Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 96 of 235
Found at i:33188088 original size:42 final size:44
Alignment explanation
Indices: 33187993--33188093 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 44
33187983 TGCGATCCTA
* *
33187993 TGTAAGACCATGTTTGGGACATGGCATTAGCATCAATATGTGATTTCG
1 TGTAAGACCATGTTTGGGACATGG----AGCATCAATATGAGACTTCG
* *
33188041 CGTAAGACCATGTTTGGGACAT-G-GCATCGATATGAGACTTCG
1 TGTAAGACCATGTTTGGGACATGGAGCATCAATATGAGACTTCG
33188083 TGTAAGACCAT
1 TGTAAGACCAT
33188094 AGCTAGGCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 26 0.54
47 1 0.02
48 21 0.44
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TGTAAGACCATGTTTGGGACATGGAGCATCAATATGAGACTTCG
Found at i:33188133 original size:37 final size:37
Alignment explanation
Indices: 33188083--33188201 Score: 124
Period size: 37 Copynumber: 3.4 Consensus size: 37
33188073 TGAGACTTCG
33188083 TGTAAGACCATAGCTAGGCCATGGCATTGTGATGA-CA
1 TGTAAGACCATAGCTAGGCCATGGCATTGTGAT-ATCA
* * * *
33188120 TGTAAGACCATAGCTGGGCTATTGCATTGTGATATGA
1 TGTAAGACCATAGCTAGGCCATGGCATTGTGATATCA
* * *
33188157 -GTAAGACCATAG-TTGGAC-T-GCATTGTGATATGA
1 TGTAAGACCATAGCTAGGCCATGGCATTGTGATATCA
33188190 -GTAAGACCATAG
1 TGTAAGACCATAG
33188202 TTGGACTATG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
33 26 0.35
34 1 0.01
35 3 0.04
36 13 0.18
37 31 0.42
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCCATGGCATTGTGATATCA
Found at i:33188184 original size:33 final size:33
Alignment explanation
Indices: 33188142--33188208 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
33188132 GCTGGGCTAT
33188142 TGCATTGTGATATGAGTAAGACCATAGTTGGAC
1 TGCATTGTGATATGAGTAAGACCATAGTTGGAC
33188175 TGCATTGTGATATGAGTAAGACCATAGTTGGAC
1 TGCATTGTGATATGAGTAAGACCATAGTTGGAC
33188208 T
1 T
33188209 ATGGCATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (33 bp):
TGCATTGTGATATGAGTAAGACCATAGTTGGAC
Found at i:33188883 original size:43 final size:42
Alignment explanation
Indices: 33188821--33188917 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 42
33188811 CTGAGGTTCT
*
33188821 GTATAAGACCATCTATGGGATATGACATCGGTATATGATTTTC
1 GTATAAGACCATATATGGGATATGACATCGGTATATGA-TTTC
* * * *
33188864 GTATAAGACCATATCTGGGATATGGCATTGGTATGTGATTTC
1 GTATAAGACCATATATGGGATATGACATCGGTATATGATTTC
33188906 GTATAAGACCAT
1 GTATAAGACCAT
33188918 GTCAGGAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 16 0.33
43 33 0.67
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (42 bp):
GTATAAGACCATATATGGGATATGACATCGGTATATGATTTC
Found at i:33188947 original size:42 final size:42
Alignment explanation
Indices: 33188853--33188962 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
33188843 TGACATCGGT
* * *
33188853 ATATGAT-TTTCGTATAAGACCATATCTGGGATATGGCATTG
1 ATATGATATTTCGTATAAGACCATATCAGGAACATGGCATTG
* * *
33188894 GTATG-TGATTTCGTATAAGACCATGTCAGGAACATGGCGTTG
1 ATATGAT-ATTTCGTATAAGACCATATCAGGAACATGGCATTG
* * *
33188936 ATATGATATTTCATGTAAGACTATATC
1 ATATGATATTTCGTATAAGACCATATC
33188963 CAAGATATGG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
40 1 0.02
41 4 0.07
42 49 0.89
43 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
ATATGATATTTCGTATAAGACCATATCAGGAACATGGCATTG
Found at i:33191211 original size:59 final size:59
Alignment explanation
Indices: 33191119--33191233 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
33191109 CCCATAGGTT
*
33191119 AAATTTGAGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTATGTTAGACTG
1 AAATTTGAGTATTTTGATGTTTTATGATAGAATACGAAGTTTTAAATTATGTTAGACTG
*
33191178 AAATTTGTGTATTTTGATGTTTTATGATAGAATACGAAGTTTTAAATTATGTTAGA
1 AAATTTGAGTATTTTGATGTTTTATGATAGAATACGAAGTTTTAAATTATGTTAGA
33191234 AAACTTGTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (59 bp):
AAATTTGAGTATTTTGATGTTTTATGATAGAATACGAAGTTTTAAATTATGTTAGACTG
Found at i:33191935 original size:46 final size:46
Alignment explanation
Indices: 33191885--33192060 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
33191875 TGGTTGAGCA
33191885 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33191931 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
33191976 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33192024 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33192061 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33192041 original size:93 final size:93
Alignment explanation
Indices: 33191882--33192053 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33191872 GGATGGTTGA
* * *
33191882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAACGCCCGAGCTCGTTGAGT
33191947 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
33191975 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAACGCCCGAGCTCGTTGAGT
33192040 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33192054 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33199511 original size:46 final size:46
Alignment explanation
Indices: 33199461--33199636 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33199451 TGGTTGAGCA
33199461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33199507 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33199552 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33199600 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33199637 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33199617 original size:93 final size:93
Alignment explanation
Indices: 33199458--33199629 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33199448 GGATGGTTGA
* *
33199458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33199523 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33199551 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33199616 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33199630 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33207095 original size:46 final size:46
Alignment explanation
Indices: 33207040--33207167 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
33207030 GGTTGAGCAT
* *
33207040 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
33207086 CTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
33207132 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33207168 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:33209294 original size:20 final size:20
Alignment explanation
Indices: 33209268--33209316 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
33209258 TTGAAAACAC
*
33209268 ATTAAATTTAGCTAAGACCA
1 ATTAAATTCAGCTAAGACCA
* *
33209288 CTTAAATTCGGCTAAGACCA
1 ATTAAATTCAGCTAAGACCA
33209308 ATT-AATTCA
1 ATTAAATTCA
33209317 AAACATGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTAAATTCAGCTAAGACCA
Found at i:33214078 original size:54 final size:54
Alignment explanation
Indices: 33214031--33214279 Score: 354
Period size: 54 Copynumber: 4.6 Consensus size: 54
33214021 ATTACCAAAG
* *
33214031 TACCATCGATTTACAGAATTACTATTTTATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTT
* *
33214085 TACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTT
* ** ** * *
33214139 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTT
**
33214193 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTT
* **
33214247 TACCCTCGATTTATAGAATTACCGTTTTACCCT
1 TACCCTCGATTTACAGAATTACTATTTTACCCT
33214280 TGATTTTTAA
Statistics
Matches: 172, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 172 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTT
Found at i:33214285 original size:81 final size:81
Alignment explanation
Indices: 33214031--33214285 Score: 366
Period size: 81 Copynumber: 3.1 Consensus size: 81
33214021 ATTACCAAAG
* *
33214031 TACCATCGATTTACAGAATTACTATTTTATCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
*
33214096 TATAGAATTACTATTT
66 TATAGAATTACTGTTT
* * ** * * *
33214112 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
* *
33214177 TACAAAATTACTGTTT
66 TATAGAATTACTGTTT
**
33214193 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
*
33214258 TATAGAATTACCGTTT
66 TATAGAATTACTGTTT
*
33214274 TACCCTTGATTT
1 TACCCTCGATTT
33214286 TTAAAATTAC
Statistics
Matches: 149, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 149 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
TATAGAATTACTGTTT
Found at i:33214302 original size:27 final size:27
Alignment explanation
Indices: 33214031--33214285 Score: 321
Period size: 27 Copynumber: 9.4 Consensus size: 27
33214021 ATTACCAAAG
* **
33214031 TACCATCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
33214058 TATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
33214085 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
33214112 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
33214139 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
33214166 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
33214193 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
33214220 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
33214247 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
33214274 TACCCTTGATTT
1 TACCCTCGATTT
33214286 TTAAAATTAC
Statistics
Matches: 201, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:33214319 original size:27 final size:27
Alignment explanation
Indices: 33214074--33214318 Score: 72
Period size: 27 Copynumber: 9.0 Consensus size: 27
33214064 CAATTTACAG
* *
33214074 AATTACCGTTTTACCCTCGA-T-TTATA
1 AATTACCATTTTACCCTAGAGTGTTA-A
*
33214100 GAATTACTATTTTACCCTCA-A-T-TTATA
1 -AATTACCATTTTACCCT-AGAGTGTTA-A
* *
33214127 GAATTACCGTTTTACCCTCGA-T-TTACAA
1 -AATTACCATTTTACCCTAGAGTGTT--AA
* *
33214155 AATTACCGTTTTACCCTTGA-T-TTACAA
1 AATTACCATTTTACCCTAGAGTGTT--AA
** *
33214182 AATTACTGTTTTACCCTCGA-T-TTACA
1 AATTACCATTTTACCCTAGAGTGTTA-A
*
33214208 GAATTACTATTTTACCCTCA-A-T-TTACA
1 -AATTACCATTTTACCCT-AGAGTGTTA-A
* *
33214235 GAATTACTATTTTACCCTCGA-T-TTATA
1 -AATTACCATTTTACCCTAGAGTGTTA-A
* * * *
33214262 GAATTACCGTTTTACCCTTGATTTTTAA
1 -AATTACCATTTTACCCTAGAGTGTTAA
33214290 AATTACCATTTTAGCCCTAGAGTGTTAA
1 AATTACCATTTTA-CCCTAGAGTGTTAA
33214318 A
1 A
33214319 TGATTGTTTT
