Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 12 of 18
Found at i:1532093 original size:33 final size:32
Alignment explanation
Indices: 1532056--1532174 Score: 109
Period size: 33 Copynumber: 3.7 Consensus size: 32
1532046 ACATAAATCA
1532056 AAAAAATCAAAATGA-TCAAAAATAAAAAAAATT
1 AAAAAATCAAAA-GAGTCAAAAATAAAAAAAA-T
** *
1532089 AAAAAATCAAAAGAGTCAAAAATCGAAATAAT
1 AAAAAATCAAAAGAGTCAAAAATAAAAAAAAT
* * * *
1532121 AAAAAATC-AAAGA-TAAAAAAATCATAATAAT
1 AAAAAATCAAAAGAGT-CAAAAATAAAAAAAAT
*
1532152 AAAAAATTCAAAAAAGTCAAAAA
1 AAAAAA-TCAAAAGAGTCAAAAA
1532175 ATTCAATGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.01
31 24 0.33
32 13 0.18
33 34 0.47
34 1 0.01
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.17
Consensus pattern (32 bp):
AAAAAATCAAAAGAGTCAAAAATAAAAAAAAT
Found at i:1532095 original size:8 final size:8
Alignment explanation
Indices: 1532050--1532277 Score: 98
Period size: 9 Copynumber: 27.5 Consensus size: 8
1532040 TATTCGACAT
1532050 AAATCAAAA
1 AAATC-AAA
1532059 AAATCAAA
1 AAATCAAA
*
1532067 ATGATC-AA
1 A-AATCAAA
*
1532075 AAATAAAAA
1 AAAT-CAAA
*
1532084 AAATTAAA
1 AAATCAAA
1532092 AAATCAAA
1 AAATCAAA
*
1532100 AGAGTC-AA
1 A-AATCAAA
1532108 AAATCGAAA
1 AAATC-AAA
*
1532117 TAAT-AAA
1 AAATCAAA
1532124 AAATC-AA
1 AAATCAAA
* *
1532131 AGATAAAA
1 AAATCAAA
1532139 AAATCATAA
1 AAATCA-AA
*
1532148 TAAT-AAA
1 AAATCAAA
1532155 AAATTCAAA
1 AAA-TCAAA
1532164 AAAGTCAAA
1 AAA-TCAAA
*
1532173 AAATTCAAT
1 AAA-TCAAA
*
1532182 GAATCCAAA
1 AAAT-CAAA
**
1532191 AAATGGAA
1 AAATCAAA
1532199 AAATCAAAA
1 AAATC-AAA
*
1532208 AAAT-AATC
1 AAATCAA-A
1532216 AAATC-AA
1 AAATCAAA
1532223 AAATCTAAAA
1 AAATC--AAA
1532233 TCAAAT-AAA
1 --AAATCAAA
1532242 AAAT-AATA
1 AAATCAA-A
*
1532250 TAATCAAAA
1 AAATC-AAA
1532259 AAATC-AA
1 AAATCAAA
1532266 AAATCAAA
1 AAATCAAA
1532274 AAAT
1 AAAT
1532278 GATGAAAAAT
Statistics
Matches: 166, Mismatches: 29, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
7 40 0.24
8 51 0.31
9 67 0.40
10 4 0.02
12 4 0.02
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (8 bp):
AAATCAAA
Found at i:1532109 original size:17 final size:17
Alignment explanation
Indices: 1532051--1532209 Score: 86
Period size: 16 Copynumber: 9.6 Consensus size: 17
1532041 ATTCGACATA
1532051 AATCAAAAAAATCAAAATG
1 AATC-AAAAAATCAAAA-G
* *
1532070 -ATC-AAAAATAAAAAA
1 AATCAAAAAATCAAAAG
*
1532085 AATTAAAAAATCAAAAG
1 AATCAAAAAATCAAAAG
* * *
1532102 AGTC-AAAAATCGAAAT
1 AATCAAAAAATCAAAAG
1532118 AAT-AAAAAATC-AAAG
1 AATCAAAAAATCAAAAG
* * *
1532133 -ATAAAAAAATCATAAT
1 AATCAAAAAATCAAAAG
1532149 AAT-AAAAAATTCAAAA-
1 AATCAAAAAA-TCAAAAG
*
1532165 AAGTCAAAAAATTC-AATG
1 AA-TCAAAAAA-TCAAAAG
**
1532183 AATCCAAAAAATGGAAA-
1 AAT-CAAAAAATCAAAAG
1532200 AATCAAAAAA
1 AATCAAAAAA
1532210 ATAATCAAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.02
15 11 0.10
16 48 0.43
17 27 0.24
18 23 0.21
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.17
Consensus pattern (17 bp):
AATCAAAAAATCAAAAG
Found at i:1532157 original size:32 final size:31
Alignment explanation
Indices: 1532088--1532163 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 31
1532078 TAAAAAAAAT
*
1532088 TAAAAAATCAAAAGAGTCAAAAATCGAAATAA
1 TAAAAAATC-AAAGAGTAAAAAATCGAAATAA
1532120 TAAAAAATCAAAGA-TAAAAAAATC-ATAATAA
1 TAAAAAATCAAAGAGT-AAAAAATCGA-AATAA
1532151 TAAAAAATTCAAA
1 TAAAAAA-TCAAA
1532164 AAAGTCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 2 0.05
31 24 0.60
32 14 0.35
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (31 bp):
TAAAAAATCAAAGAGTAAAAAATCGAAATAA
Found at i:1532274 original size:6 final size:7
Alignment explanation
Indices: 1532057--1532275 Score: 65
Period size: 7 Copynumber: 28.7 Consensus size: 7
1532047 CATAAATCAA
1532057 AAAAATC
1 AAAAATC
1532064 AAAATGATC
1 AAAA--ATC
*
1532073 AAAAATAAA
1 AAAAAT--C
*
1532082 AAAAATTA
1 AAAAA-TC
1532090 AAAAATC
1 AAAAATC
1532097 AAAAGAGTC
1 AAAA-A-TC
1532106 AAAAATC
1 AAAAATC
*
1532113 GAAATAATA
1 -AAA-AATC
1532122 AAAAATC
1 AAAAATC
* *
1532129 AAAGATAA
1 AAAAAT-C
1532137 AAAAATC
1 AAAAATC
*
1532144 ATAATAATA
1 A-AA-AATC
1532153 AAAAATTC
1 AAAAA-TC
1532161 AAAAAAGTC
1 -AAAAA-TC
1532170 AAAAAATTC
1 -AAAAA-TC
*
1532179 AATGAATCC
1 AA-AAAT-C
*
1532188 AAAAAATGG
1 -AAAAAT-C
1532197 AAAAATC
1 AAAAATC
1532204 AAAAA--
1 AAAAATC
*
1532209 AATAATC
1 AAAAATC
1532216 --AAATC
1 AAAAATC
1532221 AAAAATC
1 AAAAATC
*
1532228 TAAAATC
1 AAAAATC
*
1532235 --AAATA
1 AAAAATC
1532240 AAAAAT-
1 AAAAATC
1532246 AATATAATC
1 AA-A-AATC
1532255 AAAAAAATC
1 --AAAAATC
1532264 AAAAATC
1 AAAAATC
1532271 AAAAA
1 AAAAA
1532276 ATGATGAAAA
Statistics
Matches: 163, Mismatches: 21, Indels: 56
0.68 0.09 0.23
Matches are distributed among these distances:
5 12 0.07
6 2 0.01
7 57 0.35
8 36 0.22
9 50 0.31
10 4 0.02
11 2 0.01
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (7 bp):
AAAAATC
Found at i:1533375 original size:15 final size:16
Alignment explanation
Indices: 1533348--1533377 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1533338 CAGCAAATTG
1533348 ACGTAAGGAAGAAAAA
1 ACGTAAGGAAGAAAAA
1533364 ACGTAA-GAAGAAAA
1 ACGTAAGGAAGAAAA
1533378 TGAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.07, G:0.23, T:0.07
Consensus pattern (16 bp):
ACGTAAGGAAGAAAAA
Found at i:1536469 original size:92 final size:91
Alignment explanation
Indices: 1536313--1536486 Score: 267
Period size: 92 Copynumber: 1.9 Consensus size: 91
1536303 CTCATTGTTA
* * * **
1536313 TAATTTTCCCCTTTAAGCGATCTCTCTCTTATTGATTTCAATTTAGTACAAATAAATATGAATAT
1 TAATTTTCCCCTTTAAACGATCTCCCCCTTATTGATTTCAATTTAGTACAAATAAATACAAATAT
*
1536378 TCTTCCCCTTAATGAAATAATTGCTT
66 TCTCCCCCTTAATGAAATAATTGCTT
* *
1536404 TAATTTTCCCCTTTTAAACGATCTCCCCCTTATTGATTTCAATTTAGTACCAATGAATACAAATA
1 TAATTTTCCCC-TTTAAACGATCTCCCCCTTATTGATTTCAATTTAGTACAAATAAATACAAATA
1536469 TTCTCCCCCTTAATGAAA
65 TTCTCCCCCTTAATGAAA
1536487 GATTCTCTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 11 0.15
92 63 0.85
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (91 bp):
TAATTTTCCCCTTTAAACGATCTCCCCCTTATTGATTTCAATTTAGTACAAATAAATACAAATAT
TCTCCCCCTTAATGAAATAATTGCTT
Found at i:1538380 original size:19 final size:19
Alignment explanation
Indices: 1538353--1538430 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
1538343 AGTCGAAATA
1538353 TATCGATACAATTTTAATG
1 TATCGATACAATTTTAATG
*
1538372 TATCAATAC-A--TT-A--
1 TATCGATACAATTTTAATG
1538385 TATCGATACAATTTTAATG
1 TATCGATACAATTTTAATG
*
1538404 TATCGATACAA-TTTATTTG
1 TATCGATACAATTTTA-ATG
1538423 TATCGATA
1 TATCGATA
1538431 GATCTAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.16
14 1 0.02
15 1 0.02
16 4 0.08
17 1 0.02
18 5 0.10
19 29 0.59
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (19 bp):
TATCGATACAATTTTAATG
Found at i:1538392 original size:32 final size:32
Alignment explanation
Indices: 1538351--1538413 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1538341 ATAGTCGAAA
1538351 TATATCGATACAATTTTAATGTATCAATACAT
1 TATATCGATACAATTTTAATGTATCAATACAT
*
1538383 TATATCGATACAATTTTAATGTATCGATACA
1 TATATCGATACAATTTTAATGTATCAATACA
1538414 ATTTATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (32 bp):
TATATCGATACAATTTTAATGTATCAATACAT
Found at i:1551572 original size:20 final size:20
Alignment explanation
Indices: 1551547--1551597 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1551537 GTTACAAGCT
*
1551547 ATGTATTGATACAATT-CATC
1 ATGTATTGATAC-ATTGCACC
* *
1551567 ATGTATCGATACATTGTACC
1 ATGTATTGATACATTGCACC
1551587 ATGTATTGATA
1 ATGTATTGATA
1551598 TAAACAGTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATTGATACATTGCACC
Found at i:1551673 original size:19 final size:20
Alignment explanation
Indices: 1551629--1551682 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1551619 CTGCCAATCT
**
1551629 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1551649 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
1551668 CATGTATCGATACAA
1 CATGTATCGATACAA
1551683 AAGCATAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1559225 original size:8 final size:7
Alignment explanation
Indices: 1559177--1559250 Score: 53
Period size: 7 Copynumber: 10.0 Consensus size: 7
1559167 TTTATACCCA
*
1559177 AAAAAAT
1 AAAAAAC
1559184 AAAAAAC
1 AAAAAAC
1559191 AAAAAA-
1 AAAAAAC
1559197 AAAGATTAA-
1 AAA-A--AAC
*
1559206 AAAAACAA
1 AAAAA-AC
1559214 AAAAAACC
1 AAAAAA-C
1559222 AAAAAAC
1 AAAAAAC
*
1559229 AAAAGAC
1 AAAAAAC
1559236 AAAAAAAC
1 -AAAAAAC
1559244 AAAAAAC
1 AAAAAAC
1559251 CAAGAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
6 4 0.07
7 29 0.52
8 18 0.32
9 5 0.09
ACGTcount: A:0.82, C:0.11, G:0.03, T:0.04
Consensus pattern (7 bp):
AAAAAAC
Found at i:1559240 original size:30 final size:29
Alignment explanation
Indices: 1559175--1559275 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 29
1559165 CCTTTATACC
*
1559175 CAAAAAAATAAAAAA-CAA-AAAAAAAGATTA
1 CAAAAAAA-AAAAAACCAAGAAAAAAA-A-GA
*
1559205 AAAAAACAAAAAAAACCAA-AAAACAAAAGA
1 CAAAAA-AAAAAAAACCAAGAAAA-AAAAGA
* *
1559235 CAAAAAAACAAAAAACCAAGAAAAAATAGC
1 CAAAAAAA-AAAAAACCAAGAAAAAAAAGA
1559265 CAAAAAAAAAA
1 CAAAAAAAAAA
1559276 CAGAAAGGGG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
29 5 0.08
30 39 0.64
31 14 0.23
32 3 0.05
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.04
Consensus pattern (29 bp):
CAAAAAAAAAAAAACCAAGAAAAAAAAGA
Found at i:1559259 original size:32 final size:31
Alignment explanation
Indices: 1559175--1559260 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
1559165 CCTTTATACC
*
1559175 CAAAAAAA-TAAAAAA-C-AAAAAAAAAGAT
1 CAAAAAAACAAAAAAACCAAAAAAAAAAGAT
*
1559203 TAAAAAAACAAAAAAAACCAAAAAACAAAAGA-
1 CAAAAAAAC-AAAAAAACCAAAAAA-AAAAGAT
*
1559235 CAAAAAAAC-AAAAAACCAAGAAAAAA
1 CAAAAAAACAAAAAAACCAAAAAAAAA
1559261 TAGCCAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
28 7 0.14
29 3 0.06
30 19 0.39
31 1 0.02
32 13 0.27
33 6 0.12
ACGTcount: A:0.81, C:0.12, G:0.03, T:0.03
Consensus pattern (31 bp):
CAAAAAAACAAAAAAACCAAAAAAAAAAGAT
Found at i:1559275 original size:15 final size:14
Alignment explanation
Indices: 1559212--1559275 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
1559202 TTAAAAAAAC
1559212 AAAAAAAA-CCAAA
1 AAAAAAAAGCCAAA
* *
1559225 AAACAAAAGACAAAA
1 AAAAAAAAG-CCAAA
* *
1559240 AAACAAAAAACCAAG
1 AAA-AAAAAGCCAAA
*
1559255 AAAAAATAGCCAAA
1 AAAAAAAAGCCAAA
1559269 AAAAAAA
1 AAAAAAA
1559276 CAGAAAGGGG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 7 0.18
14 14 0.37
15 13 0.34
16 4 0.11
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGCCAAA
Found at i:1560530 original size:28 final size:29
Alignment explanation
Indices: 1560490--1561297 Score: 669
Period size: 28 Copynumber: 27.7 Consensus size: 29
1560480 CTAGAATGTC
*
1560490 CATCTC-TTCAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
1560518 CATCTC-TTCAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
1560546 CATCT-TTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1560574 CATC-ATTTCAAAGCCCACACAAGTCGGTGG
1 CATCTCTTTCAAAG-CC-CACAAGTCAGTGG
* *
1560604 CAACTCATTTGAAAGGCCACACAAGTCAGTGG
1 CATCTC-TTTCAAA-GCC-CACAAGTCAGTGG
*
1560636 CAT-TATTTCAAAGCCCACACAAGTC-GATGG
1 CATCTCTTTCAAAG-CC-CACAAGTCAG-TGG
* **
1560666 CAACTCATTTCAAAGCCCACACAAGTTGGTGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAGTGG
* * * **
1560698 TAACCCATTTCAAAGCCCACACAAGTTGGTGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAGTGG
* * *
1560730 CAACACATTTCAAAGCCCACATAAG-CTGGTGG
1 CATCTC-TTTCAAAGCCCAC--AAGTC-AGTGG
* * *
1560762 CAACACATTTCAAAGCCCACACAAGTCAATGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAGTGG
* *
1560794 CA-CCCTTTCAAAGACCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* **
1560822 CA-CCCTTTCAAAGCCCATGAGTC-GATGG
1 CATCTCTTTCAAAGCCCACAAGTCAG-TGG
* *
1560850 CAACTCTTTTCAAAGCCCACAAGTTAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
1560880 CATCT-TTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * * *
1560908 GA-CCCTTTGAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
1560936 CA-CCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1560964 CA-CTCTTTTCGAAGCCCATAAGTCAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
* *
1560993 CATC-CTTTCAAAGCCCACAAGTAAGAGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
1561021 CA-C-CTTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1561048 CA-CCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1561076 CA-CTCTTTTCCAAGCCCACAAGTTAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
* *
1561105 CATC-CTTTCAAAGCTCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* **
1561133 CA-CCCTTTCAAAATCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1561161 CA-CCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
1561189 CA-CCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
1561217 CA-CTCCTTTCAAAGCCCACAAG-CAGTGG
1 CATCT-CTTTCAAAGCCCACAAGTCAGTGG
* * *
1561245 TAACTCTTTTCAAAGCCCACACGAGTCAGTGA
1 CATCTC-TTTCAAAGCCCACA--AGTCAGTGG
1561277 CGA-CTCTTGTCAAAGCCCACA
1 C-ATCTCTT-TCAAAGCCCACA
1561298 CAAGTTAATG
Statistics
Matches: 678, Mismatches: 65, Indels: 70
0.83 0.08 0.09
Matches are distributed among these distances:
27 29 0.04
28 329 0.49
29 89 0.13
30 72 0.11
31 11 0.02
32 139 0.21
33 6 0.01
34 3 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (29 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGG
Found at i:1560731 original size:64 final size:63
Alignment explanation
Indices: 1560577--1560898 Score: 292
Period size: 64 Copynumber: 5.3 Consensus size: 63
1560567 TCAGTGGCAT
* * **
1560577 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGGCCACACAAGTCAGTGG--CA
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGAACA
* * *
1560638 TTATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGTAACC
1 -CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGG-AACA
* * * *
1560703 CATTTCAAAGCCCACACAAGTTGGTGGCAACACATTTCAAAGCCCACATAAGCTGGTGGCAACA
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGG-AACA
** * * ** *
1560767 CATTTCAAAGCCCACACAAGTCAATGGC-AC-CCTTTCAAAG-AC-CACAAGTCAGTGGCAC-
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGAACA
* ** * * *
1560825 CCTTTCAAAG-CC-CATGAGTCGATGGCAACTCTTTTCAAAG-CC-CACAAGTTAGTGG--CA
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGAACA
*
1560882 TCTTTTCAAAGCCCACA
1 -CATTTCAAAGCCCACA
1560899 AGTCAGTGGG
Statistics
Matches: 218, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
56 12 0.06
57 4 0.02
58 40 0.18
59 4 0.02
60 11 0.05
61 1 0.00
62 62 0.28
63 2 0.01
64 81 0.37
65 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (63 bp):
CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGAACA
Found at i:1561075 original size:112 final size:114
Alignment explanation
Indices: 1560496--1561297 Score: 780
Period size: 112 Copynumber: 6.9 Consensus size: 114
1560486 TGTCCATCTC
* * * * *
1560496 TTCAAAGCCCATAAGTCAGTGGCAT-CTCTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGC
* * * *
1560560 CCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCAT
65 CCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAACTCTT
* ** * *
1560612 TTGAAAGGCCACACAAGTCAGTGGCATTATTTCAAAGCCCACACAAGT-CGATGGCAACTCATTT
1 TTCAAA-GCC-CACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTAAG-TGGC-AC-CCTTT
** * ** * *
1560676 CAAAGCCCACACAAGTTGGTGGTAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACACAT
59 CAAAG-CC-CACAAGTCAGTGG-CACCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACTCTT
* *
1560738 TTCAAAGCCCACATAAG-CTGGTGGCAACACATTTCAAAGCCCACACAAGTCAA-TGGCACCCTT
1 TTCAAAGCCCAC--AAGTC-AGTGGCATC-C-TTTCAAAG-CC-CACAAGT-AAGTGGCACCCTT
* **
1560801 TCAAAGACCACAAGTCAGTGGCACCCTTTCAAAGCCCATGAGTC-GATGGCAACTCTT
58 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAG-TGGCAACTCTT
* * * * *
1560858 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGGACCCTTTGAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCC
*
1560923 CATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
66 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * *
1560971 TTCGAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGAGGCA-CCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCC
* *
1561035 CACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC-ACTCTT
66 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * **
1561083 TTCCAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTTAGTGGCACCCTTTCAAAATC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCC
* *
1561148 CACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGC-AC-CCT
66 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * *
1561195 TTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAG-CAGTGGTAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTAAGTGG-CAC-CCTTTCAAA
* *
1561259 GCCCACACGAGTCAGTGACGACTCTTGTCAAAGCCCACA
63 GCCCACA--AGTCAGTGGC-ACCCTT-TCAAAGCCCACA
1561298 CAAGTTAATG
Statistics
Matches: 581, Mismatches: 74, Indels: 60
0.81 0.10 0.08
Matches are distributed among these distances:
112 132 0.23
113 123 0.21
114 72 0.12
115 3 0.01
116 22 0.04
117 8 0.01
118 43 0.07
119 5 0.01
120 36 0.06
121 3 0.01
122 17 0.03
123 6 0.01
124 25 0.04
125 7 0.01
126 54 0.09
127 2 0.00
128 23 0.04
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (114 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
Found at i:1569437 original size:34 final size:35
Alignment explanation
Indices: 1569399--1569464 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1569389 CCTTTCAATA
*
1569399 CTATCTTTT-TAAAGGCTAAGATAGAACCTCTTCC
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
1569433 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1569465 CAATTGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
Found at i:1570068 original size:19 final size:20
Alignment explanation
Indices: 1570044--1570094 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1570034 CATTTTATGG
1570044 TGTATCGATACAAAG-AACA
1 TGTATCGATACAAAGCAACA
* *
1570063 TGTATCGATACCAAGCAATA
1 TGTATCGATACAAAGCAACA
1570083 TGTATCGATACA
1 TGTATCGATACA
1570095 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:1575217 original size:51 final size:51
Alignment explanation
Indices: 1575140--1575240 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
1575130 AGTTTTACTT
* * *
1575140 AAATATTATCGTGTTGTTTGGCTGCTTTAAAACTTGACCACATGGCATTAC
1 AAATATTATCCTGTTGTTTGGATGCTTAAAAACTTGACCACATGGCATTAC
1575191 AAATATTATCCTGTTGTTTGGATGCTTAAAAACTTGACCACATGGCATTA
1 AAATATTATCCTGTTGTTTGGATGCTTAAAAACTTGACCACATGGCATTA
1575241 GACGTGATTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (51 bp):
AAATATTATCCTGTTGTTTGGATGCTTAAAAACTTGACCACATGGCATTAC
Found at i:1579556 original size:39 final size:38
Alignment explanation
Indices: 1579460--1579557 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 38
1579450 TTTTCTTTCT
1579460 CCCTTAATCAAAATAAATTTTAACAAATTCATACATTCTCC
1 CCCTTAAT--AAAT-AATTTTAACAAATTCATACATTCTCC
* * * *
1579501 CCCTTAATAAGGTAATTTTAGCTAATTCATGCATTCTCC
1 CCCTTAATAA-ATAATTTTAACAAATTCATACATTCTCC
* *
1579540 CCTTTTATTAAATAATTT
1 CC-CTTAATAAATAATTT
1579558 CCCCTTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 33 0.69
40 7 0.15
41 8 0.17
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (38 bp):
CCCTTAATAAATAATTTTAACAAATTCATACATTCTCC
Found at i:1579570 original size:19 final size:21
Alignment explanation
Indices: 1579537--1579576 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1579527 TCATGCATTC
*
1579537 TCCCCTTTTATTAAA-TAATT
1 TCCCCTTTTAATAAAGTAATT
1579557 TCCCC-TTTAATAAAGTAATT
1 TCCCCTTTTAATAAAGTAATT
1579577 CACACAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (21 bp):
TCCCCTTTTAATAAAGTAATT
Found at i:1581409 original size:20 final size:20
Alignment explanation
Indices: 1581384--1581461 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
1581374 ATAATCCCCC
1581384 TGTATCGATACATAGAAAAA
1 TGTATCGATACATAGAAAAA
* *
1581404 TGTATCGATACATTGAATTTCCAGA
1 TGTATCGATACATAGAA-----AAA
* *
1581429 TGTATCGATACACAGAAACA
1 TGTATCGATACATAGAAAAA
1581449 TGTATCGATACAT
1 TGTATCGATACAT
1581462 TTTGGACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
25 17 0.36
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATAGAAAAA
Found at i:1585322 original size:22 final size:20
Alignment explanation
Indices: 1585273--1585324 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1585263 ATCATGCAAG
1585273 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCTAAT
**
1585294 TCATTATTTTCATTAGCTAAAT
1 TTTTTATTTTC-TTAGCT-AAT
1585316 TTTTTATTT
1 TTTTTATTT
1585325 CAACTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 10 0.40
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCTAAT
Found at i:1587570 original size:33 final size:32
Alignment explanation
Indices: 1587533--1587596 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1587523 TACAAGCAAA
*
1587533 TGTATCGATATAAT-TTTTGATGTATCGATACAT
1 TGTATCGATA-AATACTTTG-TGTATCGATACAT
*
1587566 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATAAATACTTTGTGTATCGATACA
1587597 AGTTTGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATAAATACTTTGTGTATCGATACAT
Found at i:1587571 original size:13 final size:13
Alignment explanation
Indices: 1587553--1587578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1587543 TAATTTTTGA
1587553 TGTATCGATACAT
1 TGTATCGATACAT
1587566 TGTATCGATACAT
1 TGTATCGATACAT
1587579 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1589403 original size:79 final size:79
Alignment explanation
Indices: 1589313--1589870 Score: 500
Period size: 79 Copynumber: 7.1 Consensus size: 79
1589303 TCATTGATGT
* * *
1589313 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGTATACTCCAACCTCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
** * *
1589378 TACTTTAA-TCTCGG
66 TACTCCAACCCT-GA
* * * * * * *
1589392 TTTTATTTCTAAAACATC-AATTTTCTACCATCAGAGG-TACTCCGACCCCGTTGTTTTCGAGAG
1 TTTTATTTCTAAAACATCGATTTTTC-ACCATC-GGGGATACTCCAACCCCATTATTTTTGAGGG
* *
1589455 GATACTCCAACCTTGG
64 GATACTCCAACCCTGA
* * * * * * * *
1589471 TTTTATATCCAAAACATCGATTTTCCACCATTGGGGATACCCCAACCCTATTATTTCTAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
1589536 TACTCCAACCCTGA
66 TACTCCAACCCTGA
* * ** * * *
1589550 TTTTATTTCTAAAACACCGA-TTTTCACCATTGGCAATACTCCAACCTCTTTATTTTTGAGGGAA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
** **
1589614 TACTGTAACCCCAA
66 TACTCCAACCCTGA
* * * * * ***
1589628 TTTTATTTTTGAAACA-CTAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTCCAAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGG
*
1589692 ATACTCCAACCCTGG
65 ATACTCCAACCCTGA
* ** *
1589707 TTTTATTTCTAAAACA-CTGATTTTCCATAATCGAGGATACTCCAACCCCATTATTTTTGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGG
*
1589771 ATACTCCAACCCTAA
65 ATACTCCAACCCTGA
* * *** *
1589786 TTTTATTTCCAAAACATCGA-TTTTCAACCATCGGGGATACTCCAACCCCGTTATTTCCAAAGGG
1 TTTTATTTCTAAAACATCGATTTTTC-ACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGG
* *
1589850 ATACTCCAACCCCGT
65 ATACTCCAACCCTGA
1589865 TTTTAT
1 TTTTAT
1589871 CTCCAAAATA
Statistics
Matches: 380, Mismatches: 90, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
77 1 0.00
78 72 0.19
79 298 0.78
80 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
TACTCCAACCCTGA
Found at i:1589543 original size:28 final size:30
Alignment explanation
Indices: 1589503--1589561 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
1589493 TTCCACCATT
1589503 GGGGATACCCCAACCCT-A-TTATTTCTAA
1 GGGGATACCCCAACCCTGATTTATTTCTAA
*
1589531 GGGGATACTCCAACCCTGATTTTATTTCTAA
1 GGGGATACCCCAACCCTGA-TTTATTTCTAA
1589562 AACACCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.59
29 1 0.04
31 10 0.37
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (30 bp):
GGGGATACCCCAACCCTGATTTATTTCTAA
Found at i:1589754 original size:236 final size:236
Alignment explanation
Indices: 1589313--1589841 Score: 643
Period size: 236 Copynumber: 2.2 Consensus size: 236
1589303 TCATTGATGT
* *
1589313 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGTATACTCCAACCTCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGA-TTTTCACCATCGGGAATACTCCAACCTCGTTATTTTTGAGGGAA
* * * ** * * *
1589378 TACTTTAATCTCGGTTTTATTTCTAAAACATCAATTTTCTACCATCAGAGGTACTCCGACCCCGT
65 TACTGTAACCCCAATTTTATTTCTAAAACATCAATTTTCTACAATCAGAGGTACTCCAACCCCAT
* * * * * * *
1589443 TGTTTTCGAGAGGATACTCCAACCTTGGTTTTATATCCAAAACATCGATTTTCCACCATTGGGGA
130 TATTTCCAAGAGGATACTCCAACCCTGGTTTTATATCCAAAACATCGATTTTCCACAATCGAGGA
* *
1589508 TACCCCAACCCTATTATTTCTAAGGGGATACTCCAACCCTGA
195 TACCCCAACCCCATTATTTCTAAGGGGATACTCCAACCCTAA
* * * *
1589550 TTTTATTTCTAAAACACCGATTTTCACCATTGGCAATACTCCAACCTCTTTATTTTTGAGGGAAT
1 TTTTATTTCTAAAACATCGATTTTCACCATCGGGAATACTCCAACCTCGTTATTTTTGAGGGAAT
* * * *
1589615 ACTGTAACCCCAATTTTATTTTTGAAACA-CTAATTTT-TCACAATC-GGGGATACTCCAACCCT
66 ACTGTAACCCCAATTTTATTTCTAAAACATC-AATTTTCT-ACAATCAGAGG-TACTCCAACCCC
* * * *
1589677 ATTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA-CTGATTTTCCATAATCGA
128 ATTATTTCCAAGAGGATACTCCAACCCTGGTTTTATATCCAAAACATC-GATTTTCCACAATCGA
* * *
1589741 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCTAA
192 GGATACCCCAACCCCATTATTTCTAAGGGGATACTCCAACCCTAA
* * *
1589786 TTTTATTTCCAAAACATCGATTTTCAACCATCGGGGATACTCCAACCCCGTTATTT
1 TTTTATTTCTAAAACATCGATTTTC-ACCATCGGGAATACTCCAACCTCGTTATTT
1589842 CCAAAGGGAT
Statistics
Matches: 246, Mismatches: 41, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
235 6 0.02
236 196 0.80
237 44 0.18
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (236 bp):
TTTTATTTCTAAAACATCGATTTTCACCATCGGGAATACTCCAACCTCGTTATTTTTGAGGGAAT
ACTGTAACCCCAATTTTATTTCTAAAACATCAATTTTCTACAATCAGAGGTACTCCAACCCCATT
ATTTCCAAGAGGATACTCCAACCCTGGTTTTATATCCAAAACATCGATTTTCCACAATCGAGGAT
ACCCCAACCCCATTATTTCTAAGGGGATACTCCAACCCTAA
Found at i:1589927 original size:315 final size:315
Alignment explanation
Indices: 1589332--1589939 Score: 654
Period size: 315 Copynumber: 1.9 Consensus size: 315
1589322 TAAAACATCG
* * * *** ** *
1589332 ATTTTTCACCATCGGGTATACTCCAACCTCGTTATTTTTGAGGGGATACTTTAATCTCGGTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCTCATTATTTCCAAGGGGATACTCCAACCTCGGTTTTA
* * * * *
1589397 TTTCTAAAACATCAATTTTCTACCATCAGAGGTACTCCGACCCCGTTGTTTTCGAGAGGATACTC
66 TTTCTAAAACATCAATTTTCCACAATCAGAGGTACTCCAACCCCATTATTTTCGAGAGGATACTC
* ** * * *
1589462 CAACCTTGGTTTTATATCCAAAACATCGATTTTCCACCATTGGGGATACCCCAACCCTATTATTT
131 CAACCCTAATTTTATATCCAAAACATCGATTTTCAACCATCGGGGATACCCCAACCCCATTATTT
* * * * * *** **
1589527 CTAAGGGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTTTCACCATTGGCAATACTCC
196 CCAAAGGGATACTCCAACCCCGATTTTATCTCCAAAACAAAAATTTTCACCAGGGGCAATACTCC
