Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 86 of 204
Found at i:26661309 original size:52 final size:53
Alignment explanation
Indices: 26661221--26661325 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
26661211 CAATTAAGGA
* * *
26661221 GTCTGACTTATTAACATGCATTAAGGCTGTCCGAATTAGAGCATAGTTAATAG
1 GTCTGACTTATAAACATGCATTAAGGCTGTCCGAATTAGAACATACTTAATAG
* * * * *
26661274 GTCTGACTTA-AAACATGCATTGATGTTGTCTGAATTATAACATACTTAATAG
1 GTCTGACTTATAAACATGCATTAAGGCTGTCCGAATTAGAACATACTTAATAG
26661326 ACATAAACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 34 0.77
53 10 0.23
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (53 bp):
GTCTGACTTATAAACATGCATTAAGGCTGTCCGAATTAGAACATACTTAATAG
Found at i:26662781 original size:22 final size:21
Alignment explanation
Indices: 26662755--26662796 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26662745 TTTACCCCAA
*
26662755 ACCCCCAAATATTTTTACTTT
1 ACCCCCAAACATTTTTACTTT
26662776 ACCCCCAAACATTTTTACTTT
1 ACCCCCAAACATTTTTACTTT
26662797 TCTCACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (21 bp):
ACCCCCAAACATTTTTACTTT
Found at i:26662805 original size:21 final size:21
Alignment explanation
Indices: 26662755--26662805 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26662745 TTTACCCCAA
* *
26662755 ACCCCCAAATATTTTTACTTT
1 ACCCACAAACATTTTTACTTT
*
26662776 ACCCCCAAACATTTTTACTTT
1 ACCCACAAACATTTTTACTTT
* *
26662797 TCTCACAAA
1 ACCCACAAA
26662806 GCTTTTACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (21 bp):
ACCCACAAACATTTTTACTTT
Found at i:26663287 original size:7 final size:7
Alignment explanation
Indices: 26663270--26663304 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
26663260 ACATTTTATC
26663270 TTTAGGG
1 TTTAGGG
*
26663277 TTTTAGGT
1 -TTTAGGG
26663285 TTTAGGG
1 TTTAGGG
26663292 TTTAGGG
1 TTTAGGG
26663299 TTTAGG
1 TTTAGG
26663305 ATAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:26670963 original size:21 final size:22
Alignment explanation
Indices: 26670918--26670963 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26670908 AGAGAAAAAT
*
26670918 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
26670940 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
26670961 AAA
1 AAA
26670964 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:26680847 original size:3 final size:3
Alignment explanation
Indices: 26680839--26680887 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
26680829 ATAAAGAAGG
26680839 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26680887 A
1 A
26680888 GGATTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26682570 original size:50 final size:50
Alignment explanation
Indices: 26682480--26682675 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
26682470 AATCTGTTCC
* * * * * * *
26682480 ACTGCACTGTCTGGGAGAGTAATATTCGCCGTTGTGGCTTTAGTCTTTTTA
1 ACTGCAATGTCGGGGA-AGCAAGATTCACCGATGTGGCTTTAATCTTTTTA
* **
26682531 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTTTTA
* * * * * * *
26682581 ACTGC-ATCGCCTGAGG-AGTAAGATTCACTGTTGTAGCGTTAATCTTTTTA
1 ACTGCAAT-GTC-GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTTTTA
* * * *
26682631 ACTACAATGTTGGGGAAACAAGATTCACCGATGTGACTTTAATCT
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
26682676 GTTCCACTGT
Statistics
Matches: 110, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
49 5 0.05
50 86 0.78
51 19 0.17
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTTTTA
Found at i:26682646 original size:100 final size:100
Alignment explanation
Indices: 26682465--26682705 Score: 322
Period size: 100 Copynumber: 2.4 Consensus size: 100
26682455 TGCTGTTGTA
* * * * * * *
26682465 GCTTCAATCTGTTCCACTGCA-CTGTCTGGGAGAGTAATATTCGCCGTTGTGGCTTTAGTCTTTT
1 GCTTTAATCTGTTCCACTGCATC-GCCTGGG-GAGTAAGATTCACCGTTGTAGCGTTAATCTTTT
* *
26682529 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
64 TAACTACAATGTCGGGGAAACAAGATTCACCGATGTG
* *
26682566 GCTTTAATCTGTTCCACTGCATCGCCTGAGGAGTAAGATTCACTGTTGTAGCGTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACCGTTGTAGCGTTAATCTTTTTA
*
26682631 ACTACAATGTTGGGGAAACAAGATTCACCGATGTG
66 ACTACAATGTCGGGGAAACAAGATTCACCGATGTG
* *
26682666 ACTTTAATCTGTTCCACTGTATCGCCTGGGGAGATAAGAT
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAG-TAAGAT
26682706 CTATAATTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
100 91 0.74
101 31 0.25
102 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (100 bp):
GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACCGTTGTAGCGTTAATCTTTTTA
ACTACAATGTCGGGGAAACAAGATTCACCGATGTG
Found at i:26683025 original size:45 final size:45
Alignment explanation
Indices: 26682967--26683368 Score: 156
Period size: 45 Copynumber: 9.2 Consensus size: 45
26682957 AGGACTTGTA
* * *
26682967 ATCTTCGATCTGCTTCACTGTTAATGCAGGAAGGTAAGATCTGCT
1 ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
* * * * * *
26683012 ATCTTCAAACTGCTCCACTG-CAA-CCGAGGGAGGCAAG-GCTGGT
1 ATCTTCAATCTGCTTCACTGTCAATGC-AGGAAGGCAAGATCTGCT
* * *
26683055 GTCTTCAATCTGCTTCACTGTCAGTGCAAGAAGGCAAGATCTGCT
1 ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
* * * * **
26683100 ATCTTTAA-CTTGCTCCACTG-CAA-CCTATGG-AGGCAAGGT-TGGG
1 ATCTTCAATC-TGCTTCACTGTCAATGC-A-GGAAGGCAAGATCTGCT
* * ** *
26683143 GTCTTCGATCTGCTTCGTTGTCTATGCAGGAAGGCAAGATCTGCT
1 ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
* * * * * * * * * *
26683188 ATCTTTAACCCGCTCCACT-ACAA-CCGGTGGAGGCAAGGCTTTG-T
1 ATCTTCAATCTGCTTCACTGTCAATGCAG-GAAGGCAA-GATCTGCT
* * ** * *
26683232 -T-TTCGATCTGTTTTGCTGTCAATGTAGGAAGGCAATATCTGCT
1 ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
* * * * * * * *
26683275 ATCTTTAACCAGATCCACTG-CAA-CCGATGG-AGGCAAG-GCT-TT
1 ATCTTCAATCTGCTTCACTGTCAATGC-A-GGAAGGCAAGATCTGCT
* * *
26683317 ATTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT
1 ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
26683362 ATCTTCA
1 ATCTTCA
26683369 CTGATCTGTT
Statistics
Matches: 236, Mismatches: 95, Indels: 52
0.62 0.25 0.14
Matches are distributed among these distances:
42 26 0.11
43 66 0.28
44 71 0.30
45 73 0.31
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (45 bp):
ATCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
Found at i:26683284 original size:87 final size:87
Alignment explanation
Indices: 26682968--26683366 Score: 512
Period size: 88 Copynumber: 4.6 Consensus size: 87
26682958 GGACTTGTAA
* * * * *
26682968 TCTTCGATCTGCTTCACTGTTAATGCAGGAAGGTAAGATCTGCTATCTTCAAACTGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
26683033 AACCGAGGGAGGCAAGGCTGGTG
66 AACCGATGGAGGCAAGGCT-TTG
* * * * *
26683056 TCTTCAATCTGCTTCACTGTCAGTGCAAGAAGGCAAGATCTGCTATCTTTAACTTGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
26683121 AACCTATGGAGGCAAGG-TTGGGG
66 AACCGATGGAGGCAAGGCTT--TG
* * * *
26683144 TCTTCGATCTGCTTCGTTGTCTATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
*
26683209 AACCGGTGGAGGCAAGGCTTTG
66 AACCGATGGAGGCAAGGCTTTG
* * * * * * *
26683231 TTTTCGATCTGTTTTGCTGTCAATGTAGGAAGGCAATATCTGCTATCTTTAACCAGATCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
*
26683296 AACCGATGGAGGCAAGGCTTTA
66 AACCGATGGAGGCAAGGCTTTG
*
26683318 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
26683367 CACTGATCTG
Statistics
Matches: 268, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
87 122 0.46
88 144 0.54
89 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
AACCGATGGAGGCAAGGCTTTG
Found at i:26684603 original size:7 final size:7
Alignment explanation
Indices: 26684591--26684638 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
26684581 TCGTCATTAC
26684591 TTTTCAT
1 TTTTCAT
26684598 TTTTCA-
1 TTTTCAT
26684604 TTTTCAT
1 TTTTCAT
26684611 TTTTCAT
1 TTTTCAT
26684618 TTTTCAT
1 TTTTCAT
26684625 TTTTCAT
1 TTTTCAT
26684632 TTTTCAT
1 TTTTCAT
26684639 CCCTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:26684609 original size:13 final size:13
Alignment explanation
Indices: 26684591--26684634 Score: 79
Period size: 13 Copynumber: 3.3 Consensus size: 13
26684581 TCGTCATTAC
26684591 TTTTCATTTTTCA
1 TTTTCATTTTTCA
26684604 TTTTCATTTTTCA
1 TTTTCATTTTTCA
26684617 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
26684631 TTTT
1 TTTT
26684635 TCATCCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:26685605 original size:28 final size:29
Alignment explanation
Indices: 26685538--26685610 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
26685528 CATATTTTTA
* **
26685538 TTTTGACTTTGATTGATTTCTTTTTTCGC
1 TTTTAACTTTGATTTTTTTCTTTTTTCGC
* *
26685567 TTTTGACTTTGATTTTTTTCTTTTTT-GT
1 TTTTAACTTTGATTTTTTTCTTTTTTCGC
*
26685595 TTTTAATTTTGATTTT
1 TTTTAACTTTGATTTT
26685611 GATTTTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.70
Consensus pattern (29 bp):
TTTTAACTTTGATTTTTTTCTTTTTTCGC
Found at i:26685623 original size:8 final size:8
Alignment explanation
Indices: 26685607--26685670 Score: 60
Period size: 8 Copynumber: 7.6 Consensus size: 8
26685597 TTAATTTTGA
*
26685607 TTTTGATT
1 TTTTTATT
26685615 TTTTTATT
1 TTTTTATT
26685623 TTTTTATT
1 TTTTTATT
26685631 CTTTTT-TGT
1 -TTTTTAT-T
26685640 CTTTTTGATT
1 -TTTTT-ATT
26685650 TTGTTT-TT
1 TT-TTTATT
26685658 TTTTTATT
1 TTTTTATT
26685666 TTTTT
1 TTTTT
26685671 GAATTGGATC
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
7 3 0.06
8 27 0.55
9 14 0.29
10 4 0.08
11 1 0.02
ACGTcount: A:0.08, C:0.03, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:26690820 original size:3 final size:3
Alignment explanation
Indices: 26690812--26690851 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
26690802 ATAAAGAAGG
26690812 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26690852 GGATTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26700716 original size:27 final size:27
Alignment explanation
Indices: 26700686--26700863 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
26700676 ATATTGAGCC
* * *
26700686 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
26700713 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
26700740 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
26700768 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
26700795 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
26700822 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
26700849 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26700864 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:26700779 original size:55 final size:55
Alignment explanation
Indices: 26700686--26700863 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
26700676 ATATTGAGCC
* * *
26700686 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
26700740 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
26700795 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
26700849 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26700864 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:26700825 original size:82 final size:81
Alignment explanation
Indices: 26700707--26700862 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
26700697 TGCTATACAA
* * *
26700707 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
26700772 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
26700789 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
26700853 CACTTAGTGC
65 CACTTAGTGC
26700863 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26709186 original size:27 final size:26
Alignment explanation
Indices: 26709169--26709238 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
26709159 ATATTAAGTC
26709169 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
26709196 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
26709224 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26709239 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:26709232 original size:28 final size:28
Alignment explanation
Indices: 26709169--26709266 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
