Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 107 of 208
Found at i:32446427 original size:43 final size:43
Alignment explanation
Indices: 32446340--32446624 Score: 308
Period size: 43 Copynumber: 6.5 Consensus size: 43
32446330 TTTAATTGTC
32446340 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTAA
* **
32446389 AAACTCTAACCCTTAACTTAAAAACCCTAAACTTTTAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*
32446432 AAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * *
32446476 AAACCCTAACCATTGACTTTAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* **** * * *
32446519 AAACCCTAACTC-TAACCCCTAAACCAT-AATCCTTGAA-TAAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTT-AACTTAA
32446560 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
**
32446603 AAATTCTAACCCTTAACTTAAA
1 AAACCCTAACCCTTAACTTAAA
32446625 TATAATTTGA
Statistics
Matches: 200, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
41 16 0.08
42 32 0.16
43 84 0.42
44 40 0.20
47 1 0.00
48 21 0.10
49 6 0.03
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.25
Consensus pattern (43 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:32446760 original size:37 final size:37
Alignment explanation
Indices: 32446718--32446886 Score: 121
Period size: 37 Copynumber: 4.5 Consensus size: 37
32446708 TTTTGACTGG
32446718 TACTAACAATTAATAATTTGATATAATTTGATAATTT
1 TACTAACAATTAATAATTTGATATAATTTGATAATTT
* * * *
32446755 TACTAACCATTAATACAATT-AT-CAA-TTAATAATTT
1 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
* * ** * * * **
32446790 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTAACTGG
1 TAC--TAACA-ATTAATA-ATTTGATATAAT-TTGATAA-TTT
*
32446832 TACTAATAATTAATAATTTGATATAATTTGATAATTT
1 TACTAACAATTAATAATTTGATATAATTTGATAATTT
32446869 TACTAACAATTAATAATT
1 TACTAACAATTAATAATT
32446887 GAAAAAAATA
Statistics
Matches: 95, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
35 12 0.13
36 2 0.02
37 39 0.41
38 23 0.24
39 5 0.05
40 5 0.05
41 3 0.03
42 6 0.06
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (37 bp):
TACTAACAATTAATAATTTGATATAATTTGATAATTT
Found at i:32446763 original size:114 final size:114
Alignment explanation
Indices: 32446624--32446883 Score: 493
Period size: 114 Copynumber: 2.3 Consensus size: 114
32446614 CTTAACTTAA
32446624 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
*
32446689 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTAACTGGTACTAACAATTAATAATTTG
32446738 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
*
32446803 TGTTAGATTTGAAAAAATGTTTTAACTGGTACTAATAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTAACTGGTACTAACAATTAATAATTTG
*
32446852 ATATAATTTGATAATTTTACTAACAATTAATA
1 ATATAATTTGATAATTTTACTAACCATTAATA
32446884 ATTGAAAAAA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 143 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGTTAGATTTGAAAAAATGTTTTAACTGGTACTAACAATTAATAATTTG
Found at i:32449816 original size:94 final size:94
Alignment explanation
Indices: 32449650--32449838 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
32449640 AAAATTTTAC
*
32449650 GCCTAATTCTTTTACGAAGTTCTGTCAAATCTATGTTCTGGTTAAAAACGATTCGCACCGTATTC
1 GCCTAATTCTTTTACGAAGTTCTGTCAAATCTATGTTCTGGTTAAAAACGAGTCGCACCGTATTC
32449715 TCAGACAAAAAAACAACACCATTCTCGGT
66 TCAGACAAAAAAACAACACCATTCTCGGT
* *
32449744 GCCTAATTCTTTTACGAAGTTCTGTCAAATCTATGTTCTGGTTAAAAACTAGTCGCATCGTATTC