Statistics
Matches: 187, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 166 0.89
28 15 0.08
29 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
AATTACCATTTTACCCTAGAGTGTTAA
Found at i:33214572 original size:25 final size:24
Alignment explanation
Indices: 33214543--33214590 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
33214533 CGCTGCAATC
*
33214543 TGGTGGCCTCGCCACATATATCTGT
1 TGGTGACCTCGCCACA-ATATCTGT
*
33214568 TGGTGACTTCGCCACAATATCTG
1 TGGTGACCTCGCCACAATATCTG
33214591 GCAGCCTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (24 bp):
TGGTGACCTCGCCACAATATCTGT
Found at i:33214681 original size:27 final size:26
Alignment explanation
Indices: 33214629--33214688 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
33214619 CCACATATAT
*
33214629 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* *
33214655 ATATCTGTATCTGGTGACCTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
33214682 ATATCTG
1 ATATCTG
33214689 CCAGCCTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:33216165 original size:15 final size:15
Alignment explanation
Indices: 33216140--33216177 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
33216130 AAAATTAAAT
33216140 CAAGAAAATTT-CACA
1 CAAG-AAATTTGCACA
33216155 CATAGAAATTTGCACA
1 CA-AGAAATTTGCACA
33216171 CAAGAAA
1 CAAGAAA
33216178 CATAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (15 bp):
CAAGAAATTTGCACA
Found at i:33224641 original size:20 final size:20
Alignment explanation
Indices: 33224573--33224632 Score: 120
Period size: 20 Copynumber: 3.0 Consensus size: 20
33224563 CTTCGCAACA
33224573 AACACGGGCTGGACACGATC
1 AACACGGGCTGGACACGATC
33224593 AACACGGGCTGGACACGATC
1 AACACGGGCTGGACACGATC
33224613 AACACGGGCTGGACACGATC
1 AACACGGGCTGGACACGATC
33224633 CACATGGGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.10
Consensus pattern (20 bp):
AACACGGGCTGGACACGATC
Found at i:33233152 original size:17 final size:18
Alignment explanation
Indices: 33233130--33233163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33233120 CACGTTGAAG
33233130 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
33233147 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
33233164 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:33234138 original size:28 final size:28
Alignment explanation
Indices: 33234090--33234183 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
33234080 AAGTCTAGAT
* * *
33234090 ACATGCATATGGTCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
33234118 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
33234147 ACATTCATAGGGCCCATTAGGCCCATTC
1 ACATTCATATGGCCCATTAGGCCCAATC
33234175 ACATTCATA
1 ACATTCATA
33234184 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 31 0.55
29 25 0.45
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:33234160 original size:29 final size:28
Alignment explanation
Indices: 33234107--33234184 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 28
33234097 TATGGTCCAC
* * *
33234107 TAGGCCCAATCTCTTTCATATGGCCCAT
1 TAGGCCCAATCACATTCATAGGGCCCAT
33234135 TAGGCCCAAATCACATTCATAGGGCCCAT
1 TAGGCCC-AATCACATTCATAGGGCCCAT
*
33234164 TAGGCCCATTCACATTCATAG
1 TAGGCCCAATCACATTCATAG
33234185 TCATGCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 20 0.44
29 25 0.56
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
TAGGCCCAATCACATTCATAGGGCCCAT
Found at i:33238652 original size:23 final size:23
Alignment explanation
Indices: 33238620--33238664 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
33238610 AGAACTTTTA
33238620 ATCAGAAAGCACACAAAGAGCCT
1 ATCAGAAAGCACACAAAGAGCCT
* *
33238643 ATCAGGAAGCTCACAAAGAGCC
1 ATCAGAAAGCACACAAAGAGCC
33238665 ATGTAACGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.20, T:0.09
Consensus pattern (23 bp):
ATCAGAAAGCACACAAAGAGCCT
Found at i:33239181 original size:50 final size:51
Alignment explanation
Indices: 33239117--33239248 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
33239107 CAATCAAATC
* * * * *
33239117 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
* ** *
33239168 TGTAATCTT-TAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
* *
33239218 TCTAAGATTATAAAATTATATCTTTTAAGAT
1 TCTAAGATTATAAAATAATATCTTATAAGAT
33239249 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 42 0.64
51 24 0.36
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:33244380 original size:51 final size:51
Alignment explanation
Indices: 33244317--33244449 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
33244307 AAATCAAATC
* * * ** *
33244317 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATAATATCTTATAAGATTACAAATCATATCTAAGATA
* ** *
33244368 TGTAATCTTATAAAATAATATCTTATAAGATTACAAATCATATCTAAGATC
1 TCTAAGATTATAAAATAATATCTTATAAGATTACAAATCATATCTAAGATA
* *
33244419 TCTAAGATTATAAAATTATATCTTTTAAGAT
1 TCTAAGATTATAAAATAATATCTTATAAGAT
33244450 CATGTTTCCA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATAATATCTTATAAGATTACAAATCATATCTAAGATA
Found at i:33255478 original size:39 final size:40
Alignment explanation
Indices: 33255383--33255644 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
33255373 TTGAATGATG
*
33255383 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
33255421 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
33255462 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
33255501 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33255540 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33255579 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
33255618 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33255645 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33269841 original size:54 final size:54
Alignment explanation
Indices: 33269783--33269940 Score: 129
Period size: 54 Copynumber: 2.9 Consensus size: 54
33269773 ATTACTGAAA
* *
33269783 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTT
* * * * *** * *
33269837 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTT
** * * ** * *
33269891 TACCCTTGATTTAAAAAATTATTAAAATACCCT-GAGTTTACAAAATTACC
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGA-TTTACAGAATTACC
33269941 AAAATACCCT
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.02
54 81 0.98
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTT
Found at i:33269911 original size:27 final size:27
Alignment explanation
Indices: 33269810--33269903 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
33269800 ATTACCAAAG
*
33269810 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
33269837 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
33269864 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
33269891 TACCCTTGATTTA
1 TACCCTCGATTTA
33269904 AAAAATTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:33269921 original size:27 final size:27
Alignment explanation
Indices: 33269891--33270143 Score: 165
Period size: 27 Copynumber: 9.3 Consensus size: 27
33269881 ATTACTGTTT
**
33269891 TACCCTTGATTTAAAAAATTATTAAAA
1 TACCCTTGATTTAAAAAATTACCAAAA
*
33269918 TACCC-TGAGTTTACAAAATTACCAAAA
1 TACCCTTGA-TTTAAAAAATTACCAAAA
* * *
33269945 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-AAAAATTACCAAAA
* * * *
33269972 TACCCTAG-TCTT-TAAAATTGCTAAAA
1 TACCCTTGAT-TTAAAAAATTACCAAAA
* *** *
33269998 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTAAAAAATTACCAAAA
* *
33270025 TACCCTTAATTTGAAAAATTACCAAAA
1 TACCCTTGATTTAAAAAATTACCAAAA
* * *
33270052 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTAAAAAATTACCA-AAA
* ***
33270079 TACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTTGA-TTT-AAAAAATTACCAAAA
* * *
33270108 TACCATTGGTTTAACAAAATTACTAAAA
1 TACCCTTGATTTAA-AAAATTACCAAAA
33270136 TACCCTTG
1 TACCCTTG
33270144 GTTTGTAGAT
Statistics
Matches: 176, Mismatches: 38, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
26 28 0.16
27 106 0.60
28 26 0.15
29 16 0.09
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTAAAAAATTACCAAAA
Found at i:33270257 original size:27 final size:27
Alignment explanation
Indices: 33270203--33270286 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
33270193 CCCTATTAGT
* *
33270203 TAAAAAGACTGTAAAG-CCCTGTAGGG
1 TAAAGAGACCGTAAAGCCCCTGTAGGG
* *
33270229 TAAAGAGGCCGTAAAGCCCCTATAGGG
1 TAAAGAGACCGTAAAGCCCCTGTAGGG
* *
33270256 TAAAGTGACCGTAATA-CCCCTGTATGG
1 TAAAGAGACCGTAA-AGCCCCTGTAGGG
33270283 TAAA
1 TAAA
33270287 ATGACGAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 13 0.27
27 34 0.71
28 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
TAAAGAGACCGTAAAGCCCCTGTAGGG
Found at i:33271137 original size:25 final size:25
Alignment explanation
Indices: 33271092--33271175 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
33271082 GAGGAAGTGC
33271092 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
**
33271118 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
33271143 AAAAGGGATTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
33271166 AAAAGAGGCT
1 AAAAG-GGCT
33271176 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
23 5 0.10
24 6 0.12
25 30 0.59
26 10 0.20
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:33271458 original size:31 final size:31
Alignment explanation
Indices: 33271381--33271459 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
33271371 CGTTTACAGT
*
33271381 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
33271412 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
33271443 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
33271460 AACCATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:33271485 original size:29 final size:30
Alignment explanation
Indices: 33271381--33271491 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 30
33271371 CGTTTACAGT
* * ** *
33271381 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATACCATTAATGA
** *
33271412 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATACCATTAATGA
*
33271443 AAAGGCTTCAGCCCAGTA-ACCATTAAATG-
1 AAAGGCTTCGGCCCAGTATACCATT-AATGA
33271472 AAAGGCTTCGGCCCAGTATA