26709159 ATATTAAGTC
*
26709169 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26709196 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26709224 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26709253 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26709267 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26709730 original size:12 final size:12
Alignment explanation
Indices: 26709713--26709739 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26709703 TGGGCATACT
26709713 TATGTATATATA
1 TATGTATATATA
26709725 TATGTATATATA
1 TATGTATATATA
26709737 TAT
1 TAT
26709740 ACTTCGGAAT
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:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:26717139 original size:27 final size:26
Alignment explanation
Indices: 26717122--26717191 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
26717112 ATATTAAGTC
26717122 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
26717149 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
26717177 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26717192 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:26717185 original size:28 final size:28
Alignment explanation
Indices: 26717122--26717219 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
26717112 ATATTAAGTC
*
26717122 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26717149 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26717177 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26717206 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26717220 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26717683 original size:12 final size:12
Alignment explanation
Indices: 26717666--26717691 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26717656 TGGGCATACT
26717666 TATGTATATATA
1 TATGTATATATA
26717678 TATGTATATATA
1 TATGTATATATA
26717690 TA
1 TA
26717692 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:26722653 original size:19 final size:19
Alignment explanation
Indices: 26722629--26722668 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
26722619 GACTAAATTG
26722629 CATAAAGTACATTATTTTA
1 CATAAAGTACATTATTTTA
26722648 CATAAAGTACATTATTTTA
1 CATAAAGTACATTATTTTA
26722667 CA
1 CA
26722669 GTCTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (19 bp):
CATAAAGTACATTATTTTA
Found at i:26724781 original size:39 final size:39
Alignment explanation
Indices: 26724738--26724858 Score: 208
Period size: 39 Copynumber: 3.1 Consensus size: 39
26724728 ACGACCATTT
*
26724738 GGTATGTTTATCATGAGACCAAGTGGAGGTATGCTTTGA
1 GGTATGTTTATAATGAGACCAAGTGGAGGTATGCTTTGA
26724777 GGTATGTTTATAATGAGACCAA-TAGGAGGTATGCTTTGA
1 GGTATGTTTATAATGAGACCAAGT-GGAGGTATGCTTTGA
*
26724816 GGTATGTTTATAATGAGACCAAGTAGAGGTATGCTTTGA
1 GGTATGTTTATAATGAGACCAAGTGGAGGTATGCTTTGA
26724855 GGTA
1 GGTA
26724859 GGTATGCTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.01
39 76 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.33
Consensus pattern (39 bp):
GGTATGTTTATAATGAGACCAAGTGGAGGTATGCTTTGA
Found at i:26726295 original size:69 final size:69
Alignment explanation
Indices: 26726178--26726684 Score: 346
Period size: 69 Copynumber: 7.4 Consensus size: 69
26726168 CTATCGTCGA
* * *
26726178 TAAAGTCAAGGTTCACAGGTGAAGAGCCGCAACCTTCAAAATAGTTAGTGAGAGAAAAGCTCCCA
1 TAAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTCAAAACAGTTAGTGAGAGCAAAGCTCCCA
*
26726243 ATTG
66 GTTG
* * *
26726247 TAAAGTCAAGGTTCACAGGCGAAGACCCGCAACC-TCTAAAACAATTAGTGAGAGCAAAGCTCCT
1 TAAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTC-AAAACAGTTAGTGAGAGCAAAGCTCCC
*
26726311 AGCTG
65 AGTTG
* * * * *
26726316 TAAAAG-CAATGTTCGCAGGCAAAGAGCCACAACCTTCAAAACAGTTAGTGTGAGCAAAGCTCCC
1 T-AAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTCAAAACAGTTAGTGAGAGCAAAGCTCCC
26726380 AGTTG
65 AGTTG
* ** ** * * * *
26726385 TAAAAG-AAAACTTCGTAGGCAAAGA-CTCGCAACCTTCAAAACAATTAG-CACAAGCAAAGCTC
1 T-AAAGTCAAGGTTCACAGGCGAAGAGC-CGCAACCTTCAAAACAGTTAGTGA-GAGCAAAGCTC
*
26726447 CCAGATG
63 CCAGTTG
* *** * ** * * *
26726454 TGAAGTCAAGGTTTGTAGGCGAAAAGCATCAACC-TCCAAACAGTTAGCGTA-AGCAAATCTCCC
1 TAAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTCAAAACAGTTAGTG-AGAGCAAAGCTCCC
* *
26726517 AGCTA
65 AGTTG
* ** * * * * * *
26726522 TAAAATCAAGGTTCGTA-GCTGTAGAGCCGCAGCCTTCAAAATAATTAATGCGAGCAAAGCTCCC
1 TAAAGTCAAGGTTCACAGGC-GAAGAGCCGCAACCTTCAAAACAGTTAGTGAGAGCAAAGCTCCC
** *
26726586 AACTA
65 AGTTG
* ** * * * * * * *
26726591 TAAAGTCAAGATTCGTAGGCCAAGAGCCGTAACCTCCAAAATAGTTAGCGAGAGCAAAACTACCA
1 TAAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTCAAAACAGTTAGTGAGAGCAAAGCTCCCA
26726656 GTTG
66 GTTG
* * * *
26726660 CAAAATCAAGGTTCGCGGGCGAAGA
1 TAAAGTCAAGGTTCACAGGCGAAGA
26726685 ATTCTAAAAA
Statistics
Matches: 345, Mismatches: 80, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
67 2 0.01
68 54 0.16
69 279 0.81
70 10 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (69 bp):
TAAAGTCAAGGTTCACAGGCGAAGAGCCGCAACCTTCAAAACAGTTAGTGAGAGCAAAGCTCCCA
GTTG
Found at i:26726558 original size:137 final size:138
Alignment explanation
Indices: 26726412--26726674 Score: 300
Period size: 137 Copynumber: 1.9 Consensus size: 138
26726402 GGCAAAGACT
* * * * * *
26726412 CGCAACCTTCAAAACAATTAGCACAAGCAAAGCTCCCAGA-TGTGAAGTCAAGGTTTGTAGGCGA
1 CGCAACCTTCAAAACAATTAACACAAGCAAAGCTCCCA-ACTATAAAGTCAAGATTCGTAGGCCA
* * *
26726476 AAAG-CATCAACCTCC-AAACAGTTAGCGTA-AGCAAATCTCCCAGCTATAAAATCAAGGTTCGT
65 AAAGCCAT-AACCTCCAAAACAGTTAGCG-AGAGCAAAACTACCAGCTACAAAATCAAGGTTCGT
26726538 AGCTGTAGAGC
128 AGCTGTAGAGC
* * ** *
26726549 CGCAGCCTTCAAAATAATTAATGCGAGCAAAGCTCCCAACTATAAAGTCAAGATTCGTAGGCCAA
1 CGCAACCTTCAAAACAATTAACACAAGCAAAGCTCCCAACTATAAAGTCAAGATTCGTAGGCCAA
* * * * *
26726614 GAGCCGTAACCTCCAAAATAGTTAGCGAGAGCAAAACTACCAGTTGCAAAATCAAGGTTCG
66 AAGCCATAACCTCCAAAACAGTTAGCGAGAGCAAAACTACCAGCTACAAAATCAAGGTTCG
26726675 CGGGCGAAGA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
136 1 0.01
137 62 0.60
138 40 0.39
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (138 bp):
CGCAACCTTCAAAACAATTAACACAAGCAAAGCTCCCAACTATAAAGTCAAGATTCGTAGGCCAA
AAGCCATAACCTCCAAAACAGTTAGCGAGAGCAAAACTACCAGCTACAAAATCAAGGTTCGTAGC
TGTAGAGC
Found at i:26731836 original size:16 final size:16
Alignment explanation
Indices: 26731815--26731847 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
26731805 TCAACACAAG
26731815 TATATTCACATACATA
1 TATATTCACATACATA
26731831 TATATTCACATACATA
1 TATATTCACATACATA
26731847 T
1 T
26731848 CAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATTCACATACATA
Found at i:26742597 original size:17 final size:17
Alignment explanation
Indices: 26742575--26742607 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26742565 GATAAGATAC
*
26742575 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
26742592 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
26742608 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:26745136 original size:27 final size:27
Alignment explanation
Indices: 26745105--26745281 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
26745095 TAAATTGTAC
26745105 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
26745132 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26745158 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
26745186 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
26745214 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26745241 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
26745268 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
26745282 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:26745219 original size:82 final size:81
Alignment explanation
Indices: 26745106--26745261 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26745096 AAATTGTACA
* *
26745106 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
26745170 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
26745187 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
26745252 TGCGAGTTGA
65 TGCGAATTGA
26745262 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:26745273 original size:82 final size:81
Alignment explanation
Indices: 26745102--26745281 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
26745092 GATTAAATTG
* *
26745102 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
26745167 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
26745183 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
26745247 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
26745265 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
26745282 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:26750395 original size:40 final size:40
Alignment explanation
Indices: 26750358--26750583 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
26750348 GCTACTCGTT
* *
26750358 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
26750398 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26750438 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** **
26750478 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCTTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
26750518 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
* *
26750559 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
26750584 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:26758385 original size:27 final size:27
Alignment explanation
Indices: 26758355--26758532 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
26758345 ATATTGAGCC
* * *
26758355 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
26758382 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
26758409 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
26758437 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
26758464 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
26758491 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
26758518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26758533 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:26758448 original size:55 final size:55
Alignment explanation
Indices: 26758355--26758532 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
26758345 ATATTGAGCC
* * *
26758355 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
26758409 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
26758464 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
26758518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26758533 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:26758494 original size:82 final size:81
Alignment explanation
Indices: 26758376--26758531 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
26758366 TGCTATACAA
* * *
26758376 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
26758441 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
26758458 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
26758522 CACTTAGTGC
65 CACTTAGTGC
26758532 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26774774 original size:15 final size:16
Alignment explanation
Indices: 26774744--26774775 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26774734 CTGTACTATG
26774744 TATAATGTTGATTATA
1 TATAATGTTGATTATA
26774760 TATAATGTT-ATTATA
1 TATAATGTTGATTATA
26774775 T
1 T
26774776 GATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TATAATGTTGATTATA
Found at i:26777924 original size:25 final size:25
Alignment explanation
Indices: 26777890--26778002 Score: 106
Period size: 25 Copynumber: 4.5 Consensus size: 25
26777880 GTACATGTAT
* *
26777890 GCTCATACGAGCTATGAATTAGTAT
1 GCTCATACGAGCTATGAATTGGTAA
*
26777915 GCTC-TCACGAGCTATAAATTGGTAA
1 GCTCAT-ACGAGCTATGAATTGGTAA
26777940 GCTCATACGAGCTGA-GAATTGGTAA
1 GCTCATACGAGCT-ATGAATTGGTAA
* *** *
26777965 GCTC-TCATGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTATGAATTGGTAA
26777990 GCTCATACGAGCT
1 GCTCATACGAGCT