1 GCCTAATTCTTTTACGAAGTTCTGTCAAATCTATGTTCTGGTTAAAAACGAGTCGCACCGTATTC
*
32449809 TCGGACAAAAAAACAACACCATTCTCGGT
66 TCAGACAAAAAAACAACACCATTCTCGGT
32449838 G
1 G
32449839 TGACAAACCT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (94 bp):
GCCTAATTCTTTTACGAAGTTCTGTCAAATCTATGTTCTGGTTAAAAACGAGTCGCACCGTATTC
TCAGACAAAAAAACAACACCATTCTCGGT
Found at i:32450435 original size:126 final size:125
Alignment explanation
Indices: 32449991--32450432 Score: 611
Period size: 126 Copynumber: 3.5 Consensus size: 125
32449981 CCCAAACATG
* * * * *
32449991 CTACTGAAGCAAAAGCACGTCTACGAGGGTGTGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * *
32450055 CTAGAAGCG-TTTTTGTACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
32450115 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
32450179 CTTGAAGCGTTTTTTAAACTATTTGCACAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* **
32450241 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTAT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
32450306 TTGAAGCGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * * * *
32450366 TTACTATAGCAAATGCGCGTACACGTGGGCGCGACTTCAGAAATCCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
32450431 TT
66 TT
32450433 TGATTTTATC
Statistics
Matches: 284, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
124 66 0.23
125 101 0.36
126 115 0.40
127 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:32455423 original size:42 final size:42
Alignment explanation
Indices: 32455340--32455426 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
32455330 ACAGCCTAGC
* *
32455340 ACATGGCCTGACACACGGACGCGTGTGACAATTCAGAGAGTT
1 ACATGGCCTGACACACGGACGCGTATGACAACTCAGAGAGTT
* * *
32455382 ACATGGCCTGACACACAGG-CGTGTATGGCAACTCAGTGAGTT
1 ACATGGCCTGACACAC-GGACGCGTATGACAACTCAGAGAGTT
32455424 ACA
1 ACA
32455427 CAGGTGAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.20
Consensus pattern (42 bp):
ACATGGCCTGACACACGGACGCGTATGACAACTCAGAGAGTT
Found at i:32459491 original size:136 final size:136
Alignment explanation
Indices: 32459240--32459492 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 136
32459230 TGCATCTAAT
* * * ** ** *
32459240 TGTGCGTTGTGTACCTACAACAAAAGTAGATTCCGTCTGCATCCATTTTGTCATGCAAGCACAAC
1 TGTGCGTTGTATACCTACAACAAAAGCAGAGTCCAACTGCATCCATTTTACCATGAAAGCACAAC
* * * *
32459305 CCTCTGACAACTTTTAGGTACAAGTATGTTGTGCTTCCACGACTATTGGCAGGTTTAATTTGCAT
66 CCTCTAACAACTTTTAGCTACAAGTATGTTGTGCTTCCACGACCAGTGGCAGGTTTAATTTGCAT
32459370 TATATG
131 TATATG
*
32459376 TGTGCGTTGTATATCC-ACAGCAAAAGCAGAGTCCAACTGCATCCATTTTACCAT-AAGAGCACA
1 TGTGCGTTGTATA-CCTACAACAAAAGCAGAGTCCAACTGCATCCATTTTACCATGAA-AGCACA
* * * *
32459439 ACCTTCTAACAGCTTTTATCTACGAGTATGTTGTGCTTCCACGACCAGTGGCAG
64 ACCCTCTAACAACTTTTAGCTACAAGTATGTTGTGCTTCCACGACCAGTGGCAG
32459493 TGAAAACTGC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
135 1 0.01
136 95 0.97
137 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (136 bp):
TGTGCGTTGTATACCTACAACAAAAGCAGAGTCCAACTGCATCCATTTTACCATGAAAGCACAAC
CCTCTAACAACTTTTAGCTACAAGTATGTTGTGCTTCCACGACCAGTGGCAGGTTTAATTTGCAT
TATATG
Found at i:32460166 original size:17 final size:17
Alignment explanation
Indices: 32460140--32460198 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
32460130 TTTAAGGTTA
32460140 TATTAATATTTGATATT
1 TATTAATATTTGATATT
*
32460157 TATTAGTA-TT-A-ATT
1 TATTAATATTTGATATT