1 AAAGGCTTCGGCCCAGTATA
33271492 TGTCAAGACT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
29 21 0.30
30 5 0.07
31 45 0.63
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATACCATTAATGA
Found at i:33283067 original size:19 final size:19
Alignment explanation
Indices: 33283040--33283091 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
33283030 CGGCCTGAGG
*
33283040 ACATAGGCGTGTCAAAGCC
1 ACATGGGCGTGTCAAAGCC
*
33283059 ACATGGGCGTGTCAAAGGC
1 ACATGGGCGTGTCAAAGCC
*
33283078 ACACGGGCGTGTCA
1 ACATGGGCGTGTCA
33283092 CCCTGTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.33, T:0.15
Consensus pattern (19 bp):
ACATGGGCGTGTCAAAGCC
Found at i:33291686 original size:96 final size:95
Alignment explanation
Indices: 33291522--33291711 Score: 247
Period size: 96 Copynumber: 2.0 Consensus size: 95
33291512 GTGTCTAAGG
* * *
33291522 AAGTCTATCATTGATGGGAACGATGGAGCAGACAAGGAGCCTAAGAAGCTTGGTTTAAGAAATGG
1 AAGTCTATCATTGAAGGGAACGATGGAGCAGACAAGGAGCCAAAGAAGCTTGGTTCAAGAAATGG
33291587 AAAAGCTAAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGC-AAAGCCAAGAGGGCAAAGAGGAGC
* * * * *
33291618 AAGTCTGTCATTGAAGGGAACGATGGAGCAGACGAGGTGCCAAATAAGCTTGGTTCGAGCAAA-G
1 AAGTCTATCATTGAAGGGAACGATGGAGCAGACAAGGAGCCAAAGAAGCTTGGTTCAAG-AAATG
** **
33291682 GAAAAGCCGAGGTAAGAGGGCAAAGAGGAG
65 GAAAAGCAAAGCCAAGAGGGCAAAGAGGAG
33291712 AAAAAAGAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
95 19 0.23
96 59 0.73
97 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.34, T:0.15
Consensus pattern (95 bp):
AAGTCTATCATTGAAGGGAACGATGGAGCAGACAAGGAGCCAAAGAAGCTTGGTTCAAGAAATGG
AAAAGCAAAGCCAAGAGGGCAAAGAGGAGC
Found at i:33296513 original size:47 final size:47
Alignment explanation
Indices: 33296461--33297011 Score: 868
Period size: 47 Copynumber: 11.6 Consensus size: 47
33296451 GATAATTGTG
* *
33296461 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33296508 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33296555 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33296604 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33296651 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296700 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296747 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33296794 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296843 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGACGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296892 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
33296939 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296986 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
33297012 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 28, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 286 0.61
49 184 0.39
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33296568 original size:96 final size:96
Alignment explanation
Indices: 33296461--33297011 Score: 898
Period size: 96 Copynumber: 5.8 Consensus size: 96
33296451 GATAATTGTG
33296461 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
33296524 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
33296555 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
33296620 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
33296651 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
33296716 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296747 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
33296810 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33296843 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
33296908 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
33296939 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
33297002 ATGTGATAAG
66 ATGTGATAAG
33297012 TCCCGAAGGG
Statistics
Matches: 434, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
94 104 0.24
95 2 0.00
96 283 0.65
98 45 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33298594 original size:25 final size:25
Alignment explanation
Indices: 33298566--33298624 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
33298556 GGGGTGTTAC
33298566 AGCCCTTTT-TGATAAACTGGGGCAA
1 AGCCCTTTTCT-ATAAACTGGGGCAA
*
33298591 AGCCCTTTTCTATAAACTGGGGCAT
1 AGCCCTTTTCTATAAACTGGGGCAA
33298616 AGCCCTTTT
1 AGCCCTTTT
33298625 AGCACTTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTCTATAAACTGGGGCAA
Found at i:33299496 original size:27 final size:27
Alignment explanation
Indices: 33299434--33299498 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
33299424 GGGCATATTC
*
33299434 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACA
* *
33299461 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTACCATACAGGGG-TATTACA
*
33299488 GTCTTTTTACC
1 GTCATTTTACC
33299499 TATTAGCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:33299582 original size:27 final size:27
Alignment explanation
Indices: 33299529--33299781 Score: 170
Period size: 27 Copynumber: 9.3 Consensus size: 27
33299519 TTTCATCCTA
* * * *
33299529 CAAGGGTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
33299556 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
33299583 CAATGGTATTTCTA-TAATTTTTTGAAAGT
1 CAAGGGTATTT-TAGTAATTTTAT-AAA-C
* *
33299612 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
33299639 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * * *
33299666 TGAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
33299693 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
33299720 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
33299747 CAAAGGCATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
33299774 CGAGGGTA
1 CAAGGGTA
33299782 AAATGGTAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.02
27 151 0.83
28 8 0.04
29 21 0.11
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:33299790 original size:27 final size:27
Alignment explanation
Indices: 33299760--33299916 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
33299750 AGGCATTTTA
* *
33299760 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
33299787 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
33299814 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
33299841 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
33299868 ATAATTATGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
33299895 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
33299917 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:33299817 original size:81 final size:81
Alignment explanation
Indices: 33299732--33299907 Score: 199
Period size: 81 Copynumber: 2.2 Consensus size: 81
33299722 GGGGTATTTT
* *** * *** *
33299732 GGTAATTTTGTAAACCAAAGGCATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTATAT
*
33299797 AAATTGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
*** * * * *
33299813 GGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAATAATTATGT
1 GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTATAT
33299878 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
33299894 GGTAATTCTGTAAA
1 GGTAATTCTGTAAA
33299908 TCGAGGGTAC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTATAT
AAATCGAGGGTAAAAC
Found at i:33299927 original size:81 final size:81
Alignment explanation
Indices: 33299760--33299916 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
33299750 AGGCATTTTA
* *** * *
33299760 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
*
33299825 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAATG
*
33299841 GTAATTCTATAAATCGAGGGTAAAACAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
33299906 AATCGAGGGTA
66 AATCGAGGGTA
33299917 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:33299954 original size:81 final size:81
Alignment explanation
Indices: 33299760--33299943 Score: 197
Period size: 81 Copynumber: 2.3 Consensus size: 81
33299750 AGGCATTTTA
* * ** ** * *
33299760 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAATCGAGGACAAAACAGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
*
33299825 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* ** * *
33299841 GTAATTCTATAAATCGAGGGTAAAACAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAATCGAGGACAAAACAGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
***
33299906 AATCGAGGGTACTTTG
66 AATCGAGGGTAAAATG
* *
33299922 GTAATTTTACAAATTGAGGACA
1 GTAATTCTACAAATCGAGGACA
33299944 TTTTAGTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTCTACAAATCGAGGACAAAACAGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:33301375 original size:24 final size:24
Alignment explanation
Indices: 33301305--33301368 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
33301295 AAGTCTGTCA
33301305 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGTTGATAAG
33301329 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGTTGATAAG
33301353 GGATAGGATTTAGGAG
1 GGATAGGATTTAGGAG
33301369 CAGATAATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (24 bp):
GGATAGGATTTAGGAGTTGATAAG
Found at i:33301391 original size:48 final size:48
Alignment explanation
Indices: 33301305--33301402 Score: 110
Period size: 48 Copynumber: 2.0 Consensus size: 48
33301295 AAGTCTGTCA
** * *
33301305 GGATAGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAG
1 GGATAGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAG
*
33301353 GGATAGGATTTAGGAGCAGATAATGG-AGGAAATCTAGGAGCTGATCAAG
1 GGATAGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAG
33301402 G
1 G
33301403 AACAAGAGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
46 3 0.07
48 35 0.83
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (48 bp):
GGATAGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAG
Found at i:33302375 original size:16 final size:15
Alignment explanation
Indices: 33302349--33302378 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33302339 ATTAGATCGG
33302349 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
33302364 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