* * *** *
1589592 AACCTCTTTATTTTTGAGGGAATACTGTAACCCCAATTTTATTTTTGAAACACTA
261 AACCGCTGTATCCCTGAGGGAATACTCTAACCCCAATTTTATTTTTGAAACACTA
1589647 ATTTTTCACAATCGGGGATACTCCAACC-CTATTATTTCCAAGGGGATACTCCAACC-CTGGTTT
1 ATTTTTCACAATCGGGGATACTCCAACCTC-ATTATTTCCAAGGGGATACTCCAACCTC-GGTTT
* * * *
1589710 TATTTCTAAAACA-CTGATTTTCCATAATC-GAGGATACTCCAACCCCATTATTTTTGAGGGGAT
64 TATTTCTAAAACATC-AATTTTCCACAATCAGAGG-TACTCCAACCCCATTATTTTCGAGAGGAT
* * *
1589773 ACTCCAACCCTAATTTTATTTCCAAAACATCGATTTTCAACCATCGGGGATACTCCAACCCCGTT
127 ACTCCAACCCTAATTTTATATCCAAAACATCGATTTTCAACCATCGGGGATACCCCAACCCCATT
* * ** *
1589838 ATTTCCAAAGGGATACTCCAACCCCGTTTTTATCTCCAAAATATTAAAATTTTCTTC-GGGGGAT
192 ATTTCCAAAGGGATACTCCAACCCCGATTTTATCTCCAAAACA--AAAATTTTCACCAGGGGCA-
* *
1589902 GTACTCCAACCGC-GTA-CCCTGAGGGAATATTCTAACCC
254 ATACTCCAACCGCTGTATCCCTGAGGGAATACTCTAACCC
1589940 TATTTCTTTT
Statistics
Matches: 236, Mismatches: 50, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
314 7 0.03
315 206 0.87
316 5 0.02
317 18 0.08
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (315 bp):
ATTTTTCACAATCGGGGATACTCCAACCTCATTATTTCCAAGGGGATACTCCAACCTCGGTTTTA
TTTCTAAAACATCAATTTTCCACAATCAGAGGTACTCCAACCCCATTATTTTCGAGAGGATACTC
CAACCCTAATTTTATATCCAAAACATCGATTTTCAACCATCGGGGATACCCCAACCCCATTATTT
CCAAAGGGATACTCCAACCCCGATTTTATCTCCAAAACAAAAATTTTCACCAGGGGCAATACTCC
AACCGCTGTATCCCTGAGGGAATACTCTAACCCCAATTTTATTTTTGAAACACTA
Found at i:1598973 original size:20 final size:21
Alignment explanation
Indices: 1598950--1598994 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1598940 TATATATGAA
1598950 AAAAATCAAG-ATCATATC-AC
1 AAAAAT-AAGCATCATATCAAC
*
1598970 AAAAATTAGCATCATATCAAC
1 AAAAATAAGCATCATATCAAC
1598991 AAAA
1 AAAA
1598995 CTACATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 14 0.64
21 6 0.27
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAATAAGCATCATATCAAC
Found at i:1606944 original size:23 final size:23
Alignment explanation
Indices: 1606918--1606968 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1606908 ATCATTTTCC
1606918 GGGTGGAATAAATTCCCAAAGTT
1 GGGTGGAATAAATTCCCAAAGTT
*
1606941 GGGTGGAATAAATTCCCAAATTT
1 GGGTGGAATAAATTCCCAAAGTT
1606964 GGGTG
1 GGGTG
1606969 AATTGCATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (23 bp):
GGGTGGAATAAATTCCCAAAGTT
Found at i:1608799 original size:51 final size:51
Alignment explanation
Indices: 1608739--1608854 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
1608729 TACATTGAAT
*
1608739 AATGTATCGATACATCTGGGTAAAATCCCCAGATATTTCGAAACAAAGATC
1 AATGTATCGATACATCTAGGTAAAATCCCCAGATATTTCGAAACAAAGATC
* *
1608790 AATGTATCGATACATCTAGGTAAAATCCCTAGATGTTTCGAAACAAAGATC
1 AATGTATCGATACATCTAGGTAAAATCCCCAGATATTTCGAAACAAAGATC
1608841 AATGTATCGATACA
1 AATGTATCGATACA
1608855 ATGTATCGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (51 bp):
AATGTATCGATACATCTAGGTAAAATCCCCAGATATTTCGAAACAAAGATC
Found at i:1608858 original size:13 final size:13
Alignment explanation
Indices: 1608840--1608867 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1608830 AAACAAAGAT
1608840 CAATGTATCGATA
1 CAATGTATCGATA
1608853 CAATGTATCGATA
1 CAATGTATCGATA
1608866 CA
1 CA
1608868 TTTCCTTCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1608907 original size:13 final size:13
Alignment explanation
Indices: 1608843--1608912 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 13
1608833 CAAAGATCAA
*
1608843 TGTATCGATACAA
1 TGTATCGATACAT
1608856 TGTATCGATACAT
1 TGTATCGATACAT
* *
1608869 T-TCCTTCGCAGTAGCTT
1 TGT--ATCG-A-TA-CAT
*
1608886 TGTAGCGATACAT
1 TGTATCGATACAT
1608899 TGTATCGATACAT
1 TGTATCGATACAT
1608912 T
1 T
1608913 TTCTATTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.02
13 28 0.64
14 5 0.11
15 2 0.05
16 4 0.09
17 3 0.07
18 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1612122 original size:32 final size:33
Alignment explanation
Indices: 1612086--1612147 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1612076 CAATTGAGTG
*
1612086 TGTATCAATACAATG-A-ACATGTATTGATATAA
1 TGTATCAATACAAAGCATA-ATGTATTGATATAA
1612118 TGTATCAATACAAAGCATAATGTATTGATA
1 TGTATCAATACAAAGCATAATGTATTGATA
1612148 CATCTAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.52
33 12 0.44
34 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAAAGCATAATGTATTGATATAA
Found at i:1616307 original size:13 final size:13
Alignment explanation
Indices: 1616289--1616314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1616279 CACATCTAGA
1616289 TGTATCGATACAT
1 TGTATCGATACAT
1616302 TGTATCGATACAT
1 TGTATCGATACAT
1616315 GTTCATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1616348 original size:20 final size:19
Alignment explanation
Indices: 1616299--1616352 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1616289 TGTATCGATA
***
1616299 CATTGTATCGATACATGTT
1 CATTGTATCGATACACACT
*
1616318 CATTATATCGATACACACT
1 CATTGTATCGATACACACT
1616337 CAATTGTATCGATACA
1 C-ATTGTATCGATACA
1616353 TGAAACTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACACACT
Found at i:1620879 original size:22 final size:22
Alignment explanation
Indices: 1620854--1620895 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1620844 TGATAAACAT
1620854 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
* *
1620876 ATTTCTCTCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
1620896 TCTTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:1622427 original size:18 final size:18
Alignment explanation
Indices: 1622404--1622438 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1622394 AGGGCTTCGA
1622404 TTTTGAAAAAAAACAAGT
1 TTTTGAAAAAAAACAAGT
* *
1622422 TTTTGACAAAAATCAAG
1 TTTTGAAAAAAAACAAG
1622439 ACCACAGACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (18 bp):
TTTTGAAAAAAAACAAGT
Found at i:1622815 original size:59 final size:59
Alignment explanation
Indices: 1622723--1622852 Score: 251
Period size: 59 Copynumber: 2.2 Consensus size: 59
1622713 GGTATGGTTA
1622723 TCGATACAATGTGAAGGAGGAAGGTTCGACTATTCAAATAGTAACCCATGTCGATTGTC
1 TCGATACAATGTGAAGGAGGAAGGTTCGACTATTCAAATAGTAACCCATGTCGATTGTC
*
1622782 TCGATACAATGTGAAGGAGGAAGGTTTGACTATTCAAATAGTAACCCATGTCGATTGTC
1 TCGATACAATGTGAAGGAGGAAGGTTCGACTATTCAAATAGTAACCCATGTCGATTGTC
1622841 TCGATACAATGT
1 TCGATACAATGT
1622853 ATCGATACAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 70 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (59 bp):
TCGATACAATGTGAAGGAGGAAGGTTCGACTATTCAAATAGTAACCCATGTCGATTGTC
Found at i:1629338 original size:19 final size:19
Alignment explanation
Indices: 1629314--1629368 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1629304 TGTATCGATA
*
1629314 CATTGTATTGATACATGTT
1 CATTGTATTGATACATGCT
1629333 CATTGTATTGATACATGCT
1 CATTGTATTGATACATGCT
*
1629352 CATTGTATCGATACATG
1 CATTGTATTGATACATG
1629369 AAACGCAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (19 bp):
CATTGTATTGATACATGCT
Found at i:1633671 original size:19 final size:19
Alignment explanation
Indices: 1633647--1633696 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1633637 ATTTAGTAAA
*
1633647 TGTATCAATAGATAAGTGT
1 TGTATCAATACATAAGTGT
* * *
1633666 TGTATCGATTCATAAGTTT
1 TGTATCAATACATAAGTGT
*
1633685 TGTATCGATACA
1 TGTATCAATACA
1633697 ATGTATCGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCAATACATAAGTGT
Found at i:1633766 original size:13 final size:13
Alignment explanation
Indices: 1633748--1633773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1633738 CATTTTTCGG
1633748 TGTATCGATACAT
1 TGTATCGATACAT
1633761 TGTATCGATACAT
1 TGTATCGATACAT
1633774 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1633791 original size:34 final size:33
Alignment explanation
Indices: 1633728--1633794 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
1633718 GCCAAGGAAA
*
1633728 TGTATCGATACATTTTTCGGTGTATCGATACAT
1 TGTATCGATACATTATTCGGTGTATCGATACAT
**
1633761 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCGGTGTATCGATACAT
1633795 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTATTCGGTGTATCGATACAT
Found at i:1636205 original size:52 final size:53
Alignment explanation
Indices: 1636148--1636270 Score: 153
Period size: 52 Copynumber: 2.4 Consensus size: 53
1636138 CAATTGTTCA
* *
1636148 TAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAATTTTCCTT
* * *
1636200 TAATCGGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* *
1636252 CAATCGAGGATACTCCAAC
1 TAATCGGGGATACTCCAAC
1636271 CTCGTTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 45 0.74
53 16 0.26
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:1636548 original size:211 final size:211
Alignment explanation
Indices: 1636149--1636592 Score: 676
Period size: 211 Copynumber: 2.1 Consensus size: 211
1636139 AATTGTTCAT
* ** * *
1636149 AATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGGTACT
1 AATCGGGGATACTCCAACCCCGAATTTATTTTCAAAACACCAATTTTCCTTTAATCCGGGATACT
* *
1636214 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
* *
1636279 TTCATCGGGGATACTCCAACCCCATTACGTCCAAAGGGATACTCGCACCCTAGCTTTATTTCCAA
131 TTCATCGGGGATACTCCAACCCCATTACCTCCAAAGGGATACTCGCACCCCAGCTTTATTTCCAA
1636344 AATATTGATTTC-CAC
196 AATATTGATTTCTCAC
* *
1636359 AATCGGGGATACTCCAAGCCCGAATTTATTTTCAAAACACTAATTTTCCTTTAATCCGGGATACT
1 AATCGGGGATACTCCAACCCCGAATTTATTTTCAAAACACCAATTTTCCTTTAATCCGGGATACT
* *
1636424 CCAACCCCGATTTTATTTCCATAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTTGTTA
66 CCAACCCCGATTTTATTTCCA-AAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTTA
* * * * *
1636489 TTTCATCGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTC-CAACCCCGGCTTTATTTCC
130 TTTCATCGGGGATACTCCAACCCCATTACCTCCAAAGGGATACTCGC-ACCCCAGCTTTATTTCC
*
1636553 AAAATATTGATTTCTCAT
194 AAAATATTGATTTCTCAC
*
1636571 AATTGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
1636593 TTATTTTCGA
Statistics
Matches: 211, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
210 80 0.38
211 109 0.52
212 22 0.10
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGAATTTATTTTCAAAACACCAATTTTCCTTTAATCCGGGATACT
CCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
TTCATCGGGGATACTCCAACCCCATTACCTCCAAAGGGATACTCGCACCCCAGCTTTATTTCCAA
AATATTGATTTCTCAC
Found at i:1636609 original size:107 final size:107
Alignment explanation
Indices: 1636205--1636611 Score: 250
Period size: 107 Copynumber: 3.8 Consensus size: 107
1636195 TCCTTTAATC
* * * * * *
1636205 GGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACATCAATTTCTCACAACCGAGGATACTCCAA
* * * * *
1636270 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACGTCCAA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCTCGTTACCTCCGA
* * * ** * *
1636313 AGGGATACTCGC-A-CCCTAGCTTTATTTCC-AAAATATTGATTTC-CACAATCGGGGATACTCC
1 GGGGATACTC-CAACCCCGA-CTTTATTTCCAAAAACATCAATTTCTCACAACCGAGGATACTCC
* * * * ** * *
1636374 AAGCCCGAATTTATTTTCA-----AAACACTAATTTTCCTTTA-ATCC--
64 AACCCCG---TTA-TTTCACGGGGATACTCCAA-CCT-CGTTACCTCCGA
* *
1636416 -GGGATACTCCAACCCCGATTTTATTTCCATAAAACATCAATTTTTCACAACCGAGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCA-AAAACATCAATTTCTCACAACCGAGGATACTCCA
**
1636480 ACCTTGTTATTTCATCGGGGATACTCCAACCTCGTTACCTCCGA
65 ACCCCGTTATTTCA-CGGGGATACTCCAACCTCGTTACCTCCGA
* * ** * ** *
1636524 GGGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACATCAATTTCTCACAACCGAGGATACTCCAA
1636588 CCCCGTTATTTTCGA-GGGGATACT
66 CCCCGTTA-TTTC-ACGGGGATACT
1636612 TCAATCCCGA
Statistics
Matches: 223, Mismatches: 51, Indels: 51
0.69 0.16 0.16
Matches are distributed among these distances:
101 6 0.03
102 22 0.10
103 4 0.02
104 16 0.07
105 27 0.12
106 30 0.13
107 60 0.27
108 22 0.10
109 31 0.14
110 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACATCAATTTCTCACAACCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCTCGTTACCTCCGA
Found at i:1636627 original size:79 final size:76
Alignment explanation
Indices: 1636495--1636729 Score: 220
Period size: 79 Copynumber: 3.0 Consensus size: 76
1636485 GTTATTTCAT
* ** * *
1636495 CGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCC-GTTTTATTTCCAAAATAT
*
1636560 TGATTTCTCATAAT
64 T-ATTTCTCATAAC
* * **
1636574 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTTCAATCCCGATTTTA-TTCCCTAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCG-TTTTATTTCCAAAAT-A
* *
1636638 TCTATTTTTCACAAC
63 T-TATTTCTCATAAC
* * * *
1636653 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGACACTCCAACCCTGTTATTATCTCTAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-GTT-TTATTTCCAAAATAT
1636718 TAAATTTCTCAT
64 T--ATTTCTCAT
1636730 CGAGACACAT
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
78 14 0.11
79 98 0.78
80 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (76 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGTTTTATTTCCAAAATATTA
TTTCTCATAAC
Found at i:1644419 original size:26 final size:27
Alignment explanation
Indices: 1644390--1644440 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1644380 ATTTTTTAGT
1644390 GAAA-AATGGGGTTGGAGTATCCCCTC
1 GAAAGAATGGGGTTGGAGTATCCCCTC
*
1644416 GAAAGAATGGGGTTGGAGTGTCCCC
1 GAAAGAATGGGGTTGGAGTATCCCC
1644441 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (27 bp):
GAAAGAATGGGGTTGGAGTATCCCCTC
Found at i:1646772 original size:20 final size:20
Alignment explanation