26778003 TTGGTGTGTC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
24 2 0.03
25 68 0.93
26 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATTGGTAA
Found at i:26777969 original size:50 final size:50
Alignment explanation
Indices: 26777890--26778002 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
26777880 GTACATGTAT
* * *
26777890 GCTCATACGAGCTATGAATTAGTATGCTCTCACGAGCTATAAATTGGTAA
1 GCTCATACGAGCTATGAATTAGTAAGCTCTCACGAGCTACAAATCGGTAA
* * *
26777940 GCTCATACGAGCTGA-GAATTGGTAAGCTCTCATGAGCTGCAAATCGGTAA
1 GCTCATACGAGCT-ATGAATTAGTAAGCTCTCACGAGCTACAAATCGGTAA
26777990 GCTCATACGAGCT
1 GCTCATACGAGCT
26778003 TTGGTGTGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
GCTCATACGAGCTATGAATTAGTAAGCTCTCACGAGCTACAAATCGGTAA
Found at i:26778518 original size:8 final size:8
Alignment explanation
Indices: 26778505--26778538 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
26778495 TCCTACATAT
*
26778505 TTCACAAA
1 TTCAAAAA
*
26778513 TTCACAAA
1 TTCAAAAA
26778521 TTCAAAAA
1 TTCAAAAA
26778529 TTCAAAAA
1 TTCAAAAA
26778537 TT
1 TT
26778539 TTACCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (8 bp):
TTCAAAAA
Found at i:26783967 original size:90 final size:90
Alignment explanation
Indices: 26783866--26784046 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 90
26783856 TGTATTTTGC
*
26783866 ATTTGATAAATTTGTTAAGGTGGATGATAAATATGGAAATGGTTATGATGGTATTTGTTGAGTAA
1 ATTTGATAAATTTGTTAAGGTGGATGATAAATATGGAAATGGTCATGATGGTATTTGTTGAGTAA
26783931 GAGAGTGGTATGTGAACATTATGGT
66 GAGAGTGGTATGTGAACATTATGGT
26783956 ATTTGATAAATTTGTTAAGGTGGATGATAAATATGGAAATGGTCATGATGGTATTTGTTGAGTAA
1 ATTTGATAAATTTGTTAAGGTGGATGATAAATATGGAAATGGTCATGATGGTATTTGTTGAGTAA
26784021 GAGAGTGGTATGTGAACATTATGGT
66 GAGAGTGGTATGTGAACATTATGGT
26784046 A
1 A
26784047 AATGTAGTAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.37
Consensus pattern (90 bp):
ATTTGATAAATTTGTTAAGGTGGATGATAAATATGGAAATGGTCATGATGGTATTTGTTGAGTAA
GAGAGTGGTATGTGAACATTATGGT
Found at i:26784012 original size:43 final size:42
Alignment explanation
Indices: 26783875--26784014 Score: 99
Period size: 43 Copynumber: 3.2 Consensus size: 42
26783865 CATTTGATAA
26783875 ATTTGTTAAGGTGGATGATAAATATGGAAATGGTTATGATGGT
1 ATTTGTTAAGGTGGATGATAAATATGGAAATGG-TATGATGGT
* * * * **
26783918 ATTTGTTGA-GTAAGAGAGTGGT--ATGTGAACATTATGGTATTTGAT-AA
1 ATTTGTTAAGGT--G-GA-TGATAAATATGGA-A--ATGGTA--TGATGGT
26783965 ATTTGTTAAGGTGGATGATAAATATGGAAATGGTCATGATGGT
1 ATTTGTTAAGGTGGATGATAAATATGGAAATGGT-ATGATGGT
26784008 ATTTGTT
1 ATTTGTT
26784015 GAGTAAGAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
42 6 0.08
43 20 0.28
44 10 0.14
45 6 0.08
46 11 0.15
47 12 0.17
48 6 0.08
ACGTcount: A:0.31, C:0.01, G:0.29, T:0.39
Consensus pattern (42 bp):
ATTTGTTAAGGTGGATGATAAATATGGAAATGGTATGATGGT
Found at i:26788914 original size:25 final size:25
Alignment explanation
Indices: 26788886--26788948 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 25
26788876 GTCCCCCTTC
26788886 TTAAAATGAACAATGTCCTCATTGT
1 TTAAAATGAACAATGTCCTCATTGT
26788911 TTAAAAAAATGAACAATGTCCTCATTGT
1 TT---AAAATGAACAATGTCCTCATTGT
* *
26788939 TCAAAGTGAA
1 TTAAAATGAA
26788949 TAGATACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.27
28 24 0.73
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (25 bp):
TTAAAATGAACAATGTCCTCATTGT
Found at i:26790567 original size:21 final size:21
Alignment explanation
Indices: 26790526--26790568 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
26790516 ATAATTCAAT
*
26790526 AAATTGAAAAATTAGATAATA
1 AAATTGAAAAATTAGAGAATA
*
26790547 AAATT-AAAATTTAGGAGAATA
1 AAATTGAAAAATTA-GAGAATA
26790568 A
1 A
26790569 TTAGTCTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
AAATTGAAAAATTAGAGAATA
Found at i:26791153 original size:16 final size:16
Alignment explanation
Indices: 26791112--26791153 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
26791102 AAAGCTGATA
26791112 ATAATTAATATATATT
1 ATAATTAATATATATT
*
26791128 ATAATGAATATA-ATT
1 ATAATTAATATATATT
26791143 ATATATTAATA
1 ATA-ATTAATA
26791154 ATTATTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:26791277 original size:30 final size:30
Alignment explanation
Indices: 26791220--26791277 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
26791210 GCTTTTTGAA
* * *
26791220 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATAGTTACAAAAAGAGGCACCAAATTTTT
26791250 AATAGTTACAAAAAGA-GCAACCAAATTT
1 AATAGTTACAAAAAGAGGC-ACCAAATTT
26791278 AAAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (30 bp):
AATAGTTACAAAAAGAGGCACCAAATTTTT
Found at i:26794403 original size:30 final size:31
Alignment explanation
Indices: 26794369--26794427 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
26794359 TTCGAGATTG
26794369 GGGACAAAAATGTAATTATG-CAAAAGTTTA
1 GGGACAAAAATGTAATTATGACAAAAGTTTA
* *
26794399 GGGACAAAATTGTAATTTTGACAAAAGTT
1 GGGACAAAAATGTAATTATGACAAAAGTT
26794428 GAGTCAAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (31 bp):
GGGACAAAAATGTAATTATGACAAAAGTTTA
Found at i:26794982 original size:51 final size:50
Alignment explanation
Indices: 26794900--26795545 Score: 559
Period size: 51 Copynumber: 12.7 Consensus size: 50
26794890 GATGAATACG
**
26794900 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * *
26794951 TGTGTAGTCCTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
** *
26795002 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * * *
26795053 TGTGTAGTCCTAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
** *
26795104 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * *
26795155 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCAAGAAGATTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
** * *
26795206 TGTGTAGTACTGTGTGAAGGTTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * *
26795257 TGTGTAGTACTAAGTGAAGGTTACAATGTGTACCGAGAAGCT-TCGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATAT-GGTCACA
* *
26795308 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* *
26795359 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CAGA-AAAGCTTTGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAA--TATGGTCACA
* * * * **
26795410 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCATG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATA--TGGTCACA
* * * *
26795460 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATA--TGGTCACA
* *
26795510 TGTGTAGTACTATGTGAAGGCTACTACATGTATCGA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGA
26795546 ATTATAAAAG
Statistics
Matches: 477, Mismatches: 100, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
50 95 0.20
51 374 0.78
52 8 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:26795073 original size:102 final size:102
Alignment explanation
Indices: 26794897--26795545 Score: 946
Period size: 102 Copynumber: 6.4 Consensus size: 102
26794887 ATCGATGAAT
* *
26794897 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTCCT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
26794962 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
* * *
26794999 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTTACATGTGTAGTCCT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
*
26795064 AAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
26795101 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
* *
26795166 AAGTGAAGGCTACAATGTGTACCAAGAAGATTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
* *
26795203 ACGTGTGTAGTACTGTGTGAAGGTTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
* *
26795268 AAGTGAAGGTTACAATGTGTACCGAGAAGCTTCGGTC
66 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
* *
26795305 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
* * *
26795370 AAGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
* * * * * **
26795407 ACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCATGTGTGTAGTAC
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTAC
* * * * * *
26795470 TATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGATC
65 TAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTC
* * * *
26795507 ACATGTGTAGTACTATGTGAAGGCTACTACATGTATCGA
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
26795546 ATTATAAAAG
Statistics
Matches: 509, Mismatches: 35, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
100 40 0.08
101 43 0.08
102 426 0.84
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
Found at i:26805686 original size:20 final size:19
Alignment explanation
Indices: 26805663--26805704 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
26805653 TAAAGAAAGT
26805663 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
26805683 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
26805702 AAA
1 AAA
26805705 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:26810935 original size:47 final size:47
Alignment explanation
Indices: 26810857--26812260 Score: 2448
Period size: 47 Copynumber: 29.6 Consensus size: 47
26810847 CCCTTCAGGA
* * * * * *
26810857 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26810904 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26810951 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26810998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811045 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26811139 CTTATCACATATATATACACTTTCACATTCATCATATCGGCCATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811188 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811284 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811331 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811425 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811474 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
26811521 CTTATCACATATATACACTTCCACATTCATCACATCGGTTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811568 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811615 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811662 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811711 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811760 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811807 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811854 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26811950 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26811997 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26812044 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
26812091 CTTATCACATATATACACTTTCACATTCATAACATCGACCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26812138 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26812187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26812234 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
26812261 ACCAACCCTT
Statistics
Matches: 1301, Mismatches: 46, Indels: 20
0.95 0.03 0.01
Matches are distributed among these distances:
47 981 0.75
49 320 0.25
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:26811897 original size:523 final size:521
Alignment explanation
Indices: 26810857--26812260 Score: 2510
Period size: 523 Copynumber: 2.7 Consensus size: 521
26810847 CCCTTCAGGA
* * * * * * *
26810857 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
26810922 TTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
26810987 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
26811052 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
196 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
*
26811117 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCATATCGGCCA
261 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
26811182 TTAGACCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
326 TTAGACCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
26811247 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAAATTC
391 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAAATTC
*
26811312 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGG
456 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGA
26811377 C
521 C
* *
26811378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
26811443 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * **
26811508 TCGGCCATTAGGTCTTATCACATATATACACTTCCACATTCATCACATCGGTTATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
26811573 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
194 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
26811638 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
259 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
26811703 CATTAGACCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
324 CATTAGACCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
26811768 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
389 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAAAT
*
26811833 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
454 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTA
26811898 GAC
519 GAC
26811901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
26811966 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
26812031 TCGGTCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* * *
26812096 CACATATATACACTTTCACATTCATAACATCGACCATTAGACCTTATCACATATATATACACTTT
194 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTT
26812161 CACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCG
257 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
26812224 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
322 GCCATTAGACCTTATCACATATATATACACTTTCACATT
26812261 ACCAACCCTT
Statistics
Matches: 846, Mismatches: 31, Indels: 12
0.95 0.03 0.01
Matches are distributed among these distances:
521 65 0.08
523 689 0.81
525 92 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (521 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
TTAGACCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAAATTC
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGA
C
Found at i:26812626 original size:40 final size:39
Alignment explanation
Indices: 26812485--26812617 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 39
26812475 GCTACTCGTT
* *
26812485 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
26812525 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* *
26812565 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTTAGTAACTCGCA
26812605 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26812618 ATCTTAGTCT
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
39 4 0.05
40 74 0.89
41 5 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:26812664 original size:80 final size:80
Alignment explanation
Indices: 26812485--26812667 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
26812475 GCTACTCGTT
*
26812485 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* *
26812550 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* ** **
26812565 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACC
* *
26812627 TGGATAT-GTTCACTTAGCA
63 CGGATATAG-TAAC-TAGCA
26812646 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
26812668 AGACATCATT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
79 7 0.08
80 65 0.76
81 14 0.16
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:26823403 original size:18 final size:17
Alignment explanation
Indices: 26823375--26823427 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
26823365 ATCGTTTCTA
* *
26823375 TTTACAAAAAACCTTAGT
1 TTTAAAAAAAACCAT-GT
26823393 TTTAAAAAAAAGACCATGT
1 TTT-AAAAAAA-ACCATGT
26823412 TTTAAAAAAAATCCAT
1 TTTAAAAAAAA-CCAT
26823428 AAAAACAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 14 0.47
19 11 0.37
20 4 0.13
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (17 bp):
TTTAAAAAAAACCATGT
Found at i:26823403 original size:20 final size:19
Alignment explanation
Indices: 26823380--26823422 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
26823370 TTCTATTTAC
*
26823380 AAAAAACCTTAGTTTTAAAA
1 AAAAAACCAT-GTTTTAAAA
*
26823400 AAAAGACCATGTTTTAAAA
1 AAAAAACCATGTTTTAAAA
26823419 AAAA
1 AAAA
26823423 TCCATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAACCATGTTTTAAAA
Found at i:26830868 original size:16 final size:16
Alignment explanation
Indices: 26830847--26830877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26830837 CACTAACATT
*
26830847 AAATGCGATGACAATA
1 AAATGCAATGACAATA
26830863 AAATGCAATGACAAT
1 AAATGCAATGACAAT
26830878 GTGCACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (16 bp):
AAATGCAATGACAATA
Found at i:26834540 original size:555 final size:555
Alignment explanation
Indices: 26832851--26834817 Score: 3020
Period size: 555 Copynumber: 3.6 Consensus size: 555
26832841 TTTACAGTCG
* ** * *
26832851 GCACAATGAAGAAAGGTTTATAGTGACTGAAAGAAGAAGATGGAAAGACATGATTTTTGTGAAGG
1 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAAGACATGATTTTTGTGAAGG
* * * * * *
26832916 GATATAAAGCTGGTGGGAATAATTATGTCCAATGAGAATTGTGCCCGCTTAGACAAATTAGA-TG
66 GATATAAAGCTGGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCACACTG
* * * * * * *
26832980 GTAGGTTGCTTTTGATCAAACGATAGGATCTAAAATTTTTAATCTGTCTTCATTTTTGCTGAGTG
131 CTAGGTTGCTTTTGATCAAACGATAGGATCTGAAATTTTTGATCTATCCTCATTTTTGCTAAGTC
*
26833045 AAACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
196 AGACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
* * *
26833110 CTAATTATTCTACAAATATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACTAAAATAAAA
261 CTAATTATTCTGCAAAAATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACAAAAATAAAA
*
26833175 TAAAATAACAAAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTCTACC
326 TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTCTACC
26833240 TGC---T--T--GT-T--C-----AA----T---T-GCTGGCCATTCACTTTGAATTGGTGTCCA
391 TGCTTGTGATCAGTATCCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCCA
* *
26833282 -TATTTAAATCTCTAATTGTGACTACACCATGAGAAAATACTTCAACAAGTTGGAAAGGTCCAGA
456 TTATTTAAATCTCTGATTGTGACTGCACCATGAGAAAATACTTCAACAAGTTGGAAAGGTCCAGA
*
26833346 CCAACGAGAGCACAATTTACCCGTA-TGCAGCTTTA
521 CCAACGAGAGCACAATTTACCC-AAGTGCAGCTTTA
* **
26833381 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAATATGTGATTTTTGTGAAGG
1 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAAGACATGATTTTTGTGAAGG
* * *
26833446 GATATAAAGCTAGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCATACAG
66 GATATAAAGCTGGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCACACTG
*
26833511 CTAGGTTTCTTTTGATCAAACGATAGGATCTGAAATTTTTGATCTATCCTCATTTTTGCTAAGTC
131 CTAGGTTGCTTTTGATCAAACGATAGGATCTGAAATTTTTGATCTATCCTCATTTTTGCTAAGTC
* *
26833576 ATACGTGACAGTACAATAGTACGAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
196 AGACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
* *
26833641 CTAATTATTCTGCAAAAATATAGGCAAATAGAAAAAGAATAAATTAGATTTGAACAAAAATAAAA
261 CTAATTATTCTGCAAAAATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACAAAAATAAAA
*
26833706 TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTATACC
326 TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTCTACC
26833771 TGCTTGTGATCAGTATTCCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCC
391 TGCTTGTGATCAGTA-TCCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCC
* *
26833836 ATTATTTAAATCTCTGATTGTGATTGCACCATGAGAAAATACTGCAACAAGTTGGAAAGGTCCAG
455 ATTATTTAAATCTCTGATTGTGACTGCACCATGAGAAAATACTTCAACAAGTTGGAAAGGTCCAG
*
26833901 ACCAACGAGAGCACAATTTACCCAGGTGCAGCTTTA
520 ACCAACGAGAGCACAATTTACCCAAGTGCAGCTTTA
* * *
26833937 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTAGAAAGACGTGATTTTTGTGAATG
1 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAAGACATGATTTTTGTGAAGG
* * * * *
26834002 GATATAAAGCTGGCTGGAATGATTATGCCCAATGAGAATTCTGCCCACTCAGACAAATCACACTG
66 GATATAAAGCTGGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCACACTG
* * *
26834067 CTAGGTTGCTTTTGATCAAACGGTAGGATATGAAATTTTTTATCTATCCTCATTTTTGCTAAGTC
131 CTAGGTTGCTTTTGATCAAACGATAGGATCTGAAATTTTTGATCTATCCTCATTTTTGCTAAGTC
* *
26834132 AGACGTAACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATTGTGC
196 AGACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
* *
26834197 CTAATTATTTTGCAAAAATATAGAAAAATAGAAAAAGAATAAATCAGATTTGAACAAAAAT-AAA
261 CTAATTATTCTGCAAAAATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACAAAAATAAAA
* *
26834261 TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTAGACCAGTCTAATGGTCTCTACC
326 TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTCTACC
26834326 TGCTTGTGATCAGTATACCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCC
391 TGCTTGTGATCAGTAT-CCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCC
*
26834391 ATTATTTAAATCTCTGATTGTGACTGCACCATGAGAAAATACTTCAACAAGTTTGAAAGGTCCAG
455 ATTATTTAAATCTCTGATTGTGACTGCACCATGAGAAAATACTTCAACAAGTTGGAAAGGTCCAG
*
26834456 ACCAATGAGAGCACAATTTACCCAAGTGCAGCTTTA
520 ACCAACGAGAGCACAATTTACCCAAGTGCAGCTTTA
* * *
26834492 GCATAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAAAAGCTGGAAAGACATGATTTTTGTGAGGG
1 GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAAGACATGATTTTTGTGAAGG
* * *
26834557 GATATAAAGCTGGCGGGAATAATTACGCCAAATGAGAATTGTGCCCGCTCAGAAAAATCACACGG
66 GATATAAAGCTGGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCACACTG
* * * *
26834622 CCAGGTTGCTTTTGATCAAACGGTAGGAT-TGGAAATTTTTGATCTATCCTCAATTTTGCTGAGT
131 CTAGGTTGCTTTTGATCAAACGATAGGATCT-GAAATTTTTGATCTATCCTCATTTTTGCTAAGT
* *
26834686 CAGACGTGACAGTACAATAGTACGAACTACGTTGACAATAAAACCCAAGTGCGTCGACAATGGTG
195 CAGACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTG
* *
26834751 CTTAATTATTCTGCAAAAATATAGACAAATAGAAAAA-AATAAATTAGATTTGAACAAAAATTAA
260 CCTAATTATTCTGCAAAAATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACAAAAA-TAA
26834815 AAT
324 AAT
26834818 TTTTAGACCA
Statistics
Matches: 1309, Mismatches: 97, Indels: 36
0.91 0.07 0.02
Matches are distributed among these distances:
530 112 0.09
531 247 0.19
534 1 0.00
536 1 0.00
538 2 0.00
540 1 0.00
542 1 0.00
547 2 0.00
551 1 0.00
554 25 0.02
555 523 0.40
556 393 0.30
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (555 bp):
GCACAGTGAAGAGGGGTTTATAGTGAGTGAAAGAAGAAGCTGGAAAGACATGATTTTTGTGAAGG
GATATAAAGCTGGCGGGAATAATTACGCCCAATGAGAATTGTGCCCGCTCAGACAAATCACACTG
CTAGGTTGCTTTTGATCAAACGATAGGATCTGAAATTTTTGATCTATCCTCATTTTTGCTAAGTC
AGACGTGACAGTACAATAGTACAAACTACGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTGC
CTAATTATTCTGCAAAAATATAGACAAATAGAAAAAGAATAAATCAGATTTGAACAAAAATAAAA
TAAAATAACATAATGATAAATTCACTAAAAATTAAAATTTTTCGACCAGTTTAATGGTCTCTACC
TGCTTGTGATCAGTATCCCAAGATAATGTTTCAATCGCTGGCCATTCACTTTGAATTGGTGTCCA
TTATTTAAATCTCTGATTGTGACTGCACCATGAGAAAATACTTCAACAAGTTGGAAAGGTCCAGA
CCAACGAGAGCACAATTTACCCAAGTGCAGCTTTA
Found at i:26838859 original size:21 final size:21
Alignment explanation
Indices: 26838817--26838860 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26838807 CTAATTCTAG
*
26838817 TGTGGATGCATCTAGCTTTGT
1 TGTGGATGCATCTAGCTGTGT
26838838 TGTGGATGCATCTGAG-TGTGT
1 TGTGGATGCATCT-AGCTGTGT
26838859 TG
1 TG
26838861 ATTGTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.41
Consensus pattern (21 bp):
TGTGGATGCATCTAGCTGTGT
Found at i:26842130 original size:40 final size:39
Alignment explanation
Indices: 26842079--26842209 Score: 194
Period size: 39 Copynumber: 3.3 Consensus size: 39
26842069 GCTCCTCGTT
* * *
26842079 CAAATTCCTTCGGGACAT-AGCCGGTTATAGATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAG-TAACTCGCA
26842119 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
26842158 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
26842197 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26842210 CTTAGCCGAA
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
39 52 0.61
40 31 0.36
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:26842160 original size:39 final size:39
Alignment explanation
Indices: 26842110--26842252 Score: 202
Period size: 39 Copynumber: 3.7 Consensus size: 39