33302379 TTGGTATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:33302835 original size:27 final size:26
Alignment explanation
Indices: 33302795--33302906 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
33302785 AGGAAGCGTC
*
33302795 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
33302822 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
33302849 CTGGTGGTTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * * *
33302877 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
33302903 CTGG
1 CTGG
33302907 CAACCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 49 0.70
28 15 0.21
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:33302899 original size:54 final size:54
Alignment explanation
Indices: 33302795--33302906 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
33302785 AGGAAGCGTC
* *
33302795 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * * *
33302849 CTGGTGGTTCTGCCACGATTATCTATATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTAGTGACTCTGCCACATATATCTGTT
33302903 CTGG
1 CTGG
33302907 CAACCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:33303990 original size:11 final size:10
Alignment explanation
Indices: 33303962--33303995 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33303952 AGCCTGTAAG
33303962 TATTCTGAAT
1 TATTCTGAAT
*
33303972 TTTTCTGAAT
1 TATTCTGAAT
33303982 ATATTCTGAAT
1 -TATTCTGAAT
33303993 TAT
1 TAT
33303996 CACTAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:33307107 original size:40 final size:40
Alignment explanation
Indices: 33307030--33307207 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
33307020 AAACCAAGTA
* * *
33307030 CCTTCGGGATTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33307069 CCTTCGGGACTTAGCCCAGTTATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33307109 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33307149 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
33307189 CCTTCTGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33307208 TTATCATCTA
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.11
40 110 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33307546 original size:57 final size:57
Alignment explanation
Indices: 33307458--33307570 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
33307448 CCTTTTCCTT
* *
33307458 TCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATATTAAAAAATAAATTA
1 TCCTTTATCGGAATTAGTTCCCCTTTGCTCTTAAGCTTAATATTAAAAAATAAATTA
*
33307515 TCCTTTATCGGAATTAGTTCCCCTTTGCTCTTAAGCTTAATATTAACAAATAAATT
1 TCCTTTATCGGAATTAGTTCCCCTTTGCTCTTAAGCTTAATATTAAAAAATAAATT
33307571 GATTTAATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.42
Consensus pattern (57 bp):
TCCTTTATCGGAATTAGTTCCCCTTTGCTCTTAAGCTTAATATTAAAAAATAAATTA
Found at i:33309592 original size:13 final size:13
Alignment explanation
Indices: 33309574--33309601 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33309564 ATTTCCAAAG
33309574 TCGGAACAGGGAA
1 TCGGAACAGGGAA
33309587 TCGGAACAGGGAA
1 TCGGAACAGGGAA
33309600 TC
1 TC
33309602 CAGAAACTGT
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:0.36, C:0.18, G:0.36, T:0.11
Consensus pattern (13 bp):
TCGGAACAGGGAA
Found at i:33310562 original size:40 final size:40
Alignment explanation
Indices: 33310513--33310675 Score: 247
Period size: 40 Copynumber: 4.1 Consensus size: 40
33310503 ACCACAAGCT
* * * *
33310513 CAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
1 CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
* *
33310553 CGAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCA
1 C-AATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
*
33310593 CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTTGCA
1 CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
33310633 CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
33310673 CAA
1 CAA
33310676 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.02
40 111 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
CAATTACCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
Found at i:33320156 original size:40 final size:40
Alignment explanation
Indices: 33320104--33320775 Score: 1134
Period size: 40 Copynumber: 16.8 Consensus size: 40
33320094 ATAACCACAA
* * * * *
33320104 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320144 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT-
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA-TTC
* *
33320184 GCACAATTACCTTCGGGTCTTAGCCCGGATATATCAACTT-
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA-TTC
* *
33320224 GCACAATTACCTTCGGGTCTTAGCCCGGATATATCAACTT-
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA-TTC
*
33320264 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
* *
33320304 GCACAAACGCCATCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320344 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320384 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320424 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320464 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320504 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320544 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320584 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320624 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320664 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
*
33320704 GCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
33320744 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
33320776 CATTCAAATG
Statistics
Matches: 609, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.00
40 606 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
Found at i:33329289 original size:40 final size:40
Alignment explanation
Indices: 33329218--33329635 Score: 596
Period size: 40 Copynumber: 10.5 Consensus size: 40
33329208 AAACCAAGTA
* *
33329218 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
33329257 CCTTCTGGACTTAGCCCGGTTATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33329297 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33329337 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33329377 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33329417 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33329457 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33329497 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33329537 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33329577 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33329617 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33329636 TTATCATCCA
Statistics
Matches: 341, Mismatches: 29, Indels: 17
0.88 0.07 0.04
Matches are distributed among these distances:
39 17 0.05
40 321 0.94
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33329350 original size:80 final size:80
Alignment explanation
Indices: 33329218--33329635 Score: 734
Period size: 80 Copynumber: 5.2 Consensus size: 80
33329208 AAACCAAGTA
* * * * *
33329218 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCTGGACTTAGCCCGG-TTAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAAT-T
* *
33329280 AGTGACTCGCACAAATG
64 AGTCACTAGCACAAATG
33329297 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
33329362 TCACTAGCACAAATG
66 TCACTAGCACAAATG
33329377 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
33329442 TCACTAGCACAAATG
66 TCACTAGCACAAATG
33329457 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
33329522 TCACTAGCACAAATG
66 TCACTAGCACAAATG
33329537 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
33329602 TCACTAGCACAAATG
66 TCACTAGCACAAATG
33329617 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33329636 TTATCATCCA
Statistics
Matches: 329, Mismatches: 7, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
79 14 0.04
80 314 0.95
81 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAG
TCACTAGCACAAATG
Found at i:33336524 original size:27 final size:26
Alignment explanation
Indices: 33336484--33336595 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
33336474 AGGAAGCGTC
*
33336484 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
33336511 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
33336538 CTGGTTGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
33336566 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
33336592 CTGG
1 CTGG
33336596 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.69
28 15 0.21
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:33341860 original size:39 final size:39
Alignment explanation
Indices: 33341817--33341932 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
33341807 CTGGACATAT
* *
33341817 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
* * *
33341856 TTCCAGCACATAGCCTGCTGACCCTATGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
33341895 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
33341933 CATCACTGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:33348039 original size:214 final size:214
Alignment explanation
Indices: 33347670--33348097 Score: 829
Period size: 214 Copynumber: 2.0 Consensus size: 214
33347660 GAAGTTTCAT
33347670 TCTCCAATTTTGCCAATTGCATGAGAAATTATTAAATAGGGATTGATATGAGACATGGTGAAAAT
1 TCTCCAATTTTGCCAATTGCATGAGAAATTATTAAATAGGGATTGATATGAGACATGGTGAAAAT
33347735 ATGATAGGCTAATTTAAAATGGTCTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAAA
66 ATGATAGGCTAATTTAAAATGGTCTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAAA
*
33347800 TTACCCAAAATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAATATGTTGGC
131 TTACCCAAAATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGC
* *
33347865 TTGGTGAGGTATGTAGGAA
196 CTAGTGAGGTATGTAGGAA
33347884 TCTCCAATTTTGCCAATTGCATGAGAAATTATTAAATAGGGATTGATATGAGACATGGTGAAAAT
1 TCTCCAATTTTGCCAATTGCATGAGAAATTATTAAATAGGGATTGATATGAGACATGGTGAAAAT
33347949 ATGATAGGCTAATTTAAAATGGTCTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAAA
66 ATGATAGGCTAATTTAAAATGGTCTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAAA
33348014 TTACCCAAAATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGC
131 TTACCCAAAATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGC
33348079 CTAGTGAGGTATGTAGGAA
196 CTAGTGAGGTATGTAGGAA
33348098 AAAAATAAAA
Statistics
Matches: 211, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 211 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (214 bp):
TCTCCAATTTTGCCAATTGCATGAGAAATTATTAAATAGGGATTGATATGAGACATGGTGAAAAT
ATGATAGGCTAATTTAAAATGGTCTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAAA
TTACCCAAAATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGC
CTAGTGAGGTATGTAGGAA
Found at i:33348837 original size:43 final size:42
Alignment explanation
Indices: 33348776--33348859 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
33348766 TGTATATGTG
*
33348776 TGTATTAAGTGTTGAAATCGACCCCAAAAATAGACATGCATAA
1 TGTATTAAATGTTGAAATCGACCCC-AAAATAGACATGCATAA
*
33348819 TGTATTAAATGTTGAAATCGGCCCCAAAATAGACATGCATA
1 TGTATTAAATGTTGAAATCGACCCCAAAATAGACATGCATA
33348860 TTCGGCCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 16 0.41
43 23 0.59
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (42 bp):
TGTATTAAATGTTGAAATCGACCCCAAAATAGACATGCATAA
Found at i:33349326 original size:40 final size:40
Alignment explanation
Indices: 33349315--33350259 Score: 1745
Period size: 40 Copynumber: 23.7 Consensus size: 40
33349305 AAGTGAATAT
33349315 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349355 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349395 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349435 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349475 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349515 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349555 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349595 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349635 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349675 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349715 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349755 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349795 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349835 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349875 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349915 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349955 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33349995 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33350035 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33350075 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
33350115 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* * * *
33350155 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
** * *
33350194 ATCCGGGTTAAG-TCCCGAAGGCA-TTGTGTGAGTTACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
* * *
33350233 AACCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
33350260 AACGAGGAGC
Statistics
Matches: 892, Mismatches: 11, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 70 0.08
40 822 0.92
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:33351337 original size:174 final size:174
Alignment explanation
Indices: 33351047--33351395 Score: 662
Period size: 174 Copynumber: 2.0 Consensus size: 174
33351037 GTGTGGATTG
*
33351047 GAAAAATCACAAGAATTTGTAGGAGTGGATTTAAATAGCGAATAAATTATGTAATCGAACCTTGA
1 GAAAAATCACAAGAATTCGTAGGAGTGGATTTAAATAGCGAATAAATTATGTAATCGAACCTTGA
33351112 TGAATCTACTTTCATATGAAAGTAACGAAACAATCATATGAACAGTACAGTAAGAGATATTCGGG
66 TGAATCTACTTTCATATGAAAGTAACGAAACAATCATATGAACAGTACAGTAAGAGATATTCGGG
*
33351177 TTCTTGTGGGACAGGGCCAGAACAGTTTCTGGATTCCCTATTCC
131 TTCTTGTGGGACAGGGCCAGAACAGTTTCTGGATTCACTATTCC
*
33351221 GAAAAATCACAAGAATTCGTAGGAGTGGATTTAAATAGTGAATAAATTATGTAATCGAACCTTGA
1 GAAAAATCACAAGAATTCGTAGGAGTGGATTTAAATAGCGAATAAATTATGTAATCGAACCTTGA
33351286 TGAATCTACTTTCATATGAAAGTAACGAAACAATCATATGAACAGTACAGTAAGAGATATTCGGG
66 TGAATCTACTTTCATATGAAAGTAACGAAACAATCATATGAACAGTACAGTAAGAGATATTCGGG
*
33351351 TTCTTGTGGGACAGGGCCAGAACAGTTTCTGGATTCACTGTTCC
131 TTCTTGTGGGACAGGGCCAGAACAGTTTCTGGATTCACTATTCC
33351395 G
1 G
33351396 CCTTTGTAAA
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 171 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (174 bp):
GAAAAATCACAAGAATTCGTAGGAGTGGATTTAAATAGCGAATAAATTATGTAATCGAACCTTGA
TGAATCTACTTTCATATGAAAGTAACGAAACAATCATATGAACAGTACAGTAAGAGATATTCGGG
TTCTTGTGGGACAGGGCCAGAACAGTTTCTGGATTCACTATTCC
Found at i:33352225 original size:25 final size:25
Alignment explanation
Indices: 33352191--33352240 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33352181 ACCACCGGTA
33352191 ACGGACCAAATAAGGTCAAATAAGC
1 ACGGACCAAATAAGGTCAAATAAGC
*
33352216 ACGGACCAAATAAGGTCACATAAGC
1 ACGGACCAAATAAGGTCAAATAAGC
33352241 CCCAGTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (25 bp):
ACGGACCAAATAAGGTCAAATAAGC
Found at i:33362024 original size:93 final size:94
Alignment explanation
Indices: 33361865--33362049 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 94
33361855 GTTTGGTTTG
*
33361865 GAAGAGGATTAGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCT
1 GAAGAGAATTAGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCT
33361930 TTGAGATTCATGCATATTTT-AGTTGTTA
66 TTGAGATTCATGCATATTTTAAGTTGTTA
33361958 GAAGAGAATTAGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCT
1 GAAGAGAATTAGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCT
*
33362023 TTGAGATTCATGTATATTTTAAGTTGT
66 TTGAGATTCATGCATATTTTAAGTTGT
33362050 AAGTTTGAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 83 0.93
94 6 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (94 bp):
GAAGAGAATTAGGAGGAAGTTTGGCCATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCT
TTGAGATTCATGCATATTTTAAGTTGTTA
Found at i:33363039 original size:29 final size:28
Alignment explanation
Indices: 33363003--33363080 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
33362993 TCATGAGATT
33363003 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
33363033 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
33363060 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
33363081 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:33363298 original size:174 final size:174
Alignment explanation
Indices: 33363033--33363360 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
33363023 AAATTGTACA
*
33363033 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
33363098 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
33363163 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
33363207 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
33363272 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
33363337 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
33363361 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:33368724 original size:46 final size:44
Alignment explanation
Indices: 33368674--33368849 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 44
33368664 TGGTTGAGCA
33368674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
33368720 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
33368767 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
33368813 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33368850 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:33368830 original size:93 final size:93
Alignment explanation
Indices: 33368671--33368842 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
33368661 GGATGGTTGA
*
33368671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
33368736 TGAGTCTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
33368764 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
33368828 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
33368843 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:33380804 original size:50 final size:50
Alignment explanation
Indices: 33380679--33380924 Score: 291
Period size: 49 Copynumber: 4.9 Consensus size: 50
33380669 TAGCCAAAGC
* * * * *
33380679 CATCTGGTACGCATAGTAGCCTGCACTTATTACTACACATGCGACC-AAT
1 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
33380728 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
33380778 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * * * *
33380829 TAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTAAT
1 CATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
33380878 AATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT
1 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
33380925 CACAATAGAT
Statistics
Matches: 166, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
49 77 0.46
50 53 0.32
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:33380916 original size:100 final size:99
Alignment explanation
Indices: 33380692--33380923 Score: 306
Period size: 100 Copynumber: 2.3 Consensus size: 99
33380682 CTGGTACGCA
* * * *
33380692 TAGTAGCCTGCACTTATTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
* * *
33380757 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* *
33380791 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCT-GGTACACATAGTAGCCTGCAC
* * *
33380855 TTAGTACTACACATGCGA-CTAATAATCCGGTACACG
63 TTAGTACTACACACGCGACCTAACAATCCGATACACG
*
33380891 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
33380924 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 29 0.25
100 48 0.41
101 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:33384105 original size:132 final size:131
Alignment explanation
Indices: 33383885--33384663 Score: 618
Period size: 132 Copynumber: 5.9 Consensus size: 131
33383875 TGTAACTCTA
* * * * * *
33383885 AACAACTCGCTGATTTAAGATCGCAGTTGGTATCGTCAAGGTTCGCTTAGTTAAGATTGCAACCT
1 AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGGTTCGCTGATTTAAGATTGCAACCT
* * * * * * * *
33383950 AATGTTCATTCGATATGAGATCATGAACAATTCTATTTGAGTTAGTTGATTTAATATAGTAACTT
66 AAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAAGATAGCAACTT
33384015 T
131 T
* ** ** * * *