Indices: 1646746--1646800 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1646736 AAAAAGACAG
*
1646746 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1646766 CATGTATCGATAGATTCAAA
1 AATGTATCGATACATTCAAA
1646786 AATGTATCGATACAT
1 AATGTATCGATACAT
1646801 ATGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1647612 original size:32 final size:32
Alignment explanation
Indices: 1647565--1647629 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
1647555 CGACATTGGG
*
1647565 TAAAGAAGGGTTGCCACCAACTTGTATGGGCTT
1 TAAAGAAGAGTTGCCACCAACTTGTAT-GGCTT
*
1647598 TAAAGAA-AGTTGCCACCAACTTGTGTGGCTT
1 TAAAGAAGAGTTGCCACCAACTTGTATGGCTT
1647629 T
1 T
1647630 TGAAAGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.20
32 17 0.57
33 7 0.23
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (32 bp):
TAAAGAAGAGTTGCCACCAACTTGTATGGCTT
Found at i:1647661 original size:28 final size:28
Alignment explanation
Indices: 1647616--1647941 Score: 397
Period size: 28 Copynumber: 11.6 Consensus size: 28
1647606 GTTGCCACCA
*
1647616 ACTTGTGTGGCTTTTGAAAGGATGCTACTG
1 ACTTGTG-GGC-TTTGAAAGGATGCCACTG
**
1647646 ACTTGTGGGCTTTGAAAGGATATCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
1647674 GCTTGTGGGGTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
1647702 AGTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
1647730 ACTTGTGGGCTTT-AAAGAGATACCGCTG
1 ACTTGTGGGCTTTGAAAG-GATGCCACTG
1647758 ACTTGTGGGCTTTG-AAGAGATGCCACTG
1 ACTTGTGGGCTTTGAAAG-GATGCCACTG
* *
1647786 ACTTGTGGGCTTTGAAAGGGTACCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
1647814 ACTTGTGGGCTTTGAAAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * * *
1647842 ATTTGTGGGCTTTGAATGGGTGCCGCTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
1647870 ACTTGTGGGCTTTG-AAGAGATGTCACTG
1 ACTTGTGGGCTTTGAAAG-GATGCCACTG
* *
1647898 ACTTGTAGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
1647926 ACTTATGGGCTTTGAA
1 ACTTGTGGGCTTTGAA
1647942 GAGACTTTGA
Statistics
Matches: 256, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
27 6 0.02
28 234 0.91
29 9 0.04
30 7 0.03
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTG
Found at i:1647961 original size:39 final size:39
Alignment explanation
Indices: 1647907--1647984 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1647897 GACTTGTAGG
1647907 CTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAGAGA
1 CTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAGAGA
* *
1647946 CTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAGAGA
1 CTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAGAGA
1647985 TTAACATTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.29
Consensus pattern (39 bp):
CTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAGAGA
Found at i:1652981 original size:51 final size:51
Alignment explanation
Indices: 1652828--1652999 Score: 211
Period size: 52 Copynumber: 3.3 Consensus size: 51
1652818 GATGAAATAA
* *
1652828 TGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAA-
1 TGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTGGAAATAAAAC
* * ** *
1652879 TCAGAGTTGGGGTATCCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAAC
1 TGAG-GTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTGGAAATAAAAC
* *
1652932 TGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGATTCGGAAATAAAAC
1 TGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAAC
* *
1652983 CGAGGTTGGAGTTTCCC
1 TGAGGTTGGAGTATCCC
1653000 TTCGGAGATA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
51 42 0.41
52 46 0.45
53 14 0.14
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
TGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAAC
Found at i:1653118 original size:27 final size:27
Alignment explanation
Indices: 1653088--1653140 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1653078 CCCTCGAAAA
*
1653088 TAACAGGGTTGCAGTATCCCTGATGAT
1 TAACAGGGTTGCAGTATCCCCGATGAT
* *
1653115 TAACGGGGTTGGAGTATCCCCGATGA
1 TAACAGGGTTGCAGTATCCCCGATGA
1653141 AAAATTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (27 bp):
TAACAGGGTTGCAGTATCCCCGATGAT
Found at i:1653217 original size:51 final size:49
Alignment explanation
Indices: 1653122--1653239 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 49
1653112 GATTAACGGG
1653122 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
* *
1653170 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTT-GAAAATGAAATCGGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAG-AAATAAAATCGGA
1653221 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
1653240 TGAAGAATAG
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
48 16 0.26
49 1 0.02
50 4 0.07
51 40 0.66
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:1655055 original size:10 final size:10
Alignment explanation
Indices: 1655042--1655070 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1655032 CAATGGAATA
1655042 GTGTTTTTTT
1 GTGTTTTTTT
1655052 GTGTTTTTTT
1 GTGTTTTTTT
1655062 G-GTTTTTTT
1 GTGTTTTTTT
1655071 CCTAAAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:1655622 original size:13 final size:13
Alignment explanation
Indices: 1655604--1655662 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
1655594 CAAAGAATAG
1655604 ATGTATCGATACA
1 ATGTATCGATACA
1655617 ATGTATCGATACA
1 ATGTATCGATACA
1655630 CA-G-A---A-A-A
1 -ATGTATCGATACA
1655637 ATGTATCGATACA
1 ATGTATCGATACA
1655650 ATGTATCGATACA
1 ATGTATCGATACA
1655663 CAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
8 2 0.05
9 1 0.03
11 1 0.03
12 2 0.05
13 28 0.74
14 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1655641 original size:20 final size:20
Alignment explanation
Indices: 1655616--1655682 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
1655606 GTATCGATAC
1655616 AATGTATCGATACACAGAAA
1 AATGTATCGATACACAGAAA
1655636 AATGTATCGAT--AC-----
1 AATGTATCGATACACAGAAA
1655649 AATGTATCGATACACAGAAA
1 AATGTATCGATACACAGAAA
1655669 AATGTATCGATACA
1 AATGTATCGATACA
1655683 TTCCCTTGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
18 2 0.05
20 25 0.62
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACACAGAAA
Found at i:1655646 original size:33 final size:33
Alignment explanation
Indices: 1655583--1655682 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
1655573 AACTTCCTAG
* *
1655583 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACACAGAA-AAATGTATCGATACA
1655617 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
1655650 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
1655683 TTCCCTTGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 47 0.73
34 17 0.27
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACACAGAAAAATGTATCGATACA
Found at i:1655726 original size:19 final size:19
Alignment explanation
Indices: 1655702--1655787 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
1655692 CAGTAGCTAA
*
1655702 TTATGTATCGATGCAATAC
1 TTATGTATCGATACAATAC
1655721 TTATGTATCGATAC---A-
1 TTATGTATCGATACAATAC
1655736 -T-TGTATCGATACAATAC
1 TTATGTATCGATACAATAC
* *
1655753 TTATGTATCGATACAACAT
1 TTATGTATCGATACAATAC
1655772 TTATGTATCGATACAA
1 TTATGTATCGATACAA
1655788 ATCGCTGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.03
18 1 0.02
19 43 0.74
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:1655742 original size:13 final size:13
Alignment explanation
Indices: 1655724--1655748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1655714 GCAATACTTA
1655724 TGTATCGATACAT
1 TGTATCGATACAT
1655737 TGTATCGATACA
1 TGTATCGATACA
1655749 ATACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1655751 original size:32 final size:32
Alignment explanation
Indices: 1655705--1655767 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1655695 TAGCTAATTA
*
1655705 TGTATCGATGCAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
1655737 TGTATCGATACAATACTTATGTATCGATACA
1 TGTATCGATACAATACTTATGTATCGATACA
1655768 ACATTTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:1656688 original size:55 final size:55
Alignment explanation
Indices: 1656604--1658196 Score: 1520
Period size: 55 Copynumber: 27.9 Consensus size: 55
1656594 AAGTGTATCA
* * *
1656604 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1656659 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAAGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* *
1656714 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1656769 TGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* *
1656824 TACTCTTTGA-G---G--A--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * *
1656871 TACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * *
1656926 TGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCC
* *
1656987 TGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
* *
1657047 CGCTCTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
* *
1657106 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAAAAAGG-GTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAGGCGTCC
** * * *
1657164 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1657219 TACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCC
* * * * *
1657280 TGCTCCTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGATTTAAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1657335 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* * *
1657390 TGCTCCTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCC
* * *
1657451 TGCTCTTTGAGGACTGAAAGCTGCCACCAATTTGTGTGGGCTTT-AAGAGGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* * * *
1657506 TGCTCTTTGGGGACGGAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G-----GCGTCC
* * *
1657567 TACTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCATCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
* *
1657626 CGCTCTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
* * * *
1657685 CGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTTTGGGCTTTAAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * *
1657740 TGTTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCC
* * *
1657801 TGCTCTTTGAGGATTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1657855 TGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1657910 TGCTCTTTGAGAACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAGTGGAGAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT---T-GA-AAGGCGTCC
* *
1657970 TGCT-TTATGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTT-TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1658025 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
* *
1658085 TGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G---AAAGGCGTCC
* ** *
1658147 TGCTCTTTGAGGACTGGAATATGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1658197 AAGAGGCATC
Statistics
Matches: 1340, Mismatches: 108, Indels: 180
0.82 0.07 0.11
Matches are distributed among these distances:
47 41 0.03
48 3 0.00
49 1 0.00
51 1 0.00
52 1 0.00
53 4 0.00
54 92 0.07
55 516 0.39
56 25 0.02
57 6 0.00
58 42 0.03
59 139 0.10
60 211 0.16
61 196 0.15
62 26 0.02
63 25 0.02
64 2 0.00
65 9 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:1657783 original size:115 final size:114
Alignment explanation
Indices: 1656604--1658194 Score: 1615
Period size: 116 Copynumber: 13.9 Consensus size: 114
1656594 AAGTGTATCA
** * *
1656604 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTGCTC
1 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* *
1656664 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAA-GTGTCC
65 TTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* **
1656714 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTC
1 TGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* * *
1656774 TTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCC
65 TTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* ** *
1656824 TACTCTTT---GA--GG-A-TGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTACTCT
1 TGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
* * *
1656877 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-GAAAGGGGTCC
66 TTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* * * *
1656926 TGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTGAAAAGAAAAAGCATCCTGCT
1 TGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTGCT
*
1656991 CTTTGAGGACTGAAAGCTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCC
64 CTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTT---A-AAAAGGCGTCC
* * *
1657047 CGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCCTGCTC
1 TGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
*
1657111 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAGG-GTCC
65 TTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT---AAAAAGGCGTCC
*** *
1657164 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCATCCTACTC
1 TGCTCTTTGAGGAC-TGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
*
1657224 TTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
65 TTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT--AA--A-AAGGCGTCC
* *
1657280 TGCTCCTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGATTT-----AAAAGGCATCCTGCTC
1 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* *
1657340 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCC
65 TTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* * *
