAA
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TTTTATAAAAAATTGTAAAA
Found at i:18825571 original size:28 final size:29
Alignment explanation
Indices: 18825539--18825606 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
18825529 TATAGAAAAA
*
18825539 TTATAATTTTTTTATAATTCTATAT-A-TT
1 TTATAATTTTTTTACAATT-TATATAATTT
* *
18825567 TTATATTTTTTTTACAATTTTTATAATTT
1 TTATAATTTTTTTACAATTTATATAATTT
18825596 TTATAATTTTT
1 TTATAATTTTT
18825607 AATAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.12
28 18 0.53
29 12 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TTATAATTTTTTTACAATTTATATAATTT
Found at i:18825591 original size:29 final size:28
Alignment explanation
Indices: 18825539--18825624 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
18825529 TATAGAAAAA
* *
18825539 TTATAATTTTTTTATAA-TTCTATATATT
1 TTATATTTTTTTTA-AATTTTTATATATT
18825567 TTATATTTTTTTTACAATTTTTATA-ATTT
1 TTATATTTTTTTTA-AATTTTTATATA-TT
**
18825596 TTATAATTTTTAATAAATTTTTA-ATATT
1 TTAT-ATTTTTTTTAAATTTTTATATATT
18825624 T
1 T
18825625 AAAATTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 20 0.41
29 21 0.43
30 8 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATATTTTTTTTAAATTTTTATATATT
Found at i:18825616 original size:11 final size:9
Alignment explanation
Indices: 18825547--18825643 Score: 74
Period size: 9 Copynumber: 10.8 Consensus size: 9
18825537 AATTATAATT
18825547 TTTTTATAA
1 TTTTTATAA
*
18825556 -TTCTATATA
1 TTTTTATA-A
**
18825565 TTTTATATTT
1 TTTT-TATAA
*
18825575 TTTTTACAA
1 TTTTTATAA
18825584 TTTTTATAA
1 TTTTTATAA
18825593 TTTTTATAA
1 TTTTTATAA
18825602 TTTTTAATAA
1 TTTTT-ATAA
*
18825612 ATTTT-TAA
1 TTTTTATAA
*
18825620 TATTTA-AA
1 TTTTTATAA
*
18825628 ATTTTATAA
1 TTTTTATAA
*
18825637 TATTTAT
1 TTTTTAT
18825644 TGATTTTATT
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
8 18 0.27
9 32 0.48
10 14 0.21
11 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18826216 original size:16 final size:18
Alignment explanation
Indices: 18826184--18826217 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
18826174 AAGTTTTTTT
18826184 TAAAAATTTATATTTAAA
1 TAAAAATTTATATTTAAA
18826202 TAAAAA-TTA-ATTTAAA
1 TAAAAATTTATATTTAAA
18826218 CAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAATTTATATTTAAA
Found at i:18827666 original size:301 final size:297
Alignment explanation
Indices: 18826982--18827907 Score: 1252
Period size: 301 Copynumber: 3.1 Consensus size: 297
18826972 ATTTCAACCA
18826982 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTA
1 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTA
*
18827047 TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTTTAAATAAATTA
66 TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTG-TTTTTAAATAAATTA
* * * *
18827112 AAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTTATTACTTCCAGTAAAAAT
130 AAAAAAACTTATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTT----T-AAAAT
* * *
18827177 ATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTT
190 ATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTT
* * *
18827242 ACTGTGTTTTTTAAATAAATTTAAAAAAACCCTTATTTTGGCC
255 AGTGTGTTTTTTAAATAAATTTAAAAAAACCATTATTTCGGCC
* * * *
18827285 TTTTTTCGTA-TTTTTTCTCAAATTTTATTACTTTAAAAAATTATACTATTTTCTAATTTTATTA
1 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTA
*
18827349 TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCA-TTAGTGTGTTTTTTAAAT-AATTT
66 TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTG-TTTTTAAATAAATTA
18827412 AAAAAAACATTATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAATAATATA
130 AAAAAAAC-TTATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAA-AATATA
18827477 TTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGT
193 TTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGT
* *
18827542 TTGATTTTTAAATAAATTTAAAAAAACCATTATTTCGGCTC
258 GTGTTTTTTAAATAAATTTAAAAAAACCATTATTTCGGC-C
** * *
18827583 TTTGTTCGTATTTTTTTCCCGGATTTTATTGCTTTCAATAAAAATATATTATTTT-TGTATTTTA
1 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTT-AA-AAAAATATATTATTTTCT-AATTTTA
** * * *
18827647 TTATTTTACATTATTTTAGTACATTACGTTTGAAATTTATTAATTTACTGTGTTTTTAAATAAAT
63 TTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTAAATAAAT
** * *
18827712 TAAAAAAAACTTATTTCTGCCCTTTATTCGTATTTTTTTCTCCGGATTTTATTATTTTAAAA-A-
128 TAAAAAAAACTTATTTCAACCCTTTGTTCGTATTTTTTTCT-CGGATTTTATTACTTTAAAATAT
* * * * *
18827775 A--ATATAC-TATTTTCTAATTTT--ATTA--TTA-TATATTATTTTTGAAATGTATTCATTTAG
192 ATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAG
**
18827832 TGTGTTTTTTAAATAAATTT-AAAAAACTTTTATTTCGGCCC
257 TGTGTTTTTTAAATAAATTTAAAAAAACCATTATTTCGG-CC
* *
18827873 TTTGTTCGTATTTTTTTTCCAGATTTTATTACTTT
1 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTT
18827908 TAATTTATTT
Statistics
Matches: 563, Mismatches: 49, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
290 49 0.09
291 47 0.08
292 3 0.01
294 4 0.01
296 14 0.02
297 107 0.19
298 10 0.02
299 21 0.04
300 16 0.03
301 156 0.28
302 127 0.23
303 9 0.02
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (297 bp):
TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTA
TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTAAATAAATTAA
AAAAAACTTATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAATATATTA
TTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTG
TTTTTTAAATAAATTTAAAAAAACCATTATTTCGGCC
Done.