26842100 CGGTTATAGA
26842110 TAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAG
1 TAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAG
26842149 TAACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAG
1 TAACTCGCACAAATGCCTTC-GGACTTAACCCGGATTTAG
* * *
26842188 TAACTCGCACAAATGCCTTCGG-CTT-AGCCGAAATTAG
1 TAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAG
* *
26842225 TATCTCGCACAAATACCTTCGGATCTTA
1 TAACTCGCACAAATGCCTTCGGA-CTTA
26842253 GTCCGGATAT
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
36 4 0.04
37 27 0.29
38 2 0.02
39 48 0.51
40 13 0.14
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (39 bp):
TAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAG
Found at i:26852300 original size:49 final size:47
Alignment explanation
Indices: 26851911--26852421 Score: 898
Period size: 47 Copynumber: 10.7 Consensus size: 47
26851901 GAAATGATAG
26851911 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26851958 TAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26852005 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26852052 TAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26852098 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26852145 TAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26852192 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26852239 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
26852288 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
26852337 TAGGGCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
26852386 TAGGGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGT
26852422 CCCGAAGGGC
Statistics
Matches: 453, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
46 46 0.10
47 266 0.59
49 137 0.30
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:26852595 original size:37 final size:37
Alignment explanation
Indices: 26852539--26852617 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26852529 CCGAGCTCTA
* * *
26852539 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
26852576 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26852613 AAGAC
1 AAGAC
26852618 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26853367 original size:40 final size:40
Alignment explanation
Indices: 26853305--26853524 Score: 220
Period size: 39 Copynumber: 5.6 Consensus size: 40
26853295 CCAGCATGAT
*
26853305 TGCTCTTCGGGA-TTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
26853344 TGCTCTTCGGAACTTAGCCCGGATACATCATTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
26853384 TGCTCTTCGGGACTTAG-CCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
26853423 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
26853464 TGC-CTTC-GGATCTTAG-TCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
26853503 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
26853525 CATCATTCGA
Statistics
Matches: 151, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 73 0.48
40 67 0.44
41 11 0.07
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:26853389 original size:79 final size:79
Alignment explanation
Indices: 26853297--26853446 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 79
26853287 ACACGTCACC
* *
26853297 AGCATGATTGCTCTTCGGGA-TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGC-CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
26853361 CCCGGATACATCATT
65 CCCGGATACATCATT
* * *
26853376 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGC
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGC
26853441 CCGGAT
66 CCGGAT
26853447 TTAGTAACTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 60 0.92
80 5 0.08
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (79 bp):
AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGC
CCGGATACATCATT
Found at i:26853418 original size:39 final size:40
Alignment explanation
Indices: 26853292--26853446 Score: 224
Period size: 39 Copynumber: 3.9 Consensus size: 40
26853282 CGAATACACG
* * * *
26853292 TCACCAGCATGATTGCTCTTCGGGA-TTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
26853331 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
26853371 TCATTAGCATGAATGCTCTTCGGGACTTAG-CCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
26853410 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
26853447 TTAGTAACTC
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 58 0.56
40 45 0.44
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:26853471 original size:79 final size:79
Alignment explanation
Indices: 26853305--26853524 Score: 216
Period size: 79 Copynumber: 2.8 Consensus size: 79
26853295 CCAGCATGAT
*
26853305 TGCTCTTCGGGA-TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGC-CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * **
26853369 CATCATTAGCATGAA
65 CATAACTAGCACCAA
* * * **
26853384 TGCTCTTCGGGACTTAGCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTT
1 TGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
*
26853449 AGTAACTCGCACCAA
66 A-TAACTAGCACCAA
* ** * *
26853464 TGC-CTTC-GGATCTTAGTCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGA-CTTAGCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCCGGA
26853525 CATCATTCGA
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 88 0.74
80 23 0.19
81 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
ATAACTAGCACCAA
Found at i:26853872 original size:29 final size:29
Alignment explanation
Indices: 26853830--26853908 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
26853820 CTTAATAATC
* *
26853830 AACCACGCATACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTGA
*
26853860 AACTCGCACACTTAGTGCCATGCATTTGA
1 AACCCGCACACTTAGTGCCATGCATTTGA
* *
26853889 AGCCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
26853909 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTGA
Found at i:26853956 original size:43 final size:43
Alignment explanation
Indices: 26853890--26853992 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
26853880 TGCATTTGAA
* *
26853890 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
26853933 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
26853976 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
26853993 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
Found at i:26858789 original size:136 final size:137
Alignment explanation
Indices: 26858536--26858803 Score: 360
Period size: 136 Copynumber: 2.0 Consensus size: 137
26858526 ACATGTCATT
* *
26858536 AGGTATACTATGTTTTTGGTGCTGGTCTTGAATGTCCCACAGGTGGCTGAGTTCCAACATTTTTT
1 AGGTATACCATGTTTTGGGTGCTGGTCTTGAATGTCCCACAGGTGGCTGAGTTCCAACATTTTTT
* * ** * *
26858601 GTAGATACTCGACAGCTTGTGGAGCAGCACCATGTAGCTACATTTCGACCGACAGCTCGTGTGAG
66 GCAGATACTCGACAACTTGTGGAGCAGCACCACATAGCTACATTCCGACCGACAGCTCATGTGAG
26858666 CAGACCC
131 CAGACCC
* * * *
26858673 AGGT-TACCATGTTTTGGGTGTTGGTCTTGAATGTCCTACTA-GTGGCTGAGTTTCGACATTTTT
1 AGGTATACCATGTTTTGGGTGCTGGTCTTGAATGTCCCAC-AGGTGGCTGAGTTCCAACATTTTT
* * * * *
26858736 TGCGGATACTCGATAACTTGTGGAGCAGCACCGCATAGCTACGTTCCGACCGACAGCTTATGTGA
65 TGCAGATACTCGACAACTTGTGGAGCAGCACCACATAGCTACATTCCGACCGACAGCTCATGTGA
26858801 GCA
130 GCA
26858804 AGCCCATTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
136 108 0.96
137 5 0.04
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (137 bp):
AGGTATACCATGTTTTGGGTGCTGGTCTTGAATGTCCCACAGGTGGCTGAGTTCCAACATTTTTT
GCAGATACTCGACAACTTGTGGAGCAGCACCACATAGCTACATTCCGACCGACAGCTCATGTGAG
CAGACCC
Found at i:26865902 original size:22 final size:21
Alignment explanation
Indices: 26865870--26865933 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
26865860 TTGGTATTTA
26865870 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
26865891 GGAAGTTGGTACGAAATGGTAT
1 GGAA-TTGGTACGAAATGGTAT
* * *
26865913 GGTATTTGGCACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
26865934 ATGGTTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.11
22 33 0.87
23 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.34, T:0.30
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:26867057 original size:29 final size:31
Alignment explanation
Indices: 26866995--26867059 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
26866985 AGCAAAAACT
*
26866995 AATTGAGCTGAATTTGTAAGTATTTGAGCTA
1 AATTGAGCTGAATTTGTAACTATTTGAGCTA
26867026 AATTGAGCTG-ATTTG-AACTCA-TTGAGCTA
1 AATTGAGCTGAATTTGTAACT-ATTTGAGCTA
26867055 AATTG
1 AATTG
26867060 GAAGTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.50
30 6 0.19
31 10 0.31
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (31 bp):
AATTGAGCTGAATTTGTAACTATTTGAGCTA
Found at i:26870084 original size:33 final size:32
Alignment explanation
Indices: 26870040--26870127 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
26870030 TTTCACTCAC
*
26870040 TTTTTCTTTTTCATCTTTTTCTTTTCTTGCTT
1 TTTTTCATTTTCATCTTTTTCTTTTCTTGCTT
* *
26870072 TCTTTTCATTTTCAT-TTTTTGAATTTTCTTTCTT
1 T-TTTTCATTTTCATCTTTTT--CTTTTCTTGCTT
26870106 TTTTTCATTTT--TC-TTTTCTTTT
1 TTTTTCATTTTCATCTTTTTCTTTT
26870128 GTATTTTTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
29 4 0.08
31 5 0.10
32 6 0.12
33 22 0.46
34 11 0.23
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (32 bp):
TTTTTCATTTTCATCTTTTTCTTTTCTTGCTT
Found at i:26870103 original size:19 final size:19
Alignment explanation
Indices: 26870081--26870121 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
26870071 TTCTTTTCAT
*
26870081 TTTCATTTTTTGAATTTTC
1 TTTCATTTTTTCAATTTTC
* *
26870100 TTTCTTTTTTTCATTTTTC
1 TTTCATTTTTTCAATTTTC
26870119 TTT
1 TTT
26870122 TCTTTTGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCATTTTTTCAATTTTC
Found at i:26872374 original size:18 final size:19
Alignment explanation
Indices: 26872351--26872397 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
26872341 AGACCGTATA
26872351 CAATTTTTTT-CTTTTTTT
1 CAATTTTTTTACTTTTTTT
*
26872369 CAATTTTTTTTATTTTTTTT
1 CAA-TTTTTTTACTTTTTTT
26872389 C-ATTTTTTT
1 CAATTTTTTT
26872398 TTCAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 8 0.31
20 8 0.31
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (19 bp):
CAATTTTTTTACTTTTTTT
Found at i:26872375 original size:10 final size:10
Alignment explanation
Indices: 26872351--26872412 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
26872341 AGACCGTATA
26872351 CAATTTTTTT
1 CAATTTTTTT
26872361 C--TTTTTTT
1 CAATTTTTTT
26872369 CAATTTTTTT
1 CAATTTTTTT
* *
26872379 TATTTTTTTT
1 CAATTTTTTT
*
26872389 CATTTTTTTTT
1 CA-ATTTTTTT
26872400 CAAATTTTTTT
1 C-AATTTTTTT
26872411 CA
1 CA
26872413 CGAGTCTACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.18
10 18 0.41
11 17 0.39
12 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (10 bp):
CAATTTTTTT
Found at i:26872376 original size:11 final size:11
Alignment explanation
Indices: 26872362--26872412 Score: 70
Period size: 11 Copynumber: 4.8 Consensus size: 11
26872352 AATTTTTTTC
26872362 TTTTTTTCAAT
1 TTTTTTTCAAT
26872373 TTTTTTT--AT
1 TTTTTTTCAAT
*
26872382 TTTTTTTCATT
1 TTTTTTTCAAT
*
26872393 TTTTTTTCAAA
1 TTTTTTTCAAT
26872404 TTTTTTTCA
1 TTTTTTTCA
26872413 CGAGTCTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 9 0.26
11 26 0.74
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:26872743 original size:22 final size:21
Alignment explanation
Indices: 26872711--26872774 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
26872701 TTGGTATTTA
*
26872711 GGAATTGGTACAAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
26872732 GGAAGTTGGTACGAAATGGTAT
1 GGAA-TTGGTACGAAATGGTAT
* *
26872754 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
26872775 ATGGTTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.11
22 33 0.87
23 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:26873898 original size:29 final size:31
Alignment explanation
Indices: 26873836--26873900 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