1657390 TGCTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCT
1 TGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTGCT
* * *
1657455 CTTTGAGGACTGAAAGCTGCCACCAATTTGTGTGGGCTTT-AAGAGGTGTCC
64 CTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* * * * *
1657506 TGCTCTTTGGGGAC-GGAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTAC
1 TGCTCTTTGAGGACTGG-AA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTGC
* * *
1657570 TCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCATCC
63 TCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT---A-AAAAGGCGTCC
* * * *
1657626 CGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCCCGCTC
1 TGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* *
1657690 TTTGAGGACTGGAAAGTGCCACCAACTTGTTTGGGCTTT-AAAAGGCATCC
65 TTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* *
1657740 TGTTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCT
1 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCATCCTGCT
* *
1657805 CTTTGAGGATTGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCC
64 CTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
*
1657855 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTC
1 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
*
1657915 TTTGAGAACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAGTGGAGAAGGCGTCC
65 TTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA----A-AAGGCGTCC
*
1657970 TGCT-TTATGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCT
1 TGCTCTT-TGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCT
1658029 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
64 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT---A--AAAAGGCGTCC
* * **
1658085 TGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGGTGTCCTG
1 TGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-G--AAAAGGCATCCTG
1658149 CTCTTTGAGGACTGGAATA-TGCCACCAACTTGTGTGGGCTTTAAAA
62 CTCTTTGAGGACT-GAA-AGTGCCACCAACTTGTGTGGGCTTTAAAA
1658195 GGAAGAGGCA
Statistics
Matches: 1303, Mismatches: 101, Indels: 146
0.84 0.07 0.09
Matches are distributed among these distances:
102 85 0.07
103 5 0.00
105 4 0.00
107 3 0.00
108 3 0.00
109 50 0.04
110 174 0.13
111 1 0.00
112 4 0.00
113 53 0.04
114 52 0.04
115 268 0.21
116 293 0.22
117 17 0.01
118 59 0.05
119 107 0.08
120 52 0.04
121 22 0.02
122 25 0.02
123 23 0.02
124 2 0.00
125 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (114 bp):
TGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
TTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
Found at i:1659239 original size:13 final size:12
Alignment explanation
Indices: 1659206--1659261 Score: 67
Period size: 12 Copynumber: 4.5 Consensus size: 12
1659196 CTTTTCTCTC
*
1659206 TTTTTCTTTGTT
1 TTTTTTTTTGTT
*
1659218 TTGTTTTTTGTT
1 TTTTTTTTTGTT
*
1659230 TTGTTTTTTTCTT
1 TT-TTTTTTTGTT
1659243 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
1659256 TTTTTT
1 TTTTTT
1659262 GAAGAGAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 19 0.51
13 18 0.49
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:1659244 original size:20 final size:21
Alignment explanation
Indices: 1659191--1659260 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 21
1659181 AAGCAAGTTC
* *
1659191 TTTTTCTTTTCTCTCTTTTTCTT
1 TTTTTCTTTT-T-TGTTTTGCTT
*
1659214 TGTTTTGTTTTTTGTTTTG-TT
1 T-TTTTCTTTTTTGTTTTGCTT
*
1659235 TTTTTCTTTTTTTTTTTGCTT
1 TTTTTCTTTTTTGTTTTGCTT
1659256 TTTTT
1 TTTTT
1659261 TGAAGAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 15 0.38
21 10 0.25
22 5 0.12
23 2 0.05
24 8 0.20
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTTTGTTTTGCTT
Found at i:1681276 original size:51 final size:51
Alignment explanation
Indices: 1681126--1681347 Score: 207
Period size: 51 Copynumber: 4.3 Consensus size: 51
1681116 GAAATAATGA
* * * * * * *
1681126 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-ATTTGAAAATAAAATCGG
* * * * *
1681178 AGTTGGGGTATCCCCGATTAAAGGAAAATT-GATGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAG-TGATTTGAAAATAAAATCGG
* * *
1681230 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGATTCGAAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGATTTGAAAATAAAATCGG
* * *
1681281 GGTTGGAGTATCCCCGATTAT-GAGAAATTAAT-ATTTTAGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGATTTGA-AAATAAAATCGG
1681332 GGTTTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
1681348 TCGAAAATAA
Statistics
Matches: 141, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
50 6 0.04
51 63 0.45
52 63 0.45
53 9 0.06
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGATTTGAAAATAAAATCGG
Found at i:1681339 original size:103 final size:104
Alignment explanation
Indices: 1681126--1681347 Score: 265
Period size: 103 Copynumber: 2.1 Consensus size: 104
1681116 GAAATAATGA
* * * * * *
1681126 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGGGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTATTCGAAAATAAAATCAGAGTTGGAGTATCC
* *
1681191 CCGATTAAAGGAAAATTGATGTTTTGAAAATAAAACCGG
66 CCGATTAAAGGAAAATTAATATTTTGAAAATAAAACCGG
*
1681230 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-ATTCGAAAATAAAATC-GAGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTATTCGAAAATAAAATCAGA-GTTGGAGTATC
* **
1681293 CCCGATT--ATGAGAAATTAATATTTT-AGAAATAAAGTCGG
65 CCCGATTAAAGGA-AAATTAATATTTTGA-AAATAAAACCGG
1681332 GGTTTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
1681348 TCGAAAATAA
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
101 4 0.04
102 25 0.25
103 43 0.42
104 30 0.29
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (104 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTATTCGAAAATAAAATCAGAGTTGGAGTATCC
CCGATTAAAGGAAAATTAATATTTTGAAAATAAAACCGG
Found at i:1681393 original size:27 final size:27
Alignment explanation
Indices: 1681329--1681408 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
1681319 GAAATAAAGT
*
1681329 CGGGGTTTGGAGTATCCCCTCGA-AAATAA
1 CGGGG-TTGGAGTAT-CCC-CGATGAATAA
*
1681358 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGAATAA
1681385 CGGGGTTGGAGTATCCCCGATGAA
1 CGGGGTTGGAGTATCCCCGATGAA
1681409 AAATTGATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 3 0.06
27 30 0.64
28 9 0.19
29 5 0.11
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGAATAA
Found at i:1681484 original size:51 final size:51
Alignment explanation
Indices: 1681408--1681505 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
1681398 TCCCCGATGA
1681408 AAAATTGATGTTTTAGAAATAAAATCGGAGTT-GGAGTATCCCAGATTATAG
1 AAAATTGATGTTTTAGAAATAAAATCGGAGTTGGGA-TATCCCAGATTATAG
* *
1681459 AAAATT-AGTGTTTT-GAAAATGAAATCGGAGTTGGGATATCCCCGATT
1 AAAATTGA-TGTTTTAG-AAATAAAATCGGAGTTGGGATATCCCAGATT
1681506 GCGGAGAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.05
51 37 0.88
52 3 0.07
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
AAAATTGATGTTTTAGAAATAAAATCGGAGTTGGGATATCCCAGATTATAG
Found at i:1683800 original size:13 final size:13
Alignment explanation
Indices: 1683782--1683807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1683772 CAAAGAATAG
1683782 ATGTATCGATACA
1 ATGTATCGATACA
1683795 ATGTATCGATACA
1 ATGTATCGATACA
1683808 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1683819 original size:20 final size:20
Alignment explanation
Indices: 1683794--1683860 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
1683784 GTATCGATAC
1683794 AATGTATCGATACACAGAAA
1 AATGTATCGATACACAGAAA
1683814 AATGTATCGAT--AC-----
1 AATGTATCGATACACAGAAA
*
1683827 AATGTATCAATACACAGAAA
1 AATGTATCGATACACAGAAA
1683847 AATGTATCGATACA
1 AATGTATCGATACA
1683861 TTCCCTTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
18 2 0.05
20 24 0.63
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACACAGAAA
Found at i:1683824 original size:33 final size:33
Alignment explanation
Indices: 1683761--1683860 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1683751 AACTTCCTAG
* *
1683761 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACACAGAA-AAATGTATCGATACA
1683795 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
*
1683828 ATGTATCAATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACACAGAAAAATGTATCGATACA
1683861 TTCCCTTGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
33 46 0.73
34 17 0.27
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACACAGAAAAATGTATCGATACA
Found at i:1683920 original size:13 final size:13
Alignment explanation
Indices: 1683902--1683958 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1683892 GCAATACTTA
1683902 TGTATCGATACAT
1 TGTATCGATACAT
1683915 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
1683933 ATGTATCGATACAT
1 -TGTATCGATACAT
1683947 TGTATCGATACA
1 TGTATCGATACA
1683959 ACATTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1683929 original size:32 final size:32
Alignment explanation
Indices: 1683883--1683977 Score: 163
Period size: 32 Copynumber: 3.0 Consensus size: 32
1683873 TAGCTAATTA
*
1683883 TGTATCGATGCAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
1683915 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
* *
1683947 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAATACTTATGTATCGATACA
1683978 AATCGCTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:1683943 original size:19 final size:17
Alignment explanation
Indices: 1683878--1683980 Score: 87
Period size: 19 Copynumber: 6.2 Consensus size: 17
1683868 GGCAGTAGCT
*
1683878 AATTATGTATCGATGCA
1 AATTATGTATCGATACA
1683895 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
1683913 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
1683927 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
1683945 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
1683959 ACATTTATGTATCGATACA
1 A-A-TTATGTATCGATACA
1683978 AAT
1 AAT
1683981 CGCTGAAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 28
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.31
14 2 0.03
16 4 0.06
17 2 0.03
18 4 0.06
19 37 0.52
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:1688477 original size:13 final size:13
Alignment explanation
Indices: 1688459--1688483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1688449 CATAAAATGT
1688459 TGTATCGATACAA
1 TGTATCGATACAA
1688472 TGTATCGATACA
1 TGTATCGATACA
1688484 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1688565 original size:13 final size:13
Alignment explanation
Indices: 1688547--1688571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1688537 ATTACTCAAA
1688547 TGTATCGATACAT
1 TGTATCGATACAT
1688560 TGTATCGATACA
1 TGTATCGATACA
1688572 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1688673 original size:52 final size:52
Alignment explanation
Indices: 1688580--1688707 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1688570 CACTGATCTT
* *
1688580 TGTATCAATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1688631 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1688683 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1688708 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 18 0.25
52 52 0.71
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1695400 original size:7 final size:7
Alignment explanation
Indices: 1695388--1695431 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
1695378 AAAAGTAAAC
1695388 ACAAAAA
1 ACAAAAA
1695395 ACAAAAAA
1 AC-AAAAA
*
1695403 AAAAAAA
1 ACAAAAA
1695410 ACAAAAA
1 ACAAAAA
*
1695417 ACAACAA
1 ACAAAAA
1695424 ACAAAAA
1 ACAAAAA
1695431 A
1 A
1695432 AAGTGCAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:1695410 original size:15 final size:15
Alignment explanation
Indices: 1695390--1695433 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
1695380 AAGTAAACAC
1695390 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
*
1695405 AAAAAAC-AAAAAAC
1 AAAAAACAAAAAAAA
*
1695419 AACAAACAAAAAAAA
1 AAAAAACAAAAAAAA
1695434 GTGCAAAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:1695413 original size:22 final size:23
Alignment explanation
Indices: 1695388--1695433 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1695378 AAAAGTAAAC
*
1695388 ACAAAAAACAAAAAAAAAAA-AA
1 ACAAAAAACAACAAAAAAAAAAA
*
1695410 ACAAAAAACAACAAACAAAAAAA
1 ACAAAAAACAACAAAAAAAAAAA
1695433 A
1 A
1695434 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (23 bp):
ACAAAAAACAACAAAAAAAAAAA
Found at i:1695693 original size:17 final size:17
Alignment explanation
Indices: 1695671--1695710 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1695661 GTTCTTTTCT
1695671 AAAAAAGAAACAAA-ACA
1 AAAAAAGAAA-AAAGACA
1695688 AAAAAAGAAAAAAGACA
1 AAAAAAGAAAAAAGACA
1695705 AAAAAA
1 AAAAAA
1695711 AAGGAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAGACA
Found at i:1696694 original size:31 final size:31
Alignment explanation
Indices: 1696656--1696800 Score: 179
Period size: 31 Copynumber: 4.7 Consensus size: 31
1696646 ATACCTTTTT
1696656 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
1696687 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * *
1696718 AAAGTCCACGACTCAGTGAC-ATTTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCAATCTCTT-C-TC
*
1696750 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
*
1696780 AAAGTCCACGACTTAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1696801 TTTTTTCTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
30 24 0.24
31 54 0.53
32 23 0.23
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:1696803 original size:62 final size:62
Alignment explanation
Indices: 1696656--1696819 Score: 208
Period size: 62 Copynumber: 2.6 Consensus size: 62
1696646 ATACCTTTTT
* *
1696656 AAAGTCCACGACTCAGTGGCAATCTCTT-CTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATTTTTTCCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
* * *
1696718 AAAGTCCACGACTCAGTGACATTTTTTCCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCC-TCAAAGTCCACGACTCAGTGGCAATCTCTG-CTC
* * *
1696780 AAAGTCCACGACTTAGTGGCATTTTTTCTTCAAAGCCCAC
1 AAAGTCCACGACTCAGTGGCATTTTTTCCTCAAAGTCCAC
1696820 AACTTCGTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
61 17 0.19
62 51 0.57
63 21 0.24
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:1696813 original size:93 final size:93
Alignment explanation
Indices: 1696653--1696872 Score: 248
Period size: 93 Copynumber: 2.3 Consensus size: 93
1696643 CAAATACCTT
1696653 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 TTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
* * **
1696718 AAAGTCCACGAC-TCAGTGACATTTTTTCC
65 AAAGCCCACAACTTC-GTGACACCTTTTCC
* * * * *
1696747 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTTAGTGGC-ATTTTTTCTT
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-T
*
1696810 CAAAGCCCACAACTTCGTGGCACCTTTTCC
64 CAAAGCCCACAACTTCGTGACACCTTTTCC
* * * *
1696840 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGTCCACGACTCAGTGGCATC-TCTTCT
1696873 TTTAAAGCCC
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
92 7 0.07
93 69 0.65
94 28 0.26
95 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCA
AAGCCCACAACTTCGTGACACCTTTTCC
Found at i:1696882 original size:33 final size:34
Alignment explanation
Indices: 1696795--1697238 Score: 487
Period size: 33 Copynumber: 13.4 Consensus size: 34
1696785 CCACGACTTA
* *
1696795 GTGGCA-T-TTTTTC-TTCAAAGCCCACAACTTC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
*
1696826 GTGGCAC-C-TTTTCCTTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
* *
1696858 GTGGCAC-CTTCTTCTTTTAAAGCCCACAACTCT
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
* *
1696891 GTGGCACACTTTTTCTTTTTAAAGCCCACAACTCT
1 GTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCC
1696926 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACTCTTTTT--CTTTT-AAAGCCCACAACTCC
1696963 GTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCC
* *
1696997 GTGGCAC-C-----CTTTT-AAGTCCACGACTCC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
* *
1697024 GTGGCACTC-TTTTCCTTTAAAGCCCACAACTAC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
*
1697057 GTGGCACTCTTTTCCTTTT-AAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
*
1697090 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTTTTAAAGCCCACAACTCC
*
1697124 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTTTTAAAGCCCACAACTCC
*
1697158 GTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACCCC
1 GTGGCACTC-TTTTT--CTTTTAAAGCCCACAACTCC
* * * *
1697195 GTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTC
1 GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
1697228 GTGGCA-TCTTT
1 GTGGCACTCTTT
1697239 CACCCTTTCT
Statistics
Matches: 364, Mismatches: 27, Indels: 42
0.84 0.06 0.10
Matches are distributed among these distances:
27 19 0.05
28 5 0.01
29 1 0.00
31 11 0.03
32 28 0.08
33 99 0.27
34 98 0.27
35 45 0.12
36 16 0.04
37 42 0.12
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
GTGGCACTCTTTTTCTTTTAAAGCCCACAACTCC
Found at i:1696986 original size:34 final size:33
Alignment explanation
Indices: 1696802--1697238 Score: 466
Period size: 34 Copynumber: 13.1 Consensus size: 33
1696792 TTAGTGGCAT
* *
1696802 TTTTTC-TTCAAAGCCCACAACTTCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
*
1696834 -TTTTCCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
* *
1696866 TTCTTCTTTTAAAGCCCACAACTCTGTGGCACAC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
*
1696900 TTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCAC-C
1696935 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACC
1696971 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCACC
* *
1697005 -----CTTTT-AAGTCCACGACTCCGTGGCA-C
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
* *
1697031 TCTTTTCCTTTAAAGCCCACAACTACGTGGCACTC
1 T-TTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
*
1697066 TTTTCCTTTT-AAGCCCACAACTCCGTGGCACTC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
*
1697099 TTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTC
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCAC-C
*
1697133 TTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTC
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCAC-C
*
1697167 TTTTTTCCCTTTTAAAGCCCACAACCCCGTGGCACC
1 -TTTTT--CTTTTAAAGCCCACAACTCCGTGGCACC
* * * * *
1697203 TTGTTCTTTTTAAGTCCACAACTTCGTGGCATC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
1697236 TTT
1 TTT
1697239 CACCCTTTCT
Statistics
Matches: 356, Mismatches: 28, Indels: 41
0.84 0.07 0.10
Matches are distributed among these distances:
26 1 0.00
27 18 0.05
28 4 0.01
29 1 0.00
31 5 0.01
32 28 0.08
33 96 0.27
34 98 0.28
35 47 0.13
36 16 0.04
37 42 0.12
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
Found at i:1697153 original size:232 final size:228
Alignment explanation
Indices: 1696781--1697233 Score: 669
Period size: 232 Copynumber: 2.0 Consensus size: 228
1696771 TTTTGTCTCA
* * *
1696781 AAGTCCACGACTTAGTGGCATTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCCTTTAAA
1 AAGTCCACGACTCAGTGGCATTTTTCCTTCAAAGCCCACAACTACGTGGCACCTTTTCCTTTAAA
* * * *
1696846 GCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
66 GCCCACAACTCCGTGGCACCTTCTTCTTCTAAAGCCCACAACTCCGTGGCACACTTTTTCCTTCT
* * *
1696911 AAAGCCCACAACTCTGTGGCACTC-TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
131 AAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTT-AAAGCCCACAACCCCGTGGCACCTTGT
1696975 TCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
195 TCTTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
* *
1697010 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
1 AAGTCCACGACTCAGTGGCA-T-TTTTCCTTCAAAGCCCACAACTACGTGGCAC-CTTTTCCTTT
* * *
1697075 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTC
63 AAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTCTAAAGCCCACAACTCCGTGGCACACTTTTTC
1697139 CTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACCCCGTGGCACC
126 CTTCTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACCCCGTGGCACC
* *
1697203 TTGTTCTTTTTAAGTCCACAACTTCGTGGCA
191 TTGTTCTTTTTAAGCCCACAACTCCGTGGCA
1697234 TCTTTCACCC
Statistics
Matches: 201, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
229 18 0.09
230 1 0.00
231 46 0.23
232 85 0.42
233 47 0.23
234 4 0.02
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (228 bp):
AAGTCCACGACTCAGTGGCATTTTTCCTTCAAAGCCCACAACTACGTGGCACCTTTTCCTTTAAA
GCCCACAACTCCGTGGCACCTTCTTCTTCTAAAGCCCACAACTCCGTGGCACACTTTTTCCTTCT
AAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACCCCGTGGCACCTTGTT
CTTTTTAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:1697277 original size:33 final size:33
Alignment explanation
Indices: 1697240--1697412 Score: 262
Period size: 33 Copynumber: 5.2 Consensus size: 33
1697230 GGCATCTTTC
1697240 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-A
1697273 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
1697306 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTT-CTCTAAAGCCCACACAAGTCGGTGGCA
*
1697339 ATCCCTTC-CCAAAGCCCACACAAGTCGGTGGCA
1 A-CCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
1697372 ACCATTCTCTAAAACCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1697405 ACCCTTCT
1 ACCCTTCT
1697413 AAGCCCAATA
Statistics
Matches: 128, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
32 9 0.07
33 89 0.70
34 26 0.20
35 4 0.03
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1697470 original size:49 final size:49
Alignment explanation
Indices: 1697412--1697935 Score: 688
Period size: 49 Copynumber: 10.7 Consensus size: 49
1697402 GCAACCCTTC
* * *
1697412 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1697461 TAAGTCCAATATAGTTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1697509 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1697552 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
1697604 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1697653 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1697702 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
1697751 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1697799 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1697848 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1697900 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1697936 ACATCCTTTT
Statistics
Matches: 414, Mismatches: 46, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
43 40 0.10
45 1 0.00
48 83 0.20
49 206 0.50
50 3 0.01
51 2 0.00
52 79 0.19
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1697817 original size:97 final size:98
Alignment explanation
Indices: 1697412--1697994 Score: 761
Period size: 97 Copynumber: 5.9 Consensus size: 98
1697402 GCAACCCTTC
* * * * * *
1697412 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
* * *
1697477 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
1697509 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
1697568 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* *
1697604 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
*
1697669 GGCCTTGAATCAGCATATTGGCACTTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1697702 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CACCTTTAAGTCCAATATAGC
1697765 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1697799 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
*
1697864 GGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * *
1697900 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC---TTCA-C--CTTTAAGTCCAA
* * * *
1697965 TATCGTTGGCCATGAATCAACATATTGGCA
59 TATAGCTGGCCTTGAATCAGCATATTGGCA
1697995 TAGTTATCAC
Statistics
Matches: 437, Mismatches: 26, Indels: 35
0.88 0.05 0.07
Matches are distributed among these distances:
91 44 0.10
93 1 0.00
95 40 0.09
97 126 0.29
98 92 0.21
99 3 0.01
100 3 0.01
101 86 0.20
102 2 0.00
105 4 0.01
108 36 0.08
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:1697975 original size:56 final size:53
Alignment explanation
Indices: 1697549--1697983 Score: 367
Period size: 49 Copynumber: 8.6 Consensus size: 53
1697539 ACATTGGCAC
* * *
1697549 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * * *
1697601 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
1697650 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * * * *
1697699 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--TT-GCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
1697748 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
1697796 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* *
1697845 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * *
1697897 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCAT
* * * *
1697953 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1697984 ACATATTGGC
Statistics
Matches: 328, Mismatches: 40, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
48 43 0.13
49 166 0.51
50 2 0.01
52 82 0.25
53 2 0.01
54 5 0.02
56 28 0.09
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
Found at i:1698873 original size:13 final size:13
Alignment explanation
Indices: 1698855--1698879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1698845 CATAAAATGT
1698855 TGTATCGATACAA
1 TGTATCGATACAA
1698868 TGTATCGATACA
1 TGTATCGATACA
1698880 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1698961 original size:13 final size:13
Alignment explanation
Indices: 1698943--1698967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1698933 ATTACTCAAA
1698943 TGTATCGATACAT
1 TGTATCGATACAT
1698956 TGTATCGATACA
1 TGTATCGATACA
1698968 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1699069 original size:52 final size:52
Alignment explanation
Indices: 1698976--1699103 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1698966 CACTGATCTT
*
1698976 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1699027 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1699079 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1699104 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1710547 original size:786 final size:787
Alignment explanation
Indices: 1709034--1710612 Score: 2885
Period size: 786 Copynumber: 2.0 Consensus size: 787
1709024 TATTTTAAAA
*
1709034 TGATTTTTCAATATGCAGCAGTGTTGCTGCCAGTAGGAACAGAACAAAACAGGGACTGGTCTTGG
1 TGATTTTTCAATATGCAGCAGTGTTGCTACCAGTAGGAACAGAACAAAACAGGGACTGGTCTTGG
*
1709099 TTTCCTACGTGTTTACGGATTTAAACTCAAGTCATGGACATCCGAACGTCCGTGACCGAAAGGAG
66 TTTCCTACGTGTTTACAGATTTAAACTCAAGTCATGGACATCCGAACGTCCGTGACCGAAAGGAG
* *
1709164 AGAGTGGTATGAGCATCACGAACTCATTTGCACTGCCTCGGAGCAGTTTGGGATGATGAAACAGC