33384016 ACACAACTCGTTGATTTAAGATCATAGCTGGTATCATGAAGGCTT-GCTCATTTAATATTGCAAC
1 A-ACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGG-TTCGCTGATTTAAGATTGCAAC
* * *
33384080 CTAAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGCTAATTTAAGATCGCAAC
64 CTAAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAAGATAGCAAC
*
33384145 TCTG
129 T-TT
* * * * * **
33384149 AATAGCTCGCTGATTTAATATTGTAGCTGGTATCATCAAGGTTCATTGATTTAAGATCT-CAACC
1 AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGGTTCGCTGATTTAAGAT-TGCAACC
* * * * *
33384213 AAAATTTCATTCGATTTCAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCA-CAAC
65 TAAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAAGAT-AGCAAC
*
33384277 TTCG
129 TT-T
* * * * * ** * **
33384281 AATAGCTCACTGATTTAATATCGCCGCTAGTATTATCAAGGCTT-TTTGAGTTAAGATCACAACC
1 AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGG-TTCGCTGATTTAAGATTGCAACC
* * * * * *
33384345 TAAATTTCATTTGATTTTAGATCATGACCAATTTTATTTAAATTAGCTT-ATTTAAGATCA-CAA
65 TAAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAG-TTGATTTAAGAT-AGCAA
**
33384408 CTCCA
128 CT-TT
* * * * *
33384413 AACAGCTCATTGACTTAAGATCGCAGCTGGTATAATCAAGGTTCGTTGATTTAAGATTTCAACCT
1 AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGGTTCGCTGATTTAAGATTGCAACCT
* * *
33384478 AAAGTTCGTTTC-ATTTCAAATCATGAACAATTTTATTTGAATTGGTTGATTTAAGATTGCAACT
66 AAAGTTC-ATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAAGATAGCAACT
**
33384542 CCG
130 -TT
** * * * ** * * * * * * *
33384545 AGGAGCTCATTGACTTAATATCATAGCTGGTATTATCTAGGTTCACTGATTGAATATCGCAAACT
1 AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGGTTCGCTGATTTAAGATTGCAACCT
* * * * * *
33384610 AAAGTTCGTTAGGTTTCAAATCATGAGCAATTTTATTTGAGTTACTTGATTTAA
66 AAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAA
33384664 TATCGTAGCT
Statistics
Matches: 534, Mismatches: 98, Indels: 31
0.81 0.15 0.05
Matches are distributed among these distances:
131 10 0.02
132 514 0.96
133 10 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (131 bp):
AACAGCTCACTGATTTAAGATCGCAGCTGGTATCATCAAGGTTCGCTGATTTAAGATTGCAACCT
AAAGTTCATTCGATTTCAAATCATGAACAATTTTATTTGAATTAGTTGATTTAAGATAGCAACTT
T
Found at i:33388117 original size:26 final size:25
Alignment explanation
Indices: 33388070--33388128 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
33388060 AATTGTAGTG
*
33388070 ACTAGTTTGACCAAGTGATTCTATTA
1 ACTA-TTTGACCAACTGATTCTATTA
*
33388096 ACTTATTTGACCAACTGGTTCTATTA
1 AC-TATTTGACCAACTGATTCTATTA
33388122 ACTATTT
1 ACTATTT
33388129 ATTTAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 23 0.77
27 2 0.07
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (25 bp):
ACTATTTGACCAACTGATTCTATTA
Found at i:33389539 original size:30 final size:30
Alignment explanation
Indices: 33389503--33389562 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33389493 AGTTTCTCAA
* * * *
33389503 TCCCAAGATCTTGAATGAGATATCGGGTCT
1 TCCCAAGACCCTGAATAAGATATCAGGTCT
*
33389533 TCCCAAGCCCCTGAATAAGATATCAGGTCT
1 TCCCAAGACCCTGAATAAGATATCAGGTCT
33389563 CTCAAATACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (30 bp):
TCCCAAGACCCTGAATAAGATATCAGGTCT
Found at i:33395655 original size:21 final size:22
Alignment explanation
Indices: 33395630--33395677 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
33395620 CCAAATTCTC
33395630 TCAAA-TT-TCTCTCAATTTTTA
1 TCAAAGTTGTCTCT-AATTTTTA
*
33395651 TCAAAGTTGTCTCTAATTTTTT
1 TCAAAGTTGTCTCTAATTTTTA
33395673 TCAAA
1 TCAAA
33395678 AAATTTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTA
Found at i:33396815 original size:7 final size:7
Alignment explanation
Indices: 33396803--33396828 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33396793 TAGTCGTTTC
33396803 GTATTTA
1 GTATTTA
33396810 GTATTTA
1 GTATTTA
33396817 GTATTTA
1 GTATTTA
33396824 GTATT
1 GTATT
33396829 ACCTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:33402223 original size:53 final size:54
Alignment explanation
Indices: 33402142--33402292 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
33402132 CTTACATGGT
* *
33402142 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
*
33402197 TCACATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
** *
33402250 TCACATTGCACCGATGCCATAGCCCA-ACTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGG
33402293 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
Found at i:33409742 original size:53 final size:53
Alignment explanation
Indices: 33409661--33409811 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
33409651 CTTACACGGT
* *
33409661 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
33409716 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
33409769 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
33409812 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:33411506 original size:126 final size:126
Alignment explanation
Indices: 33411270--33411735 Score: 666
Period size: 126 Copynumber: 3.7 Consensus size: 126
33411260 AGTTTAAGGC
* * * * *
33411270 TTTT-TCAGATACCACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTTC-ATAATTTTGTTA
1 TTTTATCAAATACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTTCGA-AATTTTGCTA
* *
33411333 AAAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTTTTCAGAAACATCTTGTCAAAATTA
65 AAAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* ** * *
33411395 TTTTATCAAAGACCACTGTAGCAAAAGAGCGTCCACGTGGGTGCTTTTTTTTGAAATTTTGCTGA
1 TTTTATCAAATACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTTCGAAATTTTGCTAA
*
33411460 AAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * *
33411521 TTTTATCAGATACCACTATAGCAAAATAGCGTCCACGTGGAAGCTTTTTTCCGAAATTTTGCTAA
1 TTTTATCAAATACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTTCGAAATTTTGCTAA
* **
33411586 AAGTGCATCCTTCTTAAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * * *
33411647 TTTTATCAAATATCACTGTAGAAAAAGAACGTCCACGTGGAAACTTTTTTTCGAAATTTTGCTGA
1 TTTTATCAAATACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTTCGAAATTTTGCTAA
*
33411712 AAGTGCATCATTCTTGAATGTGTT
66 AAGTGCATCCTTCTTGAA-GTGTT
33411736 CATTAATTTC
Statistics
Matches: 301, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 4 0.01
126 293 0.97
127 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
TTTTATCAAATACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTTCGAAATTTTGCTAA
AAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
Found at i:33411823 original size:23 final size:24
Alignment explanation
Indices: 33411797--33411853 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
33411787 CTAAACTACT
33411797 AAAACCCTAACCCTAAAACAA-TCA
1 AAAACCCTAACCCTAAAA-AACTCA
33411821 AAAACCCTAACCCTAAAAAACTC-
1 AAAACCCTAACCCTAAAAAACTCA
33411844 AAAACCCTAA
1 AAAACCCTAA
33411854 TTTAATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (24 bp):
AAAACCCTAACCCTAAAAAACTCA
Found at i:33411968 original size:143 final size:144
Alignment explanation
Indices: 33411789--33412092 Score: 499
Period size: 144 Copynumber: 2.1 Consensus size: 144
33411779 TAAAAAACCT
*
33411789 AAACTACTAAAACCCTAACCCTAAAACAATCAAAAACCCTAACCCTAAAAAACTCAAAACCCTAA
1 AAACCACTAAAACCCTAACCCTAAAACAATCAAAAACCCTAACCCTAAAAAACTCAAAACCCTAA
*
33411854 TTTAATTGA-TTTTTTATTCTCATAATTAATTTAATTAATTAACCCTCCACTCTAAGTGTTCATT
66 TTTAATTGATTTTTTTATTCTCATAATTAATTTAATTAATTAACCCTCAACTCTAAGTGTTCATT
33411918 AATTTCTCCCTT-AA
131 AATTT-TCCCTTAAA
* ** *
33411932 AAACCACTAAAAACCCTAACCCT-AAACAATCAAAAACCCTAACCTTAAAAAACTTGAAACCTTA
1 AAACCACT-AAAACCCTAACCCTAAAACAATCAAAAACCCTAACCCTAAAAAACTCAAAACCCTA
*
33411996 ATTTAATTGATTTTTTTATTCTCATAGTTAATTTAATTAATTAACCCTCAACTCTAAGTGTTCAT
65 ATTTAATTGATTTTTTTATTCTCATAATTAATTTAATTAATTAACCCTCAACTCTAAGTGTTCAT
33412061 TAATTTTCCCTTAAA
130 TAATTTTCCCTTAAA
33412076 AAACC-CTAAAACCCTAA
1 AAACCACTAAAACCCTAA
33412093 ACCATTAAAA
Statistics
Matches: 151, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
142 10 0.07
143 62 0.41
144 79 0.52
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.33
Consensus pattern (144 bp):
AAACCACTAAAACCCTAACCCTAAAACAATCAAAAACCCTAACCCTAAAAAACTCAAAACCCTAA
TTTAATTGATTTTTTTATTCTCATAATTAATTTAATTAATTAACCCTCAACTCTAAGTGTTCATT
AATTTTCCCTTAAA
Found at i:33412291 original size:28 final size:28
Alignment explanation
Indices: 33412234--33412293 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
33412224 GCTTTCGGGG
*
33412234 AAAATGGTCCTTTTCCATAAATAATAAA
1 AAAATGGTCCATTTCCATAAATAATAAA
* * *
33412262 AAAATCGGTCCATTTCCGTAATTAACAAA
1 AAAAT-GGTCCATTTCCATAAATAATAAA
33412291 AAA
1 AAA
33412294 GGGGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAATGGTCCATTTCCATAAATAATAAA
Found at i:33413853 original size:7 final size:8
Alignment explanation
Indices: 33413840--33413864 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33413830 TTGGAAAATT
33413840 TTTTTTTA
1 TTTTTTTA
33413848 TTTTTTTA
1 TTTTTTTA
33413856 TTTTTTTA
1 TTTTTTTA
33413864 T
1 T
33413865 AACCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:33414240 original size:55 final size:55
Alignment explanation
Indices: 33414148--33414309 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 55
33414138 TAGACATGCT
** *
33414148 ACATAATAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTCTTCCA
1 ACATAATAATCAATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
* * * * *
33414203 ACATGATAATCGATGTAAACATATAAACAGTTTATTCAAAAGAAGCAGTATTCCA
1 ACATAATAATCAATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
* * *
33414258 ACATAATAATCAATTTAAACATAAAAACAATATATCCAAAAGAAGCAATATT
1 ACATAATAATCAATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATT
33414310 TTTGAGAAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (55 bp):
ACATAATAATCAATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
Found at i:33417457 original size:21 final size:21
Alignment explanation
Indices: 33417429--33417491 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
33417419 TCTTTTTATT
* *
33417429 AAAT-ATATATAAATTTTAAA
1 AAATAATATATAAAATATAAA
33417449 AAATAATATA-AAAATATAAA
1 AAATAATATATAAAATATAAA
* * *
33417469 AATTCAATATATATAATCTAAA