26873826 AGCAAAAATT
*
26873836 AATTGAGCTGAATTTGTAAGTATTTGAGCTA
1 AATTGAGCTGAATTTGTAACTATTTGAGCTA
26873867 AATTGAGCTG-ATTTG-AACTCA-TTGAGCTA
1 AATTGAGCTGAATTTGTAACT-ATTTGAGCTA
26873896 AATTG
1 AATTG
26873901 GAAGTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.50
30 6 0.19
31 10 0.31
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (31 bp):
AATTGAGCTGAATTTGTAACTATTTGAGCTA
Found at i:26878357 original size:30 final size:30
Alignment explanation
Indices: 26878310--26878624 Score: 252
Period size: 30 Copynumber: 10.6 Consensus size: 30
26878300 TATCACCATT
*
26878310 CCTTTTCATAA-TCGATAGTCGAAGCTATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
*
26878339 CCTTTTCATAATTCGATAGCCAAAGCTATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
* ** * *
26878369 CCTTTTCATAATTCGATGGTAGTCA-CCATC
1 CCTTTTCATAATTCGATAGCCG-AAGCTATC
* * * *
26878399 CCTTTCCATAGTT-GATGATG--GTCA-CCATC
1 CCTTTTCATAATTCGAT-A-GCCG-AAGCTATC
26878428 CCTTTTCATAATTCGAT-GACCGAAGCTATC
1 CCTTTTCATAATTCGATAG-CCGAAGCTATC
* * *
26878458 CCTTTGCATAATTTGATAGCCAAAGCTATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
* * *
26878488 CCTTTTCATAATTCGATGGTC-ATTA-CCATC
1 CCTTTTCATAATTCGATAGCCGA--AGCTATC
* * * *
26878518 CCTTTTCATAGTTCAATAGCCAAAGTTATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
* * * *
26878548 TCTTTTCACAATTCAATAGCCGAAGCAATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
* *
26878578 CCTTTTCATAATTCGATGGACGAAGCTATC
1 CCTTTTCATAATTCGATAGCCGAAGCTATC
*
26878608 CTTTTTCATAATTCGAT
1 CCTTTTCATAATTCGAT
26878625 GGTCATTGAT
Statistics
Matches: 230, Mismatches: 42, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.00
29 37 0.16
30 187 0.81
31 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (30 bp):
CCTTTTCATAATTCGATAGCCGAAGCTATC
Found at i:26878516 original size:119 final size:117
Alignment explanation
Indices: 26878302--26878631 Score: 405
Period size: 119 Copynumber: 2.8 Consensus size: 117
26878292 ATGATAGTTA
* *
26878302 TCACCATTCCTTTTCATAA-TCGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCCAAAGCT
1 TCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGCCAAAGCT
* * *
26878366 ATCCCTTTTCATAATTCGATGGT-AGTCACCATCCCTTTCCATAGTTGATGATGG
66 ATCCCTTTTCATAATTCGATGGTCA-TTACCATCCCTTTCCATAGTTCA--ATAG
* *
26878420 TCACCATCCCTTTTCATAATTCGAT-GACCGAAGCTATCCCTTTGCATAATTTGATAGCCAAAGC
1 TCACCATCCCTTTTCATAATTCGATAG-CCGAAGCTATCCCTTTTCATAATTCGATAGCCAAAGC
*
26878484 TATCCCTTTTCATAATTCGATGGTCATTACCATCCCTTTTCATAGTTCAATAG
65 TATCCCTTTTCATAATTCGATGGTCATTACCATCCCTTTCCATAGTTCAATAG
* ** * * * * * * *
26878537 CCAAAGTTATCTCTTTTCACAATTCAATAGCCGAAGCAATCCCTTTTCATAATTCGATGGACGAA
1 TC--A-CCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGCCAAA
*
26878602 GCTATCCTTTTTCATAATTCGATGGTCATT
63 GCTATCCCTTTTCATAATTCGATGGTCATT
26878632 GATACGCCAT
Statistics
Matches: 184, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
117 4 0.02
118 19 0.10
119 84 0.46
120 76 0.41
121 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (117 bp):
TCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGCCAAAGCT
ATCCCTTTTCATAATTCGATGGTCATTACCATCCCTTTCCATAGTTCAATAG
Found at i:26887920 original size:41 final size:41
Alignment explanation
Indices: 26887875--26887953 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
26887865 GTATATTCAA
*
26887875 GGGTACCGAAGTACAAAGAGGGGCACATATGTGCAATTTAG
1 GGGTACCGAAGTACAAAGAGAGGCACATATGTGCAATTTAG
* * *
26887916 GGGTACTGAAGTACAAATAGAGGCACGTATGTGCAATT
1 GGGTACCGAAGTACAAAGAGAGGCACATATGTGCAATT
26887954 CAAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (41 bp):
GGGTACCGAAGTACAAAGAGAGGCACATATGTGCAATTTAG
Found at i:26904427 original size:48 final size:48
Alignment explanation
Indices: 26904371--26904564 Score: 237
Period size: 48 Copynumber: 4.0 Consensus size: 48
26904361 AGATTTCTCA
* * *
26904371 GTGGCCTGCACACAGTCCGTGCCACCTTTGTGTAATAACAGATTCTCG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCG
* ** * * *
26904419 GTGGCCTGCACATAGTCTATGCCACCCTTGTATCTTAACA-AGTTATTG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTATCG
* * * * *
26904467 GTGGCCTACACACAGTCTGTGCCACCCTTGTGTCACAATAGAATATCG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCG
*
26904515 GTGGCCTGCACACAGCCCGTGCCACCCTTGTGTCATAACAGATTATCG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCG
26904563 GT
1 GT
26904565 ACGCATAGTA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 118 0.98
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (48 bp):
GTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCG
Found at i:26909371 original size:50 final size:50
Alignment explanation
Indices: 26909298--26909434 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 50
26909288 GGGAATGAGA
* * * ** * **
26909298 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACTATGTTTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
26909348 TCCCCCGTAAGACTATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACTATGTTTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
26909398 TCCCATGTAAGACTATATTTGGGATATGGCATTGGCA
1 TCCCACGTAAGACTATGTTTGGGACATGGCATGGGCA
26909435 GTACAGAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
TCCCACGTAAGACTATGTTTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:26909699 original size:12 final size:12
Alignment explanation
Indices: 26909682--26909720 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26909672 ATGAATTATT
26909682 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
26909694 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
26909706 TAAGTGAGTAAG
1 TAAGTAAGCAAG
26909718 TAA
1 TAA
26909721 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:26914789 original size:31 final size:31
Alignment explanation
Indices: 26914753--26914835 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
26914743 TTTTAAAAAC
26914753 TTGAAAATTAAAATGATAG-ATTTTGTAAAT
1 TTGAAAATTAAAATGATAGAATTTTGTAAAT
* * * * *
26914783 ATTGAAAGTTAAACTTATTGAATTTTTTAAAT
1 -TTGAAAATTAAAATGATAGAATTTTGTAAAT
* *
26914815 TT-AAAATTAAATTAATAGAAT
1 TTGAAAATTAAAATGATAGAAT
26914836 ATATAAATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
30 15 0.36
31 17 0.40
32 10 0.24
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (31 bp):
TTGAAAATTAAAATGATAGAATTTTGTAAAT
Found at i:26919200 original size:24 final size:24
Alignment explanation
Indices: 26919165--26919210 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
26919155 TAAGAAAAGA
*
26919165 AAAAATGGAATTC-ATATCATCCAC
1 AAAAATGAAATTCAATAT-ATCCAC
26919189 AAAAATGAAATTCAATATATCC
1 AAAAATGAAATTCAATATATCC
26919211 TTCCTCCCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAAATGAAATTCAATATATCCAC
Found at i:26921004 original size:154 final size:154
Alignment explanation
Indices: 26920724--26921035 Score: 491
Period size: 154 Copynumber: 2.0 Consensus size: 154
26920714 GTACACACAA
* * *
26920724 AAGATGCAAAATACAAAGATAATATAACTTCAAATCATATAGAATTCCACATCTAATTTCTATTG
1 AAGATGCAAAATACAAAGACAATATAACTCCAAATCATATAGAATTCCACATCTAATCTCTATTG
* *
26920789 ACATGTTAATTTTATCGTAACTATTTCAATAACTTTACTAGGAAATATAAATTTACAAATAACAT
66 ACATGTTAATTGTATCGTAACTATTTCAATAACTTTACTAAGAAATATAAATTTACAAATAACAT
* *
26920854 ATACTTGTTAAGGCTATTAGTATT
131 ATACCTATTAAGGCTATTAGTATT
* * **
26920878 AAGATGCAAAATTCGAAGACAATATAACTCCAAATCATATAGAATTTTACATCTAATCTCTATTG
1 AAGATGCAAAATACAAAGACAATATAACTCCAAATCATATAGAATTCCACATCTAATCTCTATTG
* *
26920943 ACATGTTAATTGTATTC-TAATTATTTCACTAACTTTACTAAGAAATATAAATTTACAAATAACA
66 ACATGTTAATTGTA-TCGTAACTATTTCAATAACTTTACTAAGAAATATAAATTTACAAATAACA
26921007 TATACCTATTAAGGCTATTAGTATT
130 TATACCTATTAAGGCTATTAGTATT
26921032 AAGA
1 AAGA
26921036 GTTTCATGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 142 0.99
155 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.36
Consensus pattern (154 bp):
AAGATGCAAAATACAAAGACAATATAACTCCAAATCATATAGAATTCCACATCTAATCTCTATTG
ACATGTTAATTGTATCGTAACTATTTCAATAACTTTACTAAGAAATATAAATTTACAAATAACAT
ATACCTATTAAGGCTATTAGTATT
Found at i:26929759 original size:6 final size:6
Alignment explanation
Indices: 26929745--26929779 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
26929735 TATAAACTAT
* *
26929745 AAATAA AAATTA AAACTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATT
26929780 TATGGAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATTA
Found at i:26929766 original size:18 final size:19
Alignment explanation
Indices: 26929738--26929777 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
26929728 AGAAACATAT
26929738 AAACTATAAATAAAAATTA
1 AAACTATAAATAAAAATTA
*
26929757 AAACTA-AAATTAAAATTA
1 AAACTATAAATAAAAATTA
26929775 AAA
1 AAA
26929778 TTTATGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAACTATAAATAAAAATTA
Found at i:26931842 original size:47 final size:47
Alignment explanation
Indices: 26931773--26931868 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
26931763 GTGTTAGCAC
26931773 ACTTTGTGTGAGCTTCCTATGTATCTGATATTATTCTAAGTGGTTTA
1 ACTTTGTGTGAGCTTCCTATGTATCTGATATTATTCTAAGTGGTTTA
26931820 ACTTTGTGTGAGCTTCCTATGTATCTGATATTATTCTAAGTGGTTTA
1 ACTTTGTGTGAGCTTCCTATGTATCTGATATTATTCTAAGTGGTTTA
26931867 AC
1 AC
26931869 GAGCATGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (47 bp):
ACTTTGTGTGAGCTTCCTATGTATCTGATATTATTCTAAGTGGTTTA
Found at i:26934981 original size:43 final size:42
Alignment explanation
Indices: 26934920--26935126 Score: 213
Period size: 43 Copynumber: 4.8 Consensus size: 42
26934910 TCCAATATGT
26934920 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* * *
26934963 GATTTTGTGTAAGACCACGTCTGGAACGTTGGCATTGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* ** *
26935006 GATTTACGTGTAAGACCATGTCTGGGAAATTGGCATCG-TATA
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
* *
26935048 TGATTTCGTGTAAGACCCCATCTGGGACAG-TGGCATCGATAGTT-
1 -GATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT--TTA
* * * *
26935092 GATTACATGTAAGACCATGTCTAGGACGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
26935127 TGTAAGAGCT
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.21
43 80 0.59
44 26 0.19
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
Found at i:26935141 original size:86 final size:85
Alignment explanation
Indices: 26934927--26935141 Score: 199
Period size: 85 Copynumber: 2.5 Consensus size: 85
26934917 TGTGATTTCG
* ** *
26934927 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATTTT-GTGTAAGACCACGTCTGGAACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-TAAGAG-TTTTCGTGTAAGACCACATCTGGAACG
* *
26934991 TTGGCATTGATTTGAGATTTACG
64 TTGGCATCGATTT-AGATTTACA
** * *
26935014 TGTAAGACCATGTCTGGGAAATTGGCATCGTATATGA--TTTCGTGTAAGACCCCATCTGGGACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTA-A-GAGTTTTCGTGTAAGACCACATCTGGAAC-
26935077 G-TGGCATCGATAGTT-GA-TTACA
63 GTTGGCATCGAT--TTAGATTTACA
* *
26935099 TGTAAGACCATGTCTAGGACGTTGGCATTGTAAGAGCTTTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTAAGAG-TTTTCG
26935142 AGCTATCTGA
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
83 2 0.02
84 1 0.01
85 35 0.33
86 35 0.33
87 28 0.27
88 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (85 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGTAAGAGTTTTCGTGTAAGACCACATCTGGAACGTT
GGCATCGATTTAGATTTACA
Found at i:26941746 original size:27 final size:26
Alignment explanation
Indices: 26941706--26941787 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
26941696 GGATAGCTCT
26941706 TATACATCAGAAATTGAGCAGCATATATA
1 TATACA-CA-AAATTGAGCAGCAT-TATA
26941735 TATACACAAAATTG-GACAGCATT-TA
1 TATACACAAAATTGAG-CAGCATTATA
*
26941760 TACAC-CAAAATTTGA-CAGCATGTATA
1 TATACACAAAA-TTGAGCAGCAT-TATA
26941786 TA
1 TA
26941788 CAAAATTGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
24 11 0.23
25 10 0.21
26 6 0.13
27 12 0.26
28 2 0.04
29 6 0.13
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (26 bp):
TATACACAAAATTGAGCAGCATTATA
Found at i:26941799 original size:23 final size:23