131 AGAGTGGTATGAGCATCACGAACTCATTTGCACTACCTCGGAGCAGTTTGAGATGATGAAACAGC
*
1709229 CCATTGATCAATACCACTCATGATTTGATACAAAACGAAGGCACAAACATTTTAAGGATGGTTGA
196 CCATTGATCAATACCACTCATGATTTGATACAAAACCAAGGCACAAACATTTTAAGGATGGTTGA
* *
1709294 AAGCCATTTTGGTTCAAAAATCAGTATTTTGGACTTGGTTCAATCATGATTCCATACCTAATTTA
261 AAGCCATTTTGGTTCAAAAATCAGTATTTTGGACTTGGTTCAATCATGATTCCAGACCGAATTTA
*
1709359 CCCCAAGAGTGATGGTTGCTTATTAAAAACTTAAATTCATGCTAATCCTTATTGCTTGATGTTAG
326 CCCCAAGAGTGATGGTTGCTTATTAAAAACTTAAATTCATGCTAATCCTTATTGCTTGAGGTTAG
* *
1709424 CTTGAACATAACTTGGGGAGGTGTTTGAAAATTTGTTTTGATGCAAACAAACATGTATTTTTGAT
391 CTTGAACATAACTTGGGGAGGTGGTTCAAAATTTGTTTTGATGCAAACAAACATGTATTTTTGAT
*
1709489 AAGAAAAAATGGATGCTCATGCAAGAATAGGATGAACAACATTCATGGAGGTGCTGAACATGCTG
456 AAGAAAAAATGGATGCTCATGCAAGAACAGGATGAACAACATTCATGGAGGTGCTGAACATGCTG
*
1709554 TAAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATAT
521 TAAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATAGAGATGAATAT
*
1709619 GGCATTTTAGGCACACAGATGACTTCAAATCATCAAAATCATCACAATAATCCTAAAACTACCAC
586 GGCATTTTAGGCACACAAATGACTTCAAATCATCAAAATCATCACAATAATCCTAAAACTACCAC
1709684 ATCCAAAGCCAAAATCATGCATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTAAA
651 ATCCAAAGCCAAAATCATGCATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTAAA
1709749 ATGATGATAATATATGAGCAGAAAAATAAAAAGTGTCAAAGTGCAAAAAATATACCAAACAAACC
716 ATGATGATAATATATGAGCAGAAAAATAAAAAGTGTCAAAGTGCAAAAAATATACCAAACAAACC
1709814 ACTATGC
781 ACTATGC
*
1709821 TGATTTTTCAATATGCAGTAGTGTTGCTACCAGTAGGAACAGAACAAAACAGGGACTGGTCTTGG
1 TGATTTTTCAATATGCAGCAGTGTTGCTACCAGTAGGAACAGAACAAAACAGGGACTGGTCTTGG
*
1709886 TTTCCTGCGTGTTTACAGATTTAAACTCAAGTCATGGACATCCGAACGTCCGTGACCGAAAGGAG
66 TTTCCTACGTGTTTACAGATTTAAACTCAAGTCATGGACATCCGAACGTCCGTGACCGAAAGGAG
* *
1709951 AGAGTGGTATGAGCATCACGAACTCATTTGCACTACCTTGGAGTAGTTTGAGATGATGAAACAGC
131 AGAGTGGTATGAGCATCACGAACTCATTTGCACTACCTCGGAGCAGTTTGAGATGATGAAACAGC
1710016 CCATTGATCAATACCACTCATGATTTGATACAAAACCAAGGCACAAACATTTTAAGGATGGTTGA
196 CCATTGATCAATACCACTCATGATTTGATACAAAACCAAGGCACAAACATTTTAAGGATGGTTGA
* *
1710081 AAGCCATTTT-GTTCAAAAGTCAGTATTTTGGACTTGGCTT-AATCATGATTCCAGACCGGATTT
261 AAGCCATTTTGGTTCAAAAATCAGTATTTTGGACTTGG-TTCAATCATGATTCCAGACCGAATTT
*
1710144 TCCCCAAGAGT-ATTGGTTGCTTATTAAAAACTTAAATTCATGCTAATCCTTATTGCTTGAGGTT
325 ACCCCAAGAGTGA-TGGTTGCTTATTAAAAACTTAAATTCATGCTAATCCTTATTGCTTGAGGTT
*
1710208 AGCTTGAACTTAACTTGGGGAGGTGGTTCAAAATTTGTTTTGATGCAAACAAACATGTATTTTTG
389 AGCTTGAACATAACTTGGGGAGGTGGTTCAAAATTTGTTTTGATGCAAACAAACATGTATTTTTG
1710273 ATAAGAAAAAATGGATGCTCATGCAAGAACAGGATGAACAACATTCATGGAGGTGCTGAACATGC
454 ATAAGAAAAAATGGATGCTCATGCAAGAACAGGATGAACAACATTCATGGAGGTGCTGAACATGC
* *
1710338 TGTAAATGTATGAAACATAGCTCAAAATGCATGAATCATGGTCTGTTAACATGATAGAGATGAAT
519 TGTAAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATAGAGATGAAT
1710403 ATGGCATTTTAGGCACACAAATGACTTCAAATCATCAAAATCATCACAATAATCCTAAAACTACC
584 ATGGCATTTTAGGCACACAAATGACTTCAAATCATCAAAATCATCACAATAATCCTAAAACTACC
* *
1710468 ACATCCAAAGCCACAATCATGCATTATGATCCTAGGAAGGTGATGGAAACATGTTAGGATCACTA
649 ACATCCAAAGCCAAAATCATGCATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTA
*
1710533 AAATGATGATAATATATGAGCAGAAAAATAAAAAGTGTCAAAGTGCAGAAAATATACCAAACAAA
714 AAATGATGATAATATATGAGCAGAAAAATAAAAAGTGTCAAAGTGCAAAAAATATACCAAACAAA
1710598 CCACTATGC
779 CCACTATGC
1710607 TGATTT
1 TGATTT
1710613 GCTGGTTTGG
Statistics
Matches: 764, Mismatches: 26, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
785 1 0.00
786 500 0.65
787 263 0.34
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (787 bp):
TGATTTTTCAATATGCAGCAGTGTTGCTACCAGTAGGAACAGAACAAAACAGGGACTGGTCTTGG
TTTCCTACGTGTTTACAGATTTAAACTCAAGTCATGGACATCCGAACGTCCGTGACCGAAAGGAG
AGAGTGGTATGAGCATCACGAACTCATTTGCACTACCTCGGAGCAGTTTGAGATGATGAAACAGC
CCATTGATCAATACCACTCATGATTTGATACAAAACCAAGGCACAAACATTTTAAGGATGGTTGA
AAGCCATTTTGGTTCAAAAATCAGTATTTTGGACTTGGTTCAATCATGATTCCAGACCGAATTTA
CCCCAAGAGTGATGGTTGCTTATTAAAAACTTAAATTCATGCTAATCCTTATTGCTTGAGGTTAG
CTTGAACATAACTTGGGGAGGTGGTTCAAAATTTGTTTTGATGCAAACAAACATGTATTTTTGAT
AAGAAAAAATGGATGCTCATGCAAGAACAGGATGAACAACATTCATGGAGGTGCTGAACATGCTG
TAAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATAGAGATGAATAT
GGCATTTTAGGCACACAAATGACTTCAAATCATCAAAATCATCACAATAATCCTAAAACTACCAC
ATCCAAAGCCAAAATCATGCATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTAAA
ATGATGATAATATATGAGCAGAAAAATAAAAAGTGTCAAAGTGCAAAAAATATACCAAACAAACC
ACTATGC
Found at i:1711426 original size:52 final size:52
Alignment explanation
Indices: 1711226--1711406 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
1711216 CGAAATATGA
*
1711226 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1711278 AAATTTGCCTGTATGTATCGATATATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1711330 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1711382 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1711407 AAGATCAGTG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1711518 original size:19 final size:17
Alignment explanation
Indices: 1711494--1711588 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 17
1711484 CAATACATTA
1711494 TATCGATACAAAACTTATG
1 TATCGATAC-AAAC-TATG
1711513 TATCGATAC--A-T-TG
1 TATCGATACAAACTATG
1711526 TATCGATACAACACATATG
1 TATCGATACAA-AC-TATG
1711545 TATCGATAC--A-T-TG
1 TATCGATACAAACTATG
1711558 TATCGATACAACACTTATG
1 TATCGATACAA-AC-TATG
1711577 TATCGATACAAA
1 TATCGATACAAA
1711589 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 25
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 3 0.05
19 33 0.52
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (17 bp):
TATCGATACAAACTATG
Found at i:1711529 original size:13 final size:13
Alignment explanation
Indices: 1711511--1711567 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1711501 ACAAAACTTA
1711511 TGTATCGATACAT
1 TGTATCGATACAT
1711524 TGTATCGATACAACACAT
1 TGTATCGAT-----ACAT
1711542 ATGTATCGATACAT
1 -TGTATCGATACAT
1711556 TGTATCGATACA
1 TGTATCGATACA
1711568 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 4 0.11
18 4 0.11
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1711530 original size:32 final size:32
Alignment explanation
Indices: 1711486--1711586 Score: 175
Period size: 32 Copynumber: 3.2 Consensus size: 32
1711476 CTTCGTAGCA
* *
1711486 ATACATTATATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
*
1711518 ATACATTGTATCGATACAACACATATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
1711550 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
1711582 ATACA
1 ATACA
1711587 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:1712440 original size:49 final size:49
Alignment explanation
Indices: 1712384--1713245 Score: 773
Period size: 49 Copynumber: 18.2 Consensus size: 49
1712374 AGTGATATTA
* *
1712384 GACTTAAAGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1712433 GACTTAAAGATGACAAAGGCGCCAACATCCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * ** *
1712485 GACATAAAGATGAAGGTGCCGATGCGTTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * *
1712534 GACTTAAAGATGACAAAGGCGCCAACATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1712586 GACTGAAAG----A-GTGCCGATGTGTTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * ** *
1712630 GACTTAAAGATGACAAAGGCGCCAACATGCTGATTCAAGGCCAGCGATGTTA
1 GACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1712682 GACTTAAAGATGAAGGTGCCGATGTGCTGATTCAAGGACAGCGACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * *
1712731 GACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
1712783 GA-TT-----TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1712826 GTCTTAAAGATGACA-GTGCCAATATGCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1712875 GAC-T-----TAAAGGTGCTAATGTGCTGATTCAAGGCTAGCTACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
1712918 GACTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
1712967 GAC-T-----TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTA
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * **
1713010 GACTT---G---GAGGTGCCAATGTGCTGATTCAAGGCCAGCGATTTTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * *
1713053 GAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
1713096 GACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
1713145 GAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
1713188 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
1713237 GACTTAAAG
1 GACTTAAAG
1713246 GAAGATGCCA
Statistics
Matches: 656, Mismatches: 110, Indels: 94
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.00
43 210 0.32
44 42 0.06
45 1 0.00
46 1 0.00
48 3 0.00
49 241 0.37
50 2 0.00
51 3 0.00
52 150 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (49 bp):
GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
Found at i:1712442 original size:43 final size:43
Alignment explanation
Indices: 1712394--1713245 Score: 547
Period size: 43 Copynumber: 18.1 Consensus size: 43
1712384 GACTTAAAGA
*
1712394 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
1712437 TAAAGATGACAAAGGCGCCAACATCCTGATTCAAGGCCAGCGATATTGGACA
1 TAAAGAT---------GCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
1712489 TAAAGATG--AAGGTGCCGATGCGTTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGATGCCAA--T----ATGC--TGATTCAAGGCCAGCGACATTGGACT
* *
1712538 TAAAGATGACAAAGGCGCCAACATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGAT---------GCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
1712590 GAAAGAGTGCCGATGTGTTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGA-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* ** *
1712634 TAAAGATGACAAAGGCGCCAACATGCTGATTCAAGGCCAGCGATGTTAGACT
1 TAAAGAT---------GCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1712686 TAAAGATGAAGGTGCCGATGTGCTGATTCAAGGACAGCGACATTGGACT
1 T-AA-A-G-A--TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1712735 TAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGATT
1 TAAAGAT---------GCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
1712787 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
1712830 TAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACT
1 T-AA-A-G--A-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * * * *
1712879 TAAAGGTGCTAATGTGCTGATTCAAGGCTAGCTACATTGGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
1712922 TAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
1 TAAAG----A--TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1712971 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
** * * **
1713014 TGGAGGTGCCAATGTGCTGATTCAAGGCCAGCGATTTTGGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
1713057 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
1713100 TAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACT
1 T--AAA-G-A--TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1713149 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
1713192 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
1 TAAAG----A--TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
1713241 TAAAG
1 TAAAG
1713246 GAAGATGCCA
Statistics
Matches: 639, Mismatches: 93, Indels: 148
0.73 0.11 0.17
Matches are distributed among these distances:
41 2 0.00
43 223 0.35
44 38 0.06
45 5 0.01
46 5 0.01
47 8 0.01
48 5 0.01
49 204 0.32
52 135 0.21
53 3 0.00
54 5 0.01
55 1 0.00
56 1 0.00
58 2 0.00
60 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
Found at i:1712893 original size:92 final size:93
Alignment explanation
Indices: 1712394--1713246 Score: 1062
Period size: 92 Copynumber: 9.1 Consensus size: 93
1712384 GACTTAAAGA
* * *
1712394 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAAC
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC--AGGTGCCAAT
*
1712459 ATCCTGATTCAAGGCCAGCGATATTGGACAT
64 ATGCTGATTCAAGGCCAGCGATATTGGAC-T
* * * * *
1712490 AAAGATGAAGGTGCCGATGCGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCG
1 -----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC--AGGTG
*
1712555 CCAACATGCTGATTCAAGGCCAGCGATATTGGACT
59 CCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * *
1712590 GAAAGAGTGCCGATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAA
1 TAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC--AGGTGCCAA
* * *
1712655 CATGCTGATTCAAGGCCAGCGATGTTAGACT
63 TATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
1712686 TAAAGATGAAGGTGCCGATGTGCTGATTCAAGGACAGCGACATTGGACTTAAAGATGACAAAGGC
1 T----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC--AGGT
* *
1712751 GCCAATATGCTGATTCAAGGCCAACGATATTGGATT
58 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* *
1712787 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACA-GTGCCAATAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
*
1712851 GCTGATTCAAGGCCAACGATATTGGACT
66 GCTGATTCAAGGCCAGCGATATTGGACT
* * * *
1712879 TAAAGGTGCTAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
*
1712943 GCTAATTCAAGGCCAGCGATATTGGACT
66 GCTGATTCAAGGCCAGCGATATTGGACT
* * * *
1712971 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTT---G--G--AGGTGCCAATGT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
*
1713029 GCTGATTCAAGGCCAGCGATTTTGGACT
66 GCTGATTCAAGGCCAGCGATATTGGACT
* * *
1713057 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAAATGA-AGGTGCCAATAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