32460171 ATATTAATATTTGATATT
1 -TATTAATATTTGATATT
*
32460189 TATTAGTATT
1 TATTAATATT
32460199 AATTAATTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.09
15 8 0.23
16 4 0.11
17 17 0.49
18 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (17 bp):
TATTAATATTTGATATT
Found at i:32460218 original size:36 final size:32
Alignment explanation
Indices: 32460137--32460207 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
32460127 TCATTTAAGG
32460137 TTATATTAATATTTGATATTTATTAGTATTAA
1 TTATATTAATATTTGATATTTATTAGTATTAA
32460169 TTATATTAATATTTGATATTTATTAGTATTAA
1 TTATATTAATATTTGATATTTATTAGTATTAA
32460201 TTA-ATTA
1 TTATATTA
32460208 GGATGATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
31 4 0.10
32 35 0.90
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (32 bp):
TTATATTAATATTTGATATTTATTAGTATTAA
Found at i:32462333 original size:21 final size:21
Alignment explanation
Indices: 32462305--32462389 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
32462295 TTTGGGTGGA
*
32462305 TCAGCTCTCCTGAGCTTCTGT
1 TCAGCTCTCATGAGCTTCTGT
* *
32462326 TTAGCTCTTATGAGCTTCTGT
1 TCAGCTCTCATGAGCTTCTGT
* *
32462347 TCAGCTCT-TTCGAGCTTATGT
1 TCAGCTCTCAT-GAGCTTCTGT
* * * *
32462368 TAAGCTTTTATGAGCTTTTGT
1 TCAGCTCTCATGAGCTTCTGT
32462389 T
1 T
32462390 GGCGTGTTCG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.02
21 50 0.96
22 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (21 bp):
TCAGCTCTCATGAGCTTCTGT
Found at i:32462351 original size:42 final size:42
Alignment explanation
Indices: 32462305--32462389 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
32462295 TTTGGGTGGA
* *
32462305 TCAGCTCTC-CTGAGCTTCTGTTTAGCTCTTATGAGCTTCTGT
1 TCAGCTCTCTC-GAGCTTATGTTAAGCTCTTATGAGCTTCTGT
* * *
32462347 TCAGCTCTTTCGAGCTTATGTTAAGCTTTTATGAGCTTTTGT
1 TCAGCTCTCTCGAGCTTATGTTAAGCTCTTATGAGCTTCTGT
32462389 T
1 T
32462390 GGCGTGTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (42 bp):
TCAGCTCTCTCGAGCTTATGTTAAGCTCTTATGAGCTTCTGT
Found at i:32471329 original size:16 final size:16
Alignment explanation
Indices: 32471308--32471338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32471298 TTGTTTTAAT
32471308 ATAAATGAATCTATGC
1 ATAAATGAATCTATGC
*
32471324 ATAAATGTATCTATG
1 ATAAATGAATCTATG
32471339 TTGTGATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (16 bp):
ATAAATGAATCTATGC
Found at i:32480139 original size:15 final size:15
Alignment explanation
Indices: 32480119--32480152 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32480109 ATATGTTAAT
32480119 AATAATATAAA-ATAA
1 AATAATA-AAAGATAA
32480134 AATAATAAAAGATAA
1 AATAATAAAAGATAA
32480149 AATA
1 AATA
32480153 TTAGAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAAAAGATAA
Found at i:32480849 original size:35 final size:35
Alignment explanation
Indices: 32480783--32481067 Score: 171
Period size: 35 Copynumber: 8.1 Consensus size: 35
32480773 GGCCACTTAT
* * ** * *
32480783 TTGTCAGTTCTACTGACCAGCACAGGACACATTTA
1 TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
32480818 TTGTC-GATTATACCGACCAGTGCTGGGCACATTTA
1 TTGTCAG-TTATACCGACCAGTGCTGGGCACATTTA
* * * * * * ***
32480853 TTCTTCAGTTCTATCAACTAGCGCAATGCACATTTA
1 TT-GTCAGTTATACCGACCAGTGCTGGGCACATTTA
* * *
32480889 TTGTCGGTTATACCGACCAGTGATGGGCACACTTA
1 TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
* * ** * *
32480924 TTTTTCAGTTCTATTGACCAGCG-TAGG-ATGCATTTA