1 AAAT-AATATATAAAATATAAA
33417491 A
1 A
33417492 TTATAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.43
21 11 0.31
22 9 0.26
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATATATAAAATATAAA
Found at i:33417584 original size:13 final size:15
Alignment explanation
Indices: 33417566--33417598 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
33417556 AAAACTTTAG
33417566 TTAAAC-AATAAA-A
1 TTAAACTAATAAATA
33417579 TTAAACTAATAAATA
1 TTAAACTAATAAATA
33417594 TTAAA
1 TTAAA
33417599 TGTAACGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAACTAATAAATA
Found at i:33417685 original size:20 final size:20
Alignment explanation
Indices: 33417636--33417685 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
33417626 ACAAACTCCA
*
33417636 ATTATAAACTATTAAATATAC
1 ATTATAAA-TATTAAAAATAC
* * *
33417657 ATAACAAATATTAAAAATAT
1 ATTATAAATATTAAAAATAC
33417677 ATTATAAAT
1 ATTATAAAT
33417686 GATAAAACTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTATAAATATTAAAAATAC
Found at i:33420285 original size:137 final size:136
Alignment explanation
Indices: 33420039--33420324 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
33420029 CATTGGGCCT
** * * * *
33420039 AAGCCCATTCAGGTAATAGTGGTATTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAATAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTT
*
33420104 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
33420169 CATATGC
130 CATATGC
33420176 AAGCCCATTTGGGTAATAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAATAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTT
*
33420241 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
33420306 ATATGC
131 ATATGC
33420312 AAGCCCATTTGGG
1 AAGCCCATTTGGG
33420325 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 22 0.16
137 119 0.84
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAATAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:33420609 original size:25 final size:27
Alignment explanation
Indices: 33420572--33420624 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33420562 TCAAACATGC
33420572 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
33420598 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
33420624 A
1 A
33420625 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:33422148 original size:26 final size:26
Alignment explanation
Indices: 33422110--33422167 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
33422100 CATGAAATTT
33422110 TTATCATGAAACATTTACCTAAACC-A
1 TTATCATGAAACATTTACCT-AACCTA
*
33422136 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
33422162 TTATCA
1 TTATCA
33422168 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:33423999 original size:2 final size:2
Alignment explanation
Indices: 33423992--33424030 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
33423982 TTTATGTGAT
*
33423992 CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
33424031 TTATTTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:33426575 original size:21 final size:21
Alignment explanation
Indices: 33426551--33426590 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33426541 CTAAGGCCAT
33426551 TTTCAATCTATCTTTTATTAA
1 TTTCAATCTATCTTTTATTAA
* *
33426572 TTTCACTTTATCTTTTATT
1 TTTCAATCTATCTTTTATT
33426591 TCTCACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTCAATCTATCTTTTATTAA
Found at i:33426605 original size:21 final size:20
Alignment explanation
Indices: 33426559--33426601 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
33426549 ATTTTCAATC
*
33426559 TATCTTTTATTAATTTCACTT
1 TATCTTTTATT-ATCTCACTT
*
33426580 TATCTTTTATT-TCTCACAT
1 TATCTTTTATTATCTCACTT
33426599 TAT
1 TAT
33426602 ATCTAGCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.60
Consensus pattern (20 bp):
TATCTTTTATTATCTCACTT
Found at i:33434244 original size:22 final size:22
Alignment explanation
Indices: 33434219--33434260 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33434209 TTTGAAAGTA
*
33434219 ATGTGCTAAGTGAAGAATGTAC
1 ATGTGCTAAGTAAAGAATGTAC
* *
33434241 ATGTGTTGAGTAAAGAATGT
1 ATGTGCTAAGTAAAGAATGT
33434261 TATTGGTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.31
Consensus pattern (22 bp):
ATGTGCTAAGTAAAGAATGTAC
Found at i:33437525 original size:6 final size:6
Alignment explanation
Indices: 33437511--33437542 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33437501 CTTCCAACGT
33437511 AAAAA- AAAAAG AAAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
33437543 GAGTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33440483 original size:43 final size:43
Alignment explanation
Indices: 33440428--33440637 Score: 178
Period size: 43 Copynumber: 4.9 Consensus size: 43
33440418 ACCGAGATGA
* *
33440428 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTAT
** * * *
33440471 GATTTTGTGTAAGACAATGTGTGGGACATTGGCATCAT-TA-TAC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT--TGTATTAT
* *
33440514 GATTATGTGTAAGACCATGTCTGGGACATTGGCATCGT-TTAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTAT
* * * * * * *
33440556 CGATTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCG-ATATGT
1 -GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT-TAT
* * *
33440600 GATAACATGTAAGACCATGTCTGGGATA-TGGCATTGTA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTA
33440638 CGAGCTATAT
Statistics
Matches: 134, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
42 10 0.07
43 119 0.89
44 4 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTAT
Found at i:33440590 original size:86 final size:86
Alignment explanation
Indices: 33440432--33440633 Score: 230
Period size: 86 Copynumber: 2.4 Consensus size: 86
33440422 AGATGAGATT
* * * * *
33440432 ACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTTTGTGTAAGACAATGTGTGGGA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCGTGTAAGACAATGTCTAGGA
* *
33440497 CATTGGCATC-ATTATACGATT
66 CAGTGGCATCGA-TATACGATA
** **
33440518 ATGTGTAAGACCATGTCTGGGACATTGGCATCGT-TTATCGATTTCGTGTAAGACCCTGTCTAGG
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGTATTAT-GATTTCGTGTAAGACAATGTCTAGG
* **
33440582 ATAGTGGCATCGATATGTGATA
65 ACAGTGGCATCGATATACGATA
*
33440604 ACATGTAAGACCATGTCTGGGATA-TGGCAT
1 ACATGTAAGACCATGTCTGGGACATTGGCAT
33440634 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 9 0.09
86 87 0.90
87 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (86 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCGTGTAAGACAATGTCTAGGA
CAGTGGCATCGATATACGATA
Found at i:33441057 original size:20 final size:20
Alignment explanation
Indices: 33441029--33441075 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
33441019 AGTATATATA
*
33441029 TATGTATATATATGATTGCT
1 TATGCATATATATGATTGCT
33441049 TATGCATATATATGATTGCT
1 TATGCATATATATGATTGCT
33441069 TATGCAT
1 TATGCAT
33441076 TTGAAGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (20 bp):
TATGCATATATATGATTGCT
Found at i:33444521 original size:16 final size:16
Alignment explanation
Indices: 33444500--33444532 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33444490 ATAGGTCCTT
33444500 AAATGGTAATTAGACC
1 AAATGGTAATTAGACC
33444516 AAATGGTAATTAGACC
1 AAATGGTAATTAGACC
33444532 A
1 A
33444533 TTAGGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGGTAATTAGACC
Found at i:33445639 original size:53 final size:53
Alignment explanation
Indices: 33445568--33445672 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
33445558 ATAAACTACT
* * * *
33445568 ATAAGGCAAAGATCCCACGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGCAAGACCATGCCAAGACATGACAATGGTAAGTTC
* *
33445621 ATAAGGCAAGGATACCACGCAAGACCATGTCAAGACATGACAATGGTAAGTT
1 ATAAGGCAAAGATACCACGCAAGACCATGCCAAGACATGACAATGGTAAGTT
33445673 TAAAAAAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGCAAGACCATGCCAAGACATGACAATGGTAAGTTC
Found at i:33448902 original size:43 final size:43
Alignment explanation
Indices: 33448854--33449012 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
33448844 TGAGATTACA
* *
33448854 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGTGATTTTG
1 TGTAAGACCATGTCTAGGACATTGGCATTGTATTATGATTTCG
* * * * * *
33448897 TGTAAGACAATGTGTGGGACATTGGTATCAT-TA-TACGATTACG
1 TGTAAGACCATGTCTAGGACATTGGCAT--TGTATTATGATTTCG
* **
33448940 TGTAAGACCATGTCTGGGACATTGGCATCAT-TTATCGATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATTGTATTAT-GATTTCG
* *
33448983 TGTAAGACCTTGTCTAGGACAGTGGCATTG
1 TGTAAGACCATGTCTAGGACATTGGCATTG
33449013 ATATGTAATA
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 3 0.03
43 86 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATTGTATTATGATTTCG
Found at i:33451881 original size:47 final size:47
Alignment explanation
Indices: 33451751--33451896 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 47
33451741 CATGGCAATA
* * * *
33451751 TGTGATATGTGATATCCGTATAAGACCATA-TCTAGGATATGACATCAG
1 TGTGATATGTGAT-TCCGTATAAGACCATAGT-TGGGCTATGGCATCGG
* * *
33451799 TGTGATATCTGTTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TGTGATATGTGATTCCGTATAAGACCATAGTTGGGCTATGGCATCGG
* * *
33451846 TGTGATATGTGCTTCCGTATAAGACCGTAGTTGGGCTATGGCTTCGG
1 TGTGATATGTGATTCCGTATAAGACCATAGTTGGGCTATGGCATCGG
33451893 TGTG
1 TGTG
33451897 TGATATATGA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
47 74 0.87
48 11 0.13
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGATTCCGTATAAGACCATAGTTGGGCTATGGCATCGG
Found at i:33455802 original size:27 final size:27
Alignment explanation
Indices: 33455764--33455819 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
33455754 TCTCACACTT
33455764 GGTTTTCTACCCTTCCATAAGTTATAG
1 GGTTTTCTACCCTTCCATAAGTTATAG
33455791 GGTTTTCTACCCTTCCATAAGTTATAG
1 GGTTTTCTACCCTTCCATAAGTTATAG
33455818 GG
1 GG
33455820 GGTGACCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTTTTCTACCCTTCCATAAGTTATAG
Found at i:33458347 original size:18 final size:18
Alignment explanation
Indices: 33458321--33458356 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33458311 CAACTTCTCG
* *
33458321 TAATTCAAATGATAATAA