*
1713121 GCTGATTCAAGGCCAACGATATTGGACT
66 GCTGATTCAAGGCCAGCGATATTGGACT
* *
1713149 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
*
1713213 GCTGATTCAAGGCCAGCTATATTGGACT
66 GCTGATTCAAGGCCAGCGATATTGGACT
1713241 TAAAGG
1 TAAAGG
1713247 AAGATGCCAG
Statistics
Matches: 685, Mismatches: 51, Indels: 41
0.88 0.07 0.05
Matches are distributed among these distances:
86 78 0.11
89 1 0.00
91 4 0.01
92 286 0.42
93 1 0.00
95 50 0.07
96 87 0.13
97 1 0.00
100 2 0.00
101 172 0.25
102 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (93 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAGGTGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACT
Found at i:1713239 original size:270 final size:273
Alignment explanation
Indices: 1712394--1713246 Score: 1021
Period size: 270 Copynumber: 3.0 Consensus size: 273
1712384 GACTTAAAGA
* * * * *
1712394 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAAC
1 TAAAGGTGCCAATATGCTGATTCAAGGACAGCGACATTAGACTT--AGA-G---AAGGCGCCAAT
* * * * * *
1712459 ATCCTGATTCAAGGCCAGCGATATTGGACATAAAGATGAAGGTGCCGATGCGTTGATTCAAGGCC
60 ATGCTGATTCAAGGCCAACGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
1712524 AGCGACATTGGACTTAAAGATGACAAAGGCGCCAACATGCTGATTCAAGGCCAGCGATATTGGAC
119 AGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC
* * * * *
1712589 TGAAAGAGTGCCGATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCA
181 TTAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCA
* * *
1712654 ACATGCTGATTCAAGGCCAGCGATGTTAGACT
242 ATATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
1712686 TAAAGATGAAGGTGCCGATGTGCTGATTCAAGGACAGCGACATTGGACTTAAAGATGACAAAGGC
1 T----A--AAGGTGCCAATATGCTGATTCAAGGACAGCGACATTAGACTT--AGA-G---AAGGC
* *
1712751 GCCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAAGATGCCAATGTGCTGATTCAAGGCC
54 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
*
1712816 AGCGACATTGGTCTTAAAGATGACA-GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
119 AGCGACATTGGACTTAAAGATGA-AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
* *
1712880 AAAGGTGCTAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
183 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
1712945 TAATTCAAGGCCAGCGATATTGGACT
248 TGATTCAAGGCCAGCGATATTGGACT
* * * *
1712971 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTT-G-G-AGGTGCCAATGTGCTG
1 TAAAGGTGCCAATATGCTGATTCAAGGACAGCGACATTAGACTTAGAGAAGGCGCCAATATGCTG
* * * *
1713033 ATTCAAGGCCAGCGATTTTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGA
66 ATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
*
1713098 CTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATG
131 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATG
1713163 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
196 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
*
1713228 GCTATATTGGACT
261 GCGATATTGGACT
1713241 TAAAGG
1 TAAAGG
1713247 AAGATGCCAG
Statistics
Matches: 507, Mismatches: 46, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
269 1 0.00
270 214 0.42
274 1 0.00
276 1 0.00
279 37 0.07
281 1 0.00
285 38 0.07
288 40 0.08
289 40 0.08
290 1 0.00
292 46 0.09
296 1 0.00
297 1 0.00
298 85 0.17
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (273 bp):
TAAAGGTGCCAATATGCTGATTCAAGGACAGCGACATTAGACTTAGAGAAGGCGCCAATATGCTG
ATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATG
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACT
Found at i:1713385 original size:34 final size:34
Alignment explanation
Indices: 1713259--1713403 Score: 151
Period size: 32 Copynumber: 4.4 Consensus size: 34
1713249 GATGCCAGCA
1713259 ACTTGTGTGGGCTTTTG-AAGAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAAGAAGGTTGCCACCG
* *
1713292 ACTTGTGTGGGC-TTT-AGAG-GGGATTGCCA-CG
1 ACTTGTGTGGGCTTTTGAAAGAAGG-TTGCCACCG
* * *
1713323 AAGTTGTGTCGG-TTTTGAAA-AGGGTTGCCACCG
1 -ACTTGTGTGGGCTTTTGAAAGAAGGTTGCCACCG
* *
1713356 ACTTGTGTGGGCTTTGGAAAGAAGGTTGCCATCG
1 ACTTGTGTGGGCTTTTGAAAGAAGGTTGCCACCG
*
1713390 ACTTGTGTAGGCTT
1 ACTTGTGTGGGCTT
1713404 AAAAGGGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
31 4 0.04
32 38 0.41
33 26 0.28
34 24 0.26
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (34 bp):
ACTTGTGTGGGCTTTTGAAAGAAGGTTGCCACCG
Found at i:1713437 original size:34 final size:32
Alignment explanation
Indices: 1713401--1713614 Score: 188
Period size: 33 Copynumber: 6.6 Consensus size: 32
1713391 CTTGTGTAGG
* *
1713401 CTTAAAAGGGAAAAAAGTGCCACGGAGGTGTGGG
1 CTTAAAA-GG-AAAAAGTGCCACAGAGGTGTGGA
*
1713435 CTTAAAAGGGAAAAAGAGTGCCAC-GAAGTCGTGGA
1 CTTAAAA-GG-AAAA-AGTGCCACAGAGGT-GTGGA
* * * *
1713470 CTTAAAAAGAAAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAAAAAGTGCCACAGAGGTGTGGA
*
1713502 CTTTAAAAGGAAAAAGATGCCACAGAGTTGTGGA
1 C-TTAAAAGGAAAAAG-TGCCACAGAGGTGTGGA
* * *
1713536 CTTAAAAGGAAAAGGATGCCACAGAGTTGTGGG
1 CTTAAAAGGAAAAAG-TGCCACAGAGGTGTGGA
*
1713569 CTTAAAAGG-----GTGCCACAGAGTTGTGGA
1 CTTAAAAGGAAAAAGTGCCACAGAGGTGTGGA
1713596 CTTAAAAGGAAAAGAGTGC
1 CTTAAAAGGAAAA-AGTGC
1713615 GACGGAGTTG
Statistics
Matches: 157, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
27 25 0.16
28 1 0.01
32 13 0.08
33 62 0.39
34 37 0.24
35 19 0.12
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.18
Consensus pattern (32 bp):
CTTAAAAGGAAAAAGTGCCACAGAGGTGTGGA
Found at i:1713583 original size:27 final size:27
Alignment explanation
Indices: 1713512--1713605 Score: 107
Period size: 27 Copynumber: 3.3 Consensus size: 27
1713502 CTTTAAAAGG
*
1713512 AAAAAGATGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
*
1713539 AAAAGGAAAAGGATGCCACAGAGTTGTGGGCTT
1 ------AAAAGGATGCCACAGAGTTGTGGACTT
*
1713572 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
1713599 AAAAGGA
1 AAAAGGA
1713606 AAAGAGTGCG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 31 0.55
33 25 0.45
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (27 bp):
AAAAGGATGCCACAGAGTTGTGGACTT
Found at i:1713586 original size:60 final size:60
Alignment explanation
Indices: 1713519--1713631 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
1713509 AGGAAAAAGA
1713519 TGCCACAGAGTTGTGGACTTAAAAGGAAAAG-GATGCCACAGAGTTGTGGGCTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAG-TGCCACAGAGTTGTGGGCTTAAAAGGG
* *
1713579 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCGACGGAGTTGTGGGCTT
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACAGAGTTGTGGGCTT
1713632 TGCAGAAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (60 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGG
Found at i:1713751 original size:94 final size:93
Alignment explanation
Indices: 1713624--1713887 Score: 311
Period size: 94 Copynumber: 2.8 Consensus size: 93
1713614 CGACGGAGTT
* * *
1713624 GTGGGCTTTGCAGAAAAGGATGCCACTAAGTCGTGGACTTTAAGACAAAAGATGCCACTGAGTCG
1 GTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTAAGA-AAAAGATGCCACTGAGTCG
1713689 TGGACTTTGAAGA-AAAGGATGCCACTAAGTC
64 TGGACTTTGAAGACAAA--ATGCCACTAAGTC
* * *
1713720 GTGGACTTTG-AGACAAA-ATGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTTG
1 GTGGACTTTGAAGA-AAAGATGCCACTGAGTCGTGGACTTT-AAGAAAAAGATGCCACTGAGTCG
** *
1713783 TGGACTTTG-AGACAAAATGCCTTTGAGTC
64 TGGACTTTGAAGACAAAATGCCACTAAGTC
* *
1713812 GTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGGAAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTAAGAA--AAAGATGCCACTGAGTC
*
1713877 GTGGGCTTTGA
63 GTGGACTTTGA
1713888 GAAGAGATTT
Statistics
Matches: 145, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
92 22 0.15
93 10 0.07
94 70 0.48
95 31 0.21
96 12 0.08
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (93 bp):
GTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTAAGAAAAAGATGCCACTGAGTCGTG
GACTTTGAAGACAAAATGCCACTAAGTC
Found at i:1713772 original size:62 final size:63
Alignment explanation
Indices: 1713619--1713887 Score: 407
Period size: 62 Copynumber: 4.3 Consensus size: 63
1713609 GAGTGCGACG
* * *
1713619 GAGTTGTGGGCTTTGCAGAAAAGGATGCCACTAAGTCGTGGACTTTAAGACAAAAGATGCCACT
1 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAC-AAAGATGCCACT
*
1713683 GAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAA-ATGCCACT
1 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAGATGCCACT
* * **
1713745 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTTGTGGACTTTGAGACAAA-ATGCCTTT
1 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAGATGCCACT
* *
1713807 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGGAAAGATGCCACT
1 GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAG-A-CAAAGATGCCACT
1713872 GAGTCGTGGGCTTTGA
1 GAGTCGTGGGCTTTGA
1713888 GAAGAGATTT
Statistics
Matches: 189, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
62 113 0.60
63 4 0.02
64 50 0.26
65 22 0.12
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (63 bp):
GAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAGATGCCACT
Found at i:1713791 original size:32 final size:32
Alignment explanation
Indices: 1713444--1713887 Score: 353
Period size: 32 Copynumber: 14.0 Consensus size: 32
1713434 GCTTAAAAGG
* **
1713444 GAAAAAGAGTGCCAC-GAAGTCGTGGACTTAAAAA
1 GAAAAGGA-TGCCACTG-AGTCGTGGACTT-TGAA
* * *
1713478 GAAAAGG-TGCCACGGAGTTGTGGACTTTAAAA
1 GAAAAGGATGCCACTGAGTCGTGGACTTT-GAA
* * * **
1713510 GGAAAAAGATGCCACAGAGTTGTGGACTTAAAA
1 -GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
* * *
1713543 GGAAAAGGATGCCACAGAGTTGTGGGC-TT---
1 -GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
* * * **
1713572 -AAAAGGGTGCCACAGAGTTGTGGACTTAAAA
1 GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
* * * * *
1713603 GGAAAA-GAGTGCGACGGAGTTGTGGGCTTTGCA
1 -GAAAAGGA-TGCCACTGAGTCGTGGACTTTGAA
*
1713636 GAAAAGGATGCCACTAAGTCGTGGACTTT-AA
1 GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
*
1713667 GACAAAAGATGCCACTGAGTCGTGGACTTTGAA
1 GA-AAAGGATGCCACTGAGTCGTGGACTTTGAA
*
1713700 GAAAAGGATGCCACTAAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
*
1713731 GACAAA--ATGCCACTGAGTCGTGGGCTTTGAA
1 GA-AAAGGATGCCACTGAGTCGTGGACTTTGAA
*
1713762 GAAAAGGATGCCACTGAGTTGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
** *
1713793 GACAAA--ATGCCTTTGAGTCGTGGGCTTTGAA
1 GA-AAAGGATGCCACTGAGTCGTGGACTTTGAA
1713824 GAAAAGGATGCCACTGAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
* *
1713855 GAAGGAAAGATGCCACTGAGTCGTGGGCTTTGA
1 GAA--AAGGATGCCACTGAGTCGTGGACTTTGA
1713888 GAAGAGATTT
Statistics
Matches: 343, Mismatches: 42, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
27 23 0.07
28 1 0.00
30 46 0.13
31 19 0.06
32 141 0.41
33 88 0.26
34 25 0.07
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (32 bp):
GAAAAGGATGCCACTGAGTCGTGGACTTTGAA
Found at i:1715099 original size:15 final size:13
Alignment explanation
Indices: 1715081--1715143 Score: 72
Period size: 13 Copynumber: 4.7 Consensus size: 13
1715071 CCTTTGCACA
* *
1715081 TTTTTTTGTGTGT
1 TTTTTTTTTTTGT
*
1715094 TTTTTTGTTTTGTT
1 TTTTTTTTTTTG-T
1715108 TTTTTTTGTTTTGT
1 TTTTTTT-TTTTGT
*
1715122 TTGTTTTTTTTGT
1 TTTTTTTTTTTGT
1715135 TTTTTTTTT
1 TTTTTTTTT
1715144 ACTTTTGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 23 0.55
14 14 0.33
15 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:1715106 original size:5 final size:5
Alignment explanation
Indices: 1715096--1715141 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
1715086 TTGTGTGTTT
*
1715096 TTTTG TTTTG TTTTT TTTTG TTTTG -TTTG TTTT- TTTTG TTTT- TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1715142 TTACTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
4 12 0.32
5 25 0.68
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (5 bp):
TTTTG
Found at i:1715113 original size:9 final size:9
Alignment explanation
Indices: 1715081--1715141 Score: 70
Period size: 9 Copynumber: 6.8 Consensus size: 9
1715071 CCTTTGCACA
1715081 TTTTTTTGT
1 TTTTTTTGT
* *
1715090 GTGTTTT-T
1 TTTTTTTGT
*
1715098 TTGTTTTGTT
1 TTTTTTTG-T
1715108 TTTTTTTGT
1 TTTTTTTGT
*
1715117 TTTGTTTGT
1 TTTTTTTGT
1715126 TTTTTTTGT
1 TTTTTTTGT
1715135 TTTTTTT
1 TTTTTTT
1715142 TTACTTTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
8 7 0.16
9 29 0.66
10 8 0.18
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:1715113 original size:28 final size:28
Alignment explanation
Indices: 1715081--1715142 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
1715071 CCTTTGCACA
1715081 TTTTTTTG-TGTGTTT-TTTTGTTTTGTT
1 TTTTTTTGTTGTGTTTGTTTT-TTTTGTT
*
1715108 TTTTTTTGTTTTGTTTGTTTTTTTTGTT
1 TTTTTTTGTTGTGTTTGTTTTTTTTGTT
1715136 TTTTTTT
1 TTTTTTT
1715143 TACTTTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 8 0.25
28 20 0.62
29 4 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (28 bp):
TTTTTTTGTTGTGTTTGTTTTTTTTGTT
Found at i:1715127 original size:32 final size:33
Alignment explanation
Indices: 1715084--1715161 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
1715074 TTGCACATTT
1715084 TTTTGTGTGTTTTTTTGTTTTGTTTTT-TTTTG
1 TTTTGTGTGTTTTTTTGTTTTGTTTTTATTTTG
* *
1715116 TTTTGTTTGTTTTTTTTGTTTTTTTTTTACTTTTG
1 TTTTGTGTG-TTTTTTTGTTTTGTTTTTA-TTTTG
1715151 -TTTGTGTGTTT
1 TTTTGTGTGTTT
1715162 ACTTTTGACT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 8 0.20
33 20 0.50
34 7 0.17
35 5 0.12
ACGTcount: A:0.01, C:0.01, G:0.17, T:0.81
Consensus pattern (33 bp):
TTTTGTGTGTTTTTTTGTTTTGTTTTTATTTTG
Done.