1 -TTGTCAGTTATACCGACCAGTGCTGGGCA--CATTTA
*
32480960 TTGTCAGTTATACCGACCAGTGCTGGGCACACTTA
1 TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
* * * ** * *
32480995 TTTTTCGGTTCTATAGACCAGCGCAGGGCACATTTA
1 -TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
* * * *
32481031 TTATCAGTTATACCGACTAGTGCTAGGCACACTTA
1 TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
32481066 TT
1 TT
32481068 TGTTGGTTTT
Statistics
Matches: 181, Mismatches: 60, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
34 2 0.01
35 102 0.56
36 75 0.41
37 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (35 bp):
TTGTCAGTTATACCGACCAGTGCTGGGCACATTTA
Found at i:32480900 original size:71 final size:70
Alignment explanation
Indices: 32480776--32481068 Score: 333
Period size: 71 Copynumber: 4.1 Consensus size: 70
32480766 ATTGAATGGC
* * * *
32480776 CACTTATTTGTCAGTTCTACTGACCAGCAC-AGGACACATTTATTGTC-GATTATACCGACCAGT
1 CACTTATTTTTCAGTTCTA-TAACCAGCGCAATG-CACATTTATTGTCAG-TTATACCGACCAGT
32480839 GCTGGGCA
63 GCTGGGCA
* * * * *
32480847 CATTTATTCTTCAGTTCTATCAACTAGCGCAATGCACATTTATTGTCGGTTATACCGACCAGTGA
1 CACTTATTTTTCAGTTCTAT-AACCAGCGCAATGCACATTTATTGTCAGTTATACCGACCAGTGC
32480912 TGGGCA
65 TGGGCA
* *
32480918 CACTTATTTTTCAGTTCTATTGACCAGCGTAGGATG--CATTTATTGTCAGTTATACCGACCAGT
1 CACTTATTTTTCAGTTCTA-TAACCAGCGCA--ATGCACATTTATTGTCAGTTATACCGACCAGT
32480981 GCTGGGCA
63 GCTGGGCA
* ** * *
32480989 CACTTATTTTTCGGTTCTATAGACCAGCGCAGGGCACATTTATTATCAGTTATACCGACTAGTGC
1 CACTTATTTTTCAGTTCTATA-ACCAGCGCAATGCACATTTATTGTCAGTTATACCGACCAGTGC
*
32481054 TAGGCA
65 TGGGCA
32481060 CACTTATTT
1 CACTTATTT
32481069 GTTGGTTTTA
Statistics
Matches: 190, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
69 1 0.01
70 2 0.01
71 180 0.95
72 4 0.02
73 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (70 bp):
CACTTATTTTTCAGTTCTATAACCAGCGCAATGCACATTTATTGTCAGTTATACCGACCAGTGCT
GGGCA
Found at i:32481024 original size:36 final size:36
Alignment explanation
Indices: 32480776--32481032 Score: 107
Period size: 36 Copynumber: 7.2 Consensus size: 36
32480766 ATTGAATGGC
* * *
32480776 CACTTATTTGTCAGTTCTACT-GACCAGCACAGGACA
1 CACTTATTTTTCAGTTCTA-TAGACCAGCGCAGGGCA
* * * * *
32480812 CATTTA-TTGTC-GAT-TATACCGACCAGTGCTGGGCA
1 CACTTATTTTTCAGTTCTATA--GACCAGCGCAGGGCA
* * * **
32480847 CATTTATTCTTCAGTTCTATCA-ACTAGCGCAATGCA
1 CACTTATTTTTCAGTTCTAT-AGACCAGCGCAGGGCA
* * * * ** *
32480883 CATTTA-TTGTCGGTTATACCGACCAGTG-ATGGGCA
1 CACTTATTTTTCAGTTCTATAGACCAGCGCA-GGGCA
* * ***
32480918 CACTTATTTTTCAGTTCTATTGACCAGCGTAGGATG
1 CACTTATTTTTCAGTTCTATAGACCAGCGCAGGGCA
* * * ** * *
32480954 CATTTA-TTGTCAGTTATACCGACCAGTGCTGGGCA
1 CACTTATTTTTCAGTTCTATAGACCAGCGCAGGGCA
*
32480989 CACTTATTTTTCGGTTCTATAGACCAGCGCAGGGCA
1 CACTTATTTTTCAGTTCTATAGACCAGCGCAGGGCA
*
32481025 CATTTATT
1 CACTTATT
32481033 ATCAGTTATA
Statistics
Matches: 155, Mismatches: 54, Indels: 24
0.67 0.23 0.10
Matches are distributed among these distances:
32 1 0.01
33 2 0.01
34 3 0.02
35 67 0.43
36 75 0.48
37 3 0.02
38 3 0.02
39 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (36 bp):
CACTTATTTTTCAGTTCTATAGACCAGCGCAGGGCA
Found at i:32481032 original size:142 final size:142
Alignment explanation
Indices: 32480776--32481116 Score: 427
Period size: 142 Copynumber: 2.4 Consensus size: 142
32480766 ATTGAATGGC
* ** *
32480776 CACTTATTTGTCAGTTCTACTGACCAGCACAGGACACATTTATTGTCGATTATACCGACCAGTGC