Alignment explanation
Indices: 26941735--26942175 Score: 292
Period size: 23 Copynumber: 19.0 Consensus size: 23
26941725 AGCATATATA
* *
26941735 TATACACAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATG
* *
26941758 TATACACCAAAATTTGACAGCATG
1 TATATA-CAAAATTGGACAGCATG
* *
26941782 TATATACAAAATTGGACAACATT
1 TATATACAAAATTGGACAGCATG
*
26941805 TAT-TAACCAAAATTAGG-CAGCATA
1 TATAT-A-CAAAATT-GGACAGCATG
* *
26941829 TATATACTAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
**
26941852 TATATACAAAATTTAACAGCATG
1 TATATACAAAATTGGACAGCATG
* *
26941875 TATA-AGCAAAATTGGACAACATT
1 TATATA-CAAAATTGGACAGCATG
* * *
26941898 TAT-TCACCAAAACTGGGCAGCATA
1 TATAT-A-CAAAATTGGACAGCATG
* * *
26941922 CATATACCAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
* *
26941945 TATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATG
* *
26941968 TATATGCAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATG
*
26941991 TAT-TCACCAAAATTGTG-CAGCATA
1 TATAT-A-CAAAATTG-GACAGCATG
* * * *
26942015 CATACACCAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
* * *
26942038 TATACACAAAATTTGACAGCACG
1 TATATACAAAATTGGACAGCATG
* *
26942061 TATATGCAAAATTGGACAGCATC
1 TATATACAAAATTGGACAGCATG
* *
26942084 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT-A-CAAAATTGGACAGCATG
* * *
26942108 CATATACCAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
* *
26942131 TATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATG
*
26942154 TATATGCAAAATTGGACAGCAT
1 TATATACAAAATTGGACAGCAT
26942176 TTAAGCATAA
Statistics
Matches: 324, Mismatches: 68, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
22 10 0.03
23 216 0.67
24 92 0.28
25 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (23 bp):
TATATACAAAATTGGACAGCATG
Found at i:26942187 original size:23 final size:22
Alignment explanation
Indices: 26942119--26942187 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
26942109 ATATACCAAT
*
26942119 TTGGACAGCACTTATA-CACAAAA
1 TTGGACAGCATTTA-AGCA-AAAA
* *
26942142 TTTGACAGCATGTATATGC-AAAA
1 TTGGACAGCAT-T-TAAGCAAAAA
26942165 TTGGACAGCATTTAAGCATAAAA
1 TTGGACAGCATTTAAGCA-AAAA
26942188 ATTTCATGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
21 4 0.11
22 1 0.03
23 27 0.75
24 1 0.03
25 3 0.08
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (22 bp):
TTGGACAGCATTTAAGCAAAAA
Found at i:26942190 original size:93 final size:93
Alignment explanation
Indices: 26941746--26942178 Score: 713
Period size: 93 Copynumber: 4.6 Consensus size: 93
26941736 ATACACAAAA
* * * *
26941746 TTGGACAGCATTTATACACCAAAATTTGACAGCATGTATATACAAAATTGGACAACATTTATTAA
1 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCA
* * *
26941811 CCAAAATTAGGCAGCATATATATACTAAT
65 CCAAAATTGGGCAGCATACATATACCAAT
* * * *
26941840 TTGGACAGCACTTATATACAAAATTTAACAGCATGTATAAGCAAAATTGGACAACATTTATTCAC
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
*
26941905 CAAAACTGGGCAGCATACATATACCAAT
66 CAAAATTGGGCAGCATACATATACCAAT
26941933 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
* *
26941998 CAAAATTGTGCAGCATACATACACCAAT
66 CAAAATTGGGCAGCATACATATACCAAT
* *
26942026 TTGGACAGCACTTATACACAAAATTTGACAGCACGTATATGCAAAATTGGACAGCATCTATTCAC
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
26942091 CAAAATTGGGCAGCATACATATACCAAT
66 CAAAATTGGGCAGCATACATATACCAAT
26942119 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTA
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTA
26942179 AGCATAAAAA
Statistics
Matches: 316, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
93 300 0.95
94 16 0.05
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (93 bp):
TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
CAAAATTGGGCAGCATACATATACCAAT
Found at i:26944063 original size:27 final size:26
Alignment explanation
Indices: 26944046--26944115 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
26944036 ATATTAAGTC
*
26944046 CGCACACTCAGTGTTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
26944073 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
26944101 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26944116 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:26944109 original size:28 final size:28
Alignment explanation
Indices: 26944046--26944143 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
26944036 ATATTAAGTC
* *
26944046 CGCACACTCAGTGTTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26944073 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26944101 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26944130 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26944144 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26944605 original size:12 final size:12
Alignment explanation
Indices: 26944588--26944613 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26944578 TGGGCATACT
26944588 TATGTATATATA
1 TATGTATATATA
26944600 TATGTATATATA
1 TATGTATATATA
26944612 TA
1 TA
26944614 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:26951954 original size:27 final size:26
Alignment explanation
Indices: 26951937--26952006 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
26951927 ATATTAAGTC
26951937 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
26951964 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
26951992 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26952007 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:26952000 original size:28 final size:28
Alignment explanation
Indices: 26951937--26952034 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
26951927 ATATTAAGTC
*
26951937 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26951964 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26951992 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26952021 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26952035 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26953991 original size:28 final size:28
Alignment explanation
Indices: 26953956--26954081 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
26953946 TTTAATAAGT
* * *
26953956 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
* * *
26953984 TCACACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
*
26954012 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
* *
26954040 TCGCACACCTAGTGCT-TCACAATTAAAT
1 TCGCACACTTAGTGCTCT-ACAATTAAAC
26954068 TCGCACACTTAGTG
1 TCGCACACTTAGTG
26954082 TCGAAAGTCA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 1 0.01
28 85 0.99
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCTACAATTAAAC
Found at i:26954021 original size:56 final size:56
Alignment explanation
Indices: 26953956--26954081 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 56
26953946 TTTAATAAGT
* * * *
26953956 TCGCACACTTAGTGCTCAATAATCAAACTCACACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTCAACAATCAAACTCACACACCTAGTGCTTCACAATTAAAC
** * * *
26954012 TCGCACACTTAGTGCTTTACAATTAAACTCGCACACCTAGTGCTTCACAATTAAAT
1 TCGCACACTTAGTGCTCAACAATCAAACTCACACACCTAGTGCTTCACAATTAAAC
26954068 TCGCACACTTAGTG
1 TCGCACACTTAGTG
26954082 TCGAAAGTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (56 bp):
TCGCACACTTAGTGCTCAACAATCAAACTCACACACCTAGTGCTTCACAATTAAAC
Found at i:26960385 original size:27 final size:26
Alignment explanation
Indices: 26960345--26960426 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
26960335 GGACAGCTCT
26960345 TATACATCAGAAATTGAGCAGCATATATA
1 TATACA-CA-AAATTGAGCAGCAT-TATA
26960374 TATACACAAAATTG-GACAGCATT-TA
1 TATACACAAAATTGAG-CAGCATTATA
*
26960399 TACAC-CAAAATTTGA-CAGCATGTATA
1 TATACACAAAA-TTGAGCAGCAT-TATA
26960425 TA
1 TA
26960427 CAAAATTGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
24 11 0.23
25 10 0.21
26 6 0.13
27 12 0.26
28 2 0.04
29 6 0.13
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (26 bp):
TATACACAAAATTGAGCAGCATTATA
Found at i:26960444 original size:47 final size:47
Alignment explanation
Indices: 26960374--26960771 Score: 403
Period size: 47 Copynumber: 8.5 Consensus size: 47
26960364 AGCATATATA
*
26960374 TATACACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
26960421 TATATACAAAATTGGACAACATTTATTA-ACCAAAATTAGGCAGCATA
1 TATATACAAAATTGGACAGCATTTA-TACACCAAAATTTGACAGCATG
* * * * * * *
26960468 TATATACTAATTTGGACAACACTTATATA-CAAAACTTAACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * * * *
26960514 TATA-AGCAAAATTGGACAACATTTATTCACCAAAACTGGGCAGCATA
1 TATATA-CAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * * *
26960561 CATATACCAATTTTGACAGCACTTATACA-CAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* *
26960607 TATATGCAAAATTGGACAGCATTTATTCACCAAAATTGTG-CAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATT-TGACAGCATG
* * * * * *
26960654 TATATGCAAAATTGGACAGCATCTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
26960701 CATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
*
26960747 TATATGCAAAATTGGACAGCATTTA
1 TATATACAAAATTGGACAGCATTTA
26960772 AGCATAAAAA
Statistics
Matches: 285, Mismatches: 58, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
45 1 0.00
46 106 0.37
47 173 0.61
48 5 0.02
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (47 bp):
TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
Found at i:26960524 original size:93 final size:92
Alignment explanation
Indices: 26960371--26960767 Score: 397
Period size: 93 Copynumber: 4.3 Consensus size: 92
26960361 AGCAGCATAT
* * *
26960371 ATATATACACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATGTATATA-CAAAATTG
1 ATATATATACAAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATA-AGCAAAATTG
*
26960435 GACAACATTTATTAACCAAAATTAGGCAGC
64 GACAACATTTATTCACCAAAATT-GGCAGC
* * * * *
26960465 ATATATATACTAATTTGGACAACACTTATATACAAAACTTAACAGCATGTATAAGCAAAATTGGA
1 ATATATATACAAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATAAGCAAAATTGGA
*
26960530 CAACATTTATTCACCAAAACTGGGCAGC
66 CAACATTTATTCACCAAAA-TTGGCAGC
* * * *
26960558 ATACATATACCAATTTTGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGA
1 ATATATATACAAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATAAGCAAAATTGGA
*
26960623 CAGCATTTATTCACCAAAATTGTGCAGC
66 CAACATTTATTCACCAAAATTG-GCAGC
* * * * * * ** * *
26960651 ATGTATATGCAAAATTGGACAGCA-TCTATTCACCAAAATTGGGCAGCATACATATA-CCAATTT
1 ATATATATACAAATTTGGACAGCACT-TATACA-CAAAATTTGACAGCATGTATA-AGCAAAATT
* * * *
26960714 GGACAGCACTTATACA-CAAAATTTGACAGC
63 GGACAACATTTATTCACCAAAA-TTGGCAGC
* * *
26960744 ATGTATATGCAAAATTGGACAGCA
1 ATATATATACAAATTTGGACAGCA
26960768 TTTAAGCATA
Statistics
Matches: 259, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
92 4 0.02
93 189 0.73
94 66 0.25
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (92 bp):
ATATATATACAAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATAAGCAAAATTGGA
CAACATTTATTCACCAAAATTGGCAGC
Found at i:26960641 original size:140 final size:139
Alignment explanation
Indices: 26960380--26960771 Score: 502
Period size: 140 Copynumber: 2.8 Consensus size: 139
26960370 TATATATACA
* * * ** * * * *
26960380 CAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATGTATATACAAAATTGGACAACATTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
* * * * * * * *
26960445 ATTA-ACCAAAATTAGGCAGCATATATATACTAATTTGGACAACACTTATATACAAAACTT-AAC
66 A-TACA-CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATATACAAAA-TTGAAC
26960508 AGCATGTATAAG
128 AGCATGTATAAG
* * *
26960520 CAAAATTGGACAACATTTATTCACCAAAACTGGGCAGCATACATATACCAATTTTGACAGCACTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
**
26960585 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTAT-TCACCAAAATTGTGCA
66 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATAT-A-CAAAATTGAACA
*
26960649 GCATGTATATG
129 GCATGTATAAG
*
26960660 CAAAATTGGACAGCATCTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
26960725 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTA
66 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTA
26960772 AGCATAAAAA
Statistics
Matches: 221, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
138 1 0.00
139 40 0.18
140 180 0.81
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (139 bp):
CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATATACAAAATTGAACAGC
ATGTATAAG
Found at i:26960780 original size:23 final size:22
Alignment explanation
Indices: 26960712--26960780 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
26960702 ATATACCAAT
*
26960712 TTGGACAGCACTTATA-CACAAAA
1 TTGGACAGCATTTA-AGCA-AAAA
* *
26960735 TTTGACAGCATGTATATGC-AAAA
1 TTGGACAGCAT-T-TAAGCAAAAA
26960758 TTGGACAGCATTTAAGCATAAAA
1 TTGGACAGCATTTAAGCA-AAAA
26960781 ATTTCATGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
21 4 0.11
22 1 0.03
23 27 0.75
24 1 0.03
25 3 0.08
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (22 bp):
TTGGACAGCATTTAAGCAAAAA
Found at i:26961530 original size:28 final size:28
Alignment explanation
Indices: 26961495--26961648 Score: 236
Period size: 28 Copynumber: 5.5 Consensus size: 28
26961485 TTTAATAAGT
** * *
26961495 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
26961523 TCACACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
26961551 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
26961579 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
26961607 TCGCACACTTAGTGCTTCACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
26961635 TCGCACACTTAGTG
1 TCGCACACTTAGTG
26961649 TTGAAAGTCA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 116 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:26962217 original size:11 final size:11
Alignment explanation
Indices: 26962197--26962229 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26962187 TTTCATTTTT
26962197 TATC-AACAAC
1 TATCAAACAAC
26962207 TATCAAACAAC
1 TATCAAACAAC
*
26962218 TATCAAAAAAC
1 TATCAAACAAC
26962229 T
1 T
26962230 CAAGCACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (11 bp):
TATCAAACAAC
Found at i:26963756 original size:13 final size:12
Alignment explanation
Indices: 26963740--26963810 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 12
26963730 AAGTCTAAGA
26963740 AAAAATAGAAAAT
1 AAAAATA-AAAAT
26963753 AAAAATAAAACAACT
1 AAAAAT-AAA-AA-T
*
26963768 AAAAACAAAACAT
1 AAAAATAAAA-AT
26963781 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
* *
26963794 AAAACTAAAAAG
1 AAAAATAAAAAT
26963806 AAAAA
1 AAAAA
26963811 CAAATAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 9 0.19
13 22 0.46
14 11 0.23
15 6 0.12
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.11
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:26963762 original size:5 final size:6
Alignment explanation
Indices: 26963740--26963810 Score: 61
Period size: 6 Copynumber: 10.8 Consensus size: 6
26963730 AAGTCTAAGA
*
26963740 AAAAAT AGAAAAT AAAAAT AAAACAACT AAAAAC AAAACAT AAAAAT AAAAAAT
1 AAAAAT A-AAAAT AAAAAT -AAA-AA-T AAAAAT AAAA-AT AAAAAT -AAAAAT
* *
26963794 AAAACT AAAAAG AAAAA
1 AAAAAT AAAAAT AAAAA
26963811 CAAATAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 26 0.48
7 22 0.41
8 5 0.09
9 1 0.02
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:26963837 original size:12 final size:12
Alignment explanation
Indices: 26963822--26963848 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26963812 AAATAAAATC
26963822 AATGATAATAAT
1 AATGATAATAAT
26963834 AATGATAATAAT
1 AATGATAATAAT
26963846 AAT
1 AAT
26963849 AACAACATTA
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:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AATGATAATAAT
Found at i:26964003 original size:16 final size:17
Alignment explanation
Indices: 26963984--26964017 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26963974 CACTAAAAGT
*
26963984 AAATAAA-GGAATAATA
1 AAATAAATGAAATAATA
26964000 AAATAAATGAAATAATA
1 AAATAAATGAAATAATA
26964017 A
1 A
26964018 TAAGAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
AAATAAATGAAATAATA
Found at i:26964070 original size:18 final size:17
Alignment explanation
Indices: 26964047--26964080 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26964037 AATAAAAATA
26964047 AATAATACAACAAATAAT
1 AATAATA-AACAAATAAT
*
26964065 AATAATAAATAAATAA
1 AATAATAAACAAATAA
26964081 ATAGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAATAAACAAATAAT
Found at i:26975838 original size:15 final size:16
Alignment explanation
Indices: 26975802--26975844 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
26975792 ATCTATATAA
*
26975802 TCAAATTTAAGT-TAT
1 TCAAATTTAATTCTAT
*
26975817 TCAAATTTCATTCTAT
1 TCAAATTTAATTCTAT
26975833 TC-AATTTAATTC
1 TCAAATTTAATTC
26975845 AACAATCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (16 bp):
TCAAATTTAATTCTAT
Found at i:26988399 original size:159 final size:159
Alignment explanation
Indices: 26988110--26988434 Score: 605
Period size: 159 Copynumber: 2.0 Consensus size: 159
26988100 TAGAGAAAGT
*
26988110 GAGACCTACAACTATCACATTGCAATTAGCTAATCATTCATATGCACCTCCAGAAGGTAAAATAG
1 GAGACCTACAACTATCACATTGCAATTAGCTAATCATTCATATGCACATCCAGAAGGTAAAATAG
*
26988175 AAGATGTGTTGGTAAGGGTTGACAAATTTATTTTTCCAGCAGCTTTTATTATTTTGGAATGTGAG
66 AAGATGTGTTGGTAAGAGTTGACAAATTTATTTTTCCAGCAGCTTTTATTATTTTGGAATGTGAG
*
26988240 GTTGATAAAGAGGTACCAATCATACTTGG
131 GTTGATAAAAAGGTACCAATCATACTTGG
*
26988269 GAGACCTACAACTATCACATTGCAATTAGCTAATCATTCGTATGCACATCCAGAAGGTAAAATAG
1 GAGACCTACAACTATCACATTGCAATTAGCTAATCATTCATATGCACATCCAGAAGGTAAAATAG
*
26988334 AAGATGTGTTGGTAAGAGTTGACAAATTTATTTTTCTAGCAGCTTTTATTATTTTGGAATGTGAG
66 AAGATGTGTTGGTAAGAGTTGACAAATTTATTTTTCCAGCAGCTTTTATTATTTTGGAATGTGAG
26988399 GTTGATAAAAAGGTACCAATCATACTTGG
131 GTTGATAAAAAGGTACCAATCATACTTGG
26988428 GAGACCT
1 GAGACCT
26988435 TTCCTAGCAA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 161 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (159 bp):
GAGACCTACAACTATCACATTGCAATTAGCTAATCATTCATATGCACATCCAGAAGGTAAAATAG
AAGATGTGTTGGTAAGAGTTGACAAATTTATTTTTCCAGCAGCTTTTATTATTTTGGAATGTGAG
GTTGATAAAAAGGTACCAATCATACTTGG
Found at i:26998469 original size:930 final size:933
Alignment explanation
Indices: 26996646--26998513 Score: 2987
Period size: 930 Copynumber: 2.0 Consensus size: 933
26996636 TGCCTTGAGA
26996646 TTTTCAAGTGAAGAAATGCCACGACATCTAGGCTCTACATCCACAGCTTCGCCACCTATGACTTC
1 TTTTCAAGTGAAGAAATGCCACGACATCTAGGCTCTACATCCACAGCTTCGCCACCTATGACTTC
* * *
26996711 TGATGTTGCCCCATCAGCATCTCACAATGACTTTGAGCAGAAAGTGATTAATGCTCTTAAAATGT
66 TAATGTTGCCCCATCAACATCTCACAATGACTTTAAGCAGAAAGTGATTAATGCTCTTAAAATGT
* * * *
26996776 TGCAACAGCAAGTTCAAATGATGGAAAAACTATCATTGAGGATAGTAACTAATCTTGGTTGAGCT
131 TGCAACAACAAGTTCAAATGATGGAAAAACTATCACTGAGGATAATAACTAATCTTGGTCGAGCT
* *
26996841 CTAGAAGAAATGGCTATATTTTGGGGATATGTTAGATGACAGGACAAAGCCATTAAGAAATCTTT
196 CTAGAAGAAATGGCTATACTTTGGGGATATGTTAGATGACAGGACAAAGCCATTAAGAAAGCTTT
* * * * *
26996906 TGAAGAAAACTTTTCCTGACCTAAGCCTGCAATCCATGTTCTTCCTAAAGAATTGTTGTTGAAGC
261 TCAAGAAAACTTTTCCTGACCTAAGCCTACAATCCATATTCTTCCTAAAGAATTGCTATTGAAGC
* * *
26996971 TAGAACATGATGATGAAGATGGAAAAGAAGCCATTGCAGATACAAAAAACACAAAAGAAGAGGGA
326 TAGAACA-GATGATGAAGATGGAAAAGAAGCCACTACAGAGACAAAAAACACAAAAGAAGAGGGA
* * * *
26997036 GAATAGGAGAAAATGAAATTCATGCATGTTGAATCTGATAAGGATGAAGCTGATATGACCCAAAC
390 GAAGAAGAGAAAATAAAATTCATGCATGTTGAATCTGATAAGGATGAAGCTAATATGACCCAAAC
*
26997101 TTTTACACTTGCCACTAAACCAAAATCCACTACACCTAGGACCGAGCAAGAGCGTGCGGTTCGTC
455 TTTTACACCTGCCACTAAACCAAAATCCACTACACCTAGGACCGAGCAAGAGCGTGCGGTTCGTC
* * * * * *
26997166 AATTGATTGATGATCTTACAAAATCAAATATTGACGATGAATAAGAGATGCTAATTAACGAGCTA
520 AACTGATTGATGATATTACAAAATCAAATACTGACGATGAAGAAGAGAGGCCAATTAACGAGCTA
* * * * * *
26997231 AAAAGGAAACTCTACAAGTAAGCTGCTGGGAAATCAATTCTAGATGATGCTGGTGAAGTGTAAAG
585 AAAAGGAAACACTACAAGCAAGCTACTAGGAAATAAATTCTAGATGATGCTGGTGAAATGTAAAG
* * * *
26997296 GAAGCAGTGCTACAAACGCGTTGCTAGAAAATGAACCCAACCCAATTAGAGTAACCCAAATTCCT
650 GAAGCAATGCTACAAACGCGTTGCCAAAAAATGAACCCAACCCAATTAGAGTAACCCAAACTCCT
* *
26997361 TCCAAGCTTTTGTTTTATTTTCATTTGAATTTTTTTCATTTTATAACATATGTTTCATGCATTCA
715 TCCAAGCTTTTATTTTAGTTTCATTTGAATTTTTTTCATTTTATAACATATGTTTCATGCATTCA
**
26997426 TATTTGGATGTCATTACATTTTTATATTTGTAAGTTGTTTTTGCATTTTGTAATATTTCATTGTT
780 TATTTGGATGTCATTACATTTTTATATTTGTAAGTTGTTTTTGCATTTTGTAATATCCCATTGTT
* ** *
26997491 CATGCATTGAGGACAATGCATCTCTTAGGTTTGGGGTTTGTAGTGCTGTAAATATTTTATGCAGT
845 CATGCATTGAGGACAATGCATCTCTTAGGTTTGGGGTGTGTAGTGCTGTAAATATAGTATGCAAT
26997556 AGATATATGTTTTAATATTCATGT
910 AGATATATGTTTTAATATTCATGT
* *
26997580 TTTTCAGGTGAAGAAATGCCACGACATCTAGGCTCTACATCCACAGCTTCGCCACCTATGACTTT
1 TTTTCAAGTGAAGAAATGCCACGACATCTAGGCTCTACATCCACAGCTTCGCCACCTATGACTTC
* *
26997645 TAATGTTGCCCCATCAACATCTCACAATGACTTTAAGCATAAAGTGATTAATGCTCTTAAGATGT
66 TAATGTTGCCCCATCAACATCTCACAATGACTTTAAGCAGAAAGTGATTAATGCTCTTAAAATGT
*
26997710 TGCAACAACAAGTTCAAATGATGGAAAAACTA-CAACTGATGATAATAACTAATCTTGGTCGAGC
131 TGCAACAACAAGTTCAAATGATGGAAAAACTATC-ACTGAGGATAATAACTAATCTTGGTCGAGC
26997774 TCTAGAAGAAATGGCTATACTTTGGGGATATGTTAGATGACAGGACAAAGCCATTAAGAAAGCTT
195 TCTAGAAGAAATGGCTATACTTTGGGGATATGTTAGATGACAGGACAAAGCCATTAAGAAAGCTT
* * * * * *
26997839 TTCAA-AAGAACTTTTCCTGAGCTAAGTCTACATTCCCTATTTTTCCTAAAGAATTGCTATTGGA
260 TTCAAGAA-AACTTTTCCTGACCTAAGCCTACAATCCATATTCTTCCTAAAGAATTGCTATTGAA
* * *
26997903 GCTAG-AC-GATGATGAAGATGGAAAGGAAGCCACTATAGAGACAAAAAACATAGAAA-AAGAGG
324 GCTAGAACAGATGATGAAGATGGAAAAGAAGCCACTACAGAGACAAAAAACACA-AAAGAAGAGG
26997965 GAGAAGAAGAGAAAA-AAAATTCATGCATGTTGAATCTGATAAGGATGAAGCTAATATGACCCAA
388 GAGAAGAAGAGAAAATAAAATTCATGCATGTTGAATCTGATAAGGATGAAGCTAATATGACCCAA
* * * *
26998029 ACTTTTACACCTGGCACTACACCAAAATCCACTACACCTATGACCGAGCAAGAGCGTGCGGTTTG
453 ACTTTTACACCTGCCACTAAACCAAAATCCACTACACCTAGGACCGAGCAAGAGCGTGCGGTTCG
*
26998094 TCAACTGATTGATGATATTACAAAATCAAATACTGACGATGAAGAAGAGAGGCCAATTAATGAGC
518 TCAACTGATTGATGATATTACAAAATCAAATACTGACGATGAAGAAGAGAGGCCAATTAACGAGC
* *
26998159 TAAAAAGGACACACTACAAGCAAGCTACTAGGATATAAATTCTAGATGATGCTGGTGAAATGTAA
583 TAAAAAGGAAACACTACAAGCAAGCTACTAGGAAATAAATTCTAGATGATGCTGGTGAAATGTAA
*
26998224 AGGAAGCAAT-CATACAAACGCGTTGCCAAAAAATGAACCCAACCCAATTAGAGTAACTCAAACT
648 AGGAAGCAATGC-TACAAACGCGTTGCCAAAAAATGAACCCAACCCAATTAGAGTAACCCAAACT
26998288 CCTTCCAAGCTTTTATTTTAGTTTCATTTGAATTTTTTTCATTTTATAACATATGTTTCATGCAT
712 CCTTCCAAGCTTTTATTTTAGTTTCATTTGAATTTTTTTCATTTTATAACATATGTTTCATGCAT
*
26998353 TCATATTTGGATGTCATTACATTTTTATATTTGTAAGTTGTTTTTGCATTTTG-AATGTCCCATT
777 TCATATTTGGATGTCATTACATTTTTATATTTGTAAGTTGTTTTTGCATTTTGTAATATCCCATT
* *
26998417 GTTCATGTATTGAGGACAATGCATCTCTTAGGTTTAGGGGTGTGTTGTGCTGTAAATATAGTATG
842 GTTCATGCATTGAGGACAATGCATCTCTTAGGTTT-GGGGTGTGTAGTGCTGTAAATATAGTATG
26998482 CAATAGATATATGTTTTAATATTCATGT
906 CAATAGATATATGTTTTAATATTCATGT
26998510 TTTT
1 TTTT
26998514 TGTCAGTCAT
Statistics
Matches: 858, Mismatches: 71, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
929 43 0.05
930 451 0.53
931 58 0.07
932 3 0.00
933 5 0.01
934 298 0.35
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (933 bp):
TTTTCAAGTGAAGAAATGCCACGACATCTAGGCTCTACATCCACAGCTTCGCCACCTATGACTTC
TAATGTTGCCCCATCAACATCTCACAATGACTTTAAGCAGAAAGTGATTAATGCTCTTAAAATGT
TGCAACAACAAGTTCAAATGATGGAAAAACTATCACTGAGGATAATAACTAATCTTGGTCGAGCT
CTAGAAGAAATGGCTATACTTTGGGGATATGTTAGATGACAGGACAAAGCCATTAAGAAAGCTTT
TCAAGAAAACTTTTCCTGACCTAAGCCTACAATCCATATTCTTCCTAAAGAATTGCTATTGAAGC
TAGAACAGATGATGAAGATGGAAAAGAAGCCACTACAGAGACAAAAAACACAAAAGAAGAGGGAG
AAGAAGAGAAAATAAAATTCATGCATGTTGAATCTGATAAGGATGAAGCTAATATGACCCAAACT
TTTACACCTGCCACTAAACCAAAATCCACTACACCTAGGACCGAGCAAGAGCGTGCGGTTCGTCA
ACTGATTGATGATATTACAAAATCAAATACTGACGATGAAGAAGAGAGGCCAATTAACGAGCTAA
AAAGGAAACACTACAAGCAAGCTACTAGGAAATAAATTCTAGATGATGCTGGTGAAATGTAAAGG
AAGCAATGCTACAAACGCGTTGCCAAAAAATGAACCCAACCCAATTAGAGTAACCCAAACTCCTT
CCAAGCTTTTATTTTAGTTTCATTTGAATTTTTTTCATTTTATAACATATGTTTCATGCATTCAT
ATTTGGATGTCATTACATTTTTATATTTGTAAGTTGTTTTTGCATTTTGTAATATCCCATTGTTC
ATGCATTGAGGACAATGCATCTCTTAGGTTTGGGGTGTGTAGTGCTGTAAATATAGTATGCAATA
GATATATGTTTTAATATTCATGT
Done.