1 TAATCCAAATAATAATAA
33458339 TAATCCAAATAATAATAA
1 TAATCCAAATAATAATAA
33458357 GAAGGAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (18 bp):
TAATCCAAATAATAATAA
Found at i:33458764 original size:11 final size:11
Alignment explanation
Indices: 33458750--33458801 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
33458740 TCTTTCAATA
33458750 TTCTCTCAAAT
1 TTCTCTCAAAT
33458761 TTCTCTCAAA-
1 TTCTCTCAAAT
33458771 -TCTCTCAAAT
1 TTCTCTCAAAT
*
33458781 TTCTCTTAAAT
1 TTCTCTCAAAT
*
33458792 TCCTCTCAAA
1 TTCTCTCAAA
33458802 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:33458776 original size:20 final size:21
Alignment explanation
Indices: 33458744--33458801 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
33458734 CTTCAATCTT
33458744 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
33458766 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
33458786 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
33458802 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:33458857 original size:16 final size:15
Alignment explanation
Indices: 33458828--33458858 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33458818 TCAAAAAAGC
*
33458828 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
33458843 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
33458858 T
1 T
33458859 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:33460701 original size:54 final size:54
Alignment explanation
Indices: 33460522--33460819 Score: 212
Period size: 54 Copynumber: 5.2 Consensus size: 54
33460512 TAAAAGGTTG
* *
33460522 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * *
33460576 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTAATTAGAT-AAAAGGTTA
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGAAAA--TTA
* * *
33460638 TTTTGAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * *
33460692 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCTTGTGATAATAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TA-TT-TT-TAATAAAATGAAAA--TTA
33460754 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
33460808 TTTTAAATAAAG
1 TTTTAAATAAAG
33460820 CAATATTTTG
Statistics
Matches: 189, Mismatches: 27, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
54 38 0.20
55 16 0.08
56 24 0.13
57 12 0.06
58 22 0.12
59 12 0.06
60 23 0.12
61 16 0.08
62 26 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:33460706 original size:116 final size:116
Alignment explanation
Indices: 33460502--33460855 Score: 618
Period size: 116 Copynumber: 3.1 Consensus size: 116
33460492 CCCACACAAT
33460502 TGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
1 TGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
33460567 TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCA
66 TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCA
* *
33460618 TGTAATTAGATAAAAGGTTATTTTGAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
1 TGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
*
33460683 TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCT
66 TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCA
* * * *
33460734 TGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAA
1 TGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
* * *
33460799 TGAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTTATATTATTTCA
66 TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCA
33460850 TGTAAT
1 TGTAAT
33460856 AAAATATAAA
Statistics
Matches: 224, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 224 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (116 bp):
TGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAA
TGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCA
Found at i:33464043 original size:126 final size:125
Alignment explanation
Indices: 33463818--33464342 Score: 757
Period size: 126 Copynumber: 4.2 Consensus size: 125
33463808 CAGAAACCAT
* * *
33463818 TGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACTTG
1 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTACTTTTGCTGAAAATGCATCCTGCTTG
** * * * *
33463883 AAGCGTTTTTGACACTATTTATGCGGACATGTCTTCTTAAAATTATTTTTTCAGAGACCAC
66 AAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
* * *
33463944 TGTAGCAAAAGAGCATCTACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCATCCTGCTTG
1 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTACTTTTGCTGAAAATGCATCCTGCTTG
* *
33464009 AAGCGTTTTTACCACTATTTGCGCAAACACGTCTTTTCAAAATTATTTTTTCAGAGACTAC
66 AAGCGTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
* * *
33464070 TGTAGCAAAAAAGCGTCCACGTGGAAGCTTCTTTCC-GTACTTTTGCTGACAATGCATCCTGCTT
1 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTC-TTCCAGTACTTTTGCTGAAAATGCATCCTGCTT
* * * *
33464134 GAAGCATTTTTTACACTATTTGCACATACACGTCTTCTCAAAATTATTTTTTCAGATACTAC
65 GAAGC-GTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
* *
33464196 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTG
1 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTACTTTTGCTGAAAATGCATCCTGCTTG
* *
33464261 AAGCGTTTTTAACACTATTTGTGCAGACACGTCTTCTCAAATTTA-TTTTTCAGAGACTAC
66 AAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
*
33464321 TGTACCAAAAGAGCGTCCACGT
1 TGTAGCAAAAGAGCGTCCACGT
33464343 AAAAGCTTTT
Statistics
Matches: 359, Mismatches: 35, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
125 44 0.12
126 305 0.85
127 10 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (125 bp):
TGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTACTTTTGCTGAAAATGCATCCTGCTTG
AAGCGTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
Found at i:33465865 original size:29 final size:29
Alignment explanation
Indices: 33465810--33465909 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
33465800 CCTGTATCTA
* *
33465810 GCCCATTAAGCCC-AATCATAT-TCATATG
1 GCCCATTAGGCCCAAATCACATGT-ATATG
* *
33465838 GCCCATTAGGCTCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
33465867 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
33465896 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
33465910 GTCCCATTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.18
29 50 0.81
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTATATG
Found at i:33466158 original size:16 final size:16
Alignment explanation
Indices: 33466137--33466175 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
33466127 CCAAACTTTC
*
33466137 GGCTTTTCGGCATTTT
1 GGCTTTTCGACATTTT
*
33466153 GGCTTTTCTACATTTT
1 GGCTTTTCGACATTTT
33466169 GGCTTTT
1 GGCTTTT
33466176 GCCGATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.18, G:0.21, T:0.54
Consensus pattern (16 bp):
GGCTTTTCGACATTTT
Found at i:33477779 original size:39 final size:39
Alignment explanation
Indices: 33477575--33477797 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
33477565 TTGAATGCTG
* * * * *
33477575 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
33477615 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
33477654 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
33477695 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
33477735 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
33477774 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33477798 AGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:33477817 original size:79 final size:80
Alignment explanation
Indices: 33477655--33477832 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
33477645 AGATACAAAT
* * * * *
33477655 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTA
** * *
33477720 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
33477735 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTA
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTA
*
33477799 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33477814 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33477833 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTA
GAACGAGTGACTAAA
Found at i:33486514 original size:20 final size:21
Alignment explanation
Indices: 33486489--33486528 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33486479 CACTTGAAAC
33486489 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
33486509 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
33486529 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:33487296 original size:22 final size:22
Alignment explanation
Indices: 33487268--33487313 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33487258 ATACAAAAGT
33487268 AAGCCAACACATTTGGCCCCAA
1 AAGCCAACACATTTGGCCCCAA
33487290 AAGCCAACACATTTGGCCCCAA
1 AAGCCAACACATTTGGCCCCAA
33487312 AA
1 AA
33487314 CAATGTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.35, G:0.13, T:0.13
Consensus pattern (22 bp):
AAGCCAACACATTTGGCCCCAA
Found at i:33487629 original size:24 final size:24
Alignment explanation
Indices: 33487601--33487647 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33487591 TTTTTCTCTT
33487601 TTTCTCAGGCAAAGGCAAATCTCA
1 TTTCTCAGGCAAAGGCAAATCTCA
*
33487625 TTTCTTAGGCAAAGGCAAATCTC
1 TTTCTCAGGCAAAGGCAAATCTC
33487648 TCTTTCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (24 bp):
TTTCTCAGGCAAAGGCAAATCTCA
Found at i:33493466 original size:29 final size:29
Alignment explanation
Indices: 33493424--33493485 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
33493414 TGACAATTTC
33493424 TAGCATACGAATTTCGCAGCTATTATAAT
1 TAGCATACGAATTTCGCAGCTATTATAAT
* *
33493453 TAGCATACGAATTTCGCATCTATTATGAT
1 TAGCATACGAATTTCGCAGCTATTATAAT
33493482 TAGC
1 TAGC
33493486 CAATAATCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (29 bp):
TAGCATACGAATTTCGCAGCTATTATAAT
Found at i:33496432 original size:14 final size:16
Alignment explanation
Indices: 33496412--33496450 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
33496402 AAACAGTTTA
33496412 AAATATA-AATTTATT
1 AAATATATAATTTATT
33496427 AATATATATAATTTATT
1 AA-ATATATAATTTATT
33496444 -AATATAT
1 AAATATAT
33496451 GTAAAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATATAATTTATT
Done.