1 CACTTATTTTTCAGTTCTACTGACCAGCGTAGGACGCATTTATTGTCGATTATACCGACCAGTGC
* * * * *
32480841 TGGGCACATTTATTCTTCAGTTCTATCAACTAGCGCAATGCACATTTATTGTCGGTTATACCGAC
66 TGGGCACACTTATTCTTCAGTTCTATCAACCAGCGCAAGGCACATTTATTATCAGTTATACCGAC
*
32480906 CAGTGATGGGCA
131 CAGTGATAGGCA
* *
32480918 CACTTATTTTTCAGTTCTATTGACCAGCGTAGGATGCATTTATTGTC-AGTTATACCGACCAGTG
1 CACTTATTTTTCAGTTCTACTGACCAGCGTAGGACGCATTTATTGTCGA-TTATACCGACCAGTG
* * *
32480982 CTGGGCACACTTATTTTTCGGTTCTAT-AGACCAGCGCAGGGCACATTTATTATCAGTTATACCG
65 CTGGGCACACTTATTCTTCAGTTCTATCA-ACCAGCGCAAGGCACATTTATTATCAGTTATACCG
* *
32481046 ACTAGTGCTAGGCA
129 ACCAGTGATAGGCA
* * * * *
32481060 CACTTATTTGTT-GGTTTTACTGACCAGTGTAGGACGTATTTATTTTTCGATTATACC
1 CACTTATTT-TTCAGTTCTACTGACCAGCGTAGGACGCATTTA-TTGTCGATTATACC
32481117 AGCAAGTGCT
Statistics
Matches: 170, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
141 2 0.01
142 154 0.91
143 13 0.08
144 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (142 bp):
CACTTATTTTTCAGTTCTACTGACCAGCGTAGGACGCATTTATTGTCGATTATACCGACCAGTGC
TGGGCACACTTATTCTTCAGTTCTATCAACCAGCGCAAGGCACATTTATTATCAGTTATACCGAC
CAGTGATAGGCA
Found at i:32481101 original size:71 final size:70
Alignment explanation
Indices: 32480776--32481103 Score: 311
Period size: 71 Copynumber: 4.6 Consensus size: 70
32480766 ATTGAATGGC
* * ** *
32480776 CACTTATTTGTCAGTTCTACTGACCAGCACAGGACACATTTATTGTC-GATTATACCGACCAGTG
1 CACTTATTTTTCGGTTCTA-TGACCAGCGTAGGACGCATTTATTGTCAG-TTATACCGACCAGTG
*
32480840 CTGGGCA
64 CTAGGCA
* * * * * * * * *
32480847 CATTTATTCTTCAGTTCTATCAACTAGCGCAATG-CACATTTATTGTCGGTTATACCGACCAGTG
1 CACTTATTTTTCGGTTCTAT-GACCAGCG-TAGGACGCATTTATTGTCAGTTATACCGACCAGTG
* *
32480911 ATGGGCA
64 CTAGGCA
* *
32480918 CACTTATTTTTCAGTTCTATTGACCAGCGTAGGATGCATTTATTGTCAGTTATACCGACCAGTGC
1 CACTTATTTTTCGGTTCTA-TGACCAGCGTAGGACGCATTTATTGTCAGTTATACCGACCAGTGC
*
32480983 TGGGCA
65 TAGGCA
* * * * *
32480989 CACTTATTTTTCGGTTCTATAGACCAGCGCAGGGCACATTTATTATCAGTTATACCGACTAGTGC
1 CACTTATTTTTCGGTTCTAT-GACCAGCGTAGGACGCATTTATTGTCAGTTATACCGACCAGTGC
32481054 TAGGCA
65 TAGGCA
* * *
32481060 CACTTATTTGTT-GGTTTTACTGACCAGTGTAGGACGTATTTATT
1 CACTTATTT-TTCGGTTCTA-TGACCAGCGTAGGACGCATTTATT
32481104 TTTCGATTAT
Statistics
Matches: 216, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
70 4 0.02
71 205 0.95
72 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (70 bp):
CACTTATTTTTCGGTTCTATGACCAGCGTAGGACGCATTTATTGTCAGTTATACCGACCAGTGCT
AGGCA
Found at i:32489525 original size:19 final size:19
Alignment explanation
Indices: 32489490--32489532 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
32489480 TTTTATGTGG
*
32489490 TTATTTGATCTATTTTGAC
1 TTATTTGATCTAGTTTGAC
32489509 ATTATTT-ATCTAGTTTGAC
1 -TTATTTGATCTAGTTTGAC
32489528 TTATT
1 TTATT
32489533 CTTTTGATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (19 bp):
TTATTTGATCTAGTTTGAC
Found at i:32490249 original size:16 final size:16
Alignment explanation
Indices: 32490212--32490255 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
32490202 ACATAATTAG
32490212 AATTTGATTGAAAAAAT
1 AATTTGATT-AAAAAAT
* *
32490229 AATTTGATTAAAGATT
1 AATTTGATTAAAAAAT
*
32490245 AATTTAATTAA
1 AATTTGATTAA
32490256 TTAATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
AATTTGATTAAAAAAT
Found at i:32490939 original size:22 final size:24
Alignment explanation
Indices: 32490907--32490951 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
32490897 TTTTTCAAAT
32490907 ATAATTTAAATAA-AAAATTTTAA
1 ATAATTTAAATAACAAAATTTTAA
*
32490930 ATAA-TTAAATAACCAAATTTTA
1 ATAATTTAAATAACAAAATTTTA
32490952 TATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATTTAAATAACAAAATTTTAA
Found at i:32490960 original size:23 final size:22
Alignment explanation
Indices: 32490910--32490960 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
32490900 TTCAAATATA
32490910 ATTTAAATAAAAAATTTTAAAT
1 ATTTAAATAAAAAATTTTAAAT
* * *
32490932 AATTAAATAACCAAATTTTATAT
1 ATTTAAATAA-AAAATTTTAAAT
*
32490955 TTTTAA
1 ATTTAA
32490961 TTAAGTGACT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTAAATAAAAAATTTTAAAT
Found at i:32491152 original size:15 final size:17
Alignment explanation
Indices: 32491133--32491173 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
32491123 TAATTTTTTA
32491133 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
32491149 -AAATTATAAAAATAAT
1 AAAATTATAAAAATAAT
32491165 AAAATTATA
1 AAAATTATA
32491174 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.57
16 2 0.09
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:32505773 original size:21 final size:21
Alignment explanation
Indices: 32505727--32505782 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32505717 TACTCGCTTG
*
32505727 AATGTTGCGACATTCAATACTG
1 AATGTTGCGAC-TTCAATACTC
*
32505749 AATGTTGCGACTTC-ATAGTCC
1 AATGTTGCGACTTCAATACT-C
*
32505770 AATGTTGCAACTT
1 AATGTTGCGACTT
32505783 TGCTTCATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 15 0.50
22 11 0.37
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (21 bp):
AATGTTGCGACTTCAATACTC
Found at i:32507316 original size:77 final size:77
Alignment explanation
Indices: 32507189--32507342 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
32507179 AGTAAGTAAG
*
32507189 ATCTAAGTTCCTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
1 ATCTAAGTTACTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
32507254 ATCTATCAAATT
66 ATCTATCAAATT
32507266 ATCTAAGTTACTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
1 ATCTAAGTTACTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
32507331 ATCTATCAAATT
66 ATCTATCAAATT
32507343 GCTTGTTGTT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (77 bp):
ATCTAAGTTACTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
ATCTATCAAATT
Found at i:32514477 original size:24 final size:24
Alignment explanation
Indices: 32514445--32514490 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
32514435 ATATTGATTA
* *
32514445 ATACCATTGTAATTACAT-AATAAC
1 ATACAATTG-AATAACATGAATAAC
32514469 ATACAATTGAATAACATGAATA
1 ATACAATTGAATAACATGAATA
32514491 TAGCAATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (24 bp):
ATACAATTGAATAACATGAATAAC
Found at i:32522333 original size:13 final size:13
Alignment explanation
Indices: 32522312--32522346 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
32522302 ATTATTCAAC
32522312 TAAAAAATTTTAT
1 TAAAAAATTTTAT
*
32522325 TAAAGAATTTTAT
1 TAAAAAATTTTAT
*
32522338 TGAAAAATT
1 TAAAAAATT
32522347 AATTTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (13 bp):
TAAAAAATTTTAT
Found at i:32528238 original size:14 final size:14
Alignment explanation
Indices: 32528219--32528248 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32528209 GATACTTAAC
32528219 GTGAGAACTTCTAG
1 GTGAGAACTTCTAG
32528233 GTGAGAACTTCTAG
1 GTGAGAACTTCTAG
32528247 GT
1 GT
32528249 TTGGCGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (14 bp):
GTGAGAACTTCTAG
Found at i:32528391 original size:25 final size:25
Alignment explanation
Indices: 32528351--32528415 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
32528341 TCGCATAATA
*
32528351 CGCCATAAAGGCTTTATAGAGAATT
1 CGCCACAAAGGCTTTATAGAGAATT
*
32528376 CGTCACAAAGGCTTTATAGAGAATT
1 CGCCACAAAGGCTTTATAGAGAATT
*
32528401 CGCCACAAATGCTTT
1 CGCCACAAAGGCTTT
32528416 GTTTGAATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (25 bp):
CGCCACAAAGGCTTTATAGAGAATT
Found at i:32536545 original size:50 final size:50
Alignment explanation
Indices: 32536432--32536678 Score: 307
Period size: 50 Copynumber: 4.8 Consensus size: 50
32536422 ATTTGGGTGA
*
32536432 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
32536488 AGAGGTCCCATGTAAGACCATGTCTCGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
32536538 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
32536588 AGAGG-CCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** *
32536637 AGAACTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32536679 TGTTATTATC
Statistics
Matches: 174, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
49 43 0.25
50 85 0.49
52 1 0.01
53 4 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:32536646 original size:99 final size:104
Alignment explanation
Indices: 32536437--32536678 Score: 341
Period size: 99 Copynumber: 2.4 Consensus size: 104
32536427 GGTGAAGAGA
32536437 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCTT-AGATCATGAGAGGTCCCATGTA
* * **
32536502 AGACCATGTCTCGGACATGGCGTTGGCACCGAGACGAGAGG
64 AGACCATGTCTCGGACATGGCATGGGCACCGAGACGAGAAC
* *
32536543 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-T-GAT-ATGAGAGG-CCCCTGTAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTTAGATCATGAGAGGTCCCATGTAAG
* * *
32536603 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
66 ACCATGTCTCGGACATGGCATGGGCACCGAGACGAGAAC
*
32536642 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32536679 TGTTATTATC
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
99 77 0.61
100 8 0.06
101 3 0.02
103 1 0.01
104 1 0.01
106 36 0.29
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (104 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTTAGATCATGAGAGGTCCCATGTAAG
ACCATGTCTCGGACATGGCATGGGCACCGAGACGAGAAC
Found at i:32538468 original size:48 final size:49
Alignment explanation
Indices: 32538407--32538653 Score: 198
Period size: 48 Copynumber: 5.1 Consensus size: 49
32538397 AAAATAGATT
* * *
32538407 TCTCGGTGGCCTACACACAGTTC-GTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
* * *
32538455 TCTCGGTGGCCTACACATAG-TCTGTGCCACCCTTGTATCATAACAGAA
1 TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
* * * * **
32538503 TATTGGTGGCCTACACACAG-TCTGTGCAACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
* * * * * * **
32538551 TATTGGTGGTCTGCACACAG-TCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
* * * * * * **
32538599 TATTGGTGGCTTGCACACAG-TCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
*
32538647 TATCGGT
1 TCTCGGT
32538654 ACGCATAGTA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 2 0.01
48 178 0.99
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
TCTCGGTGGCCTACACACAGTTCTGTACCACCCTTGTATAATAACAGAA
Found at i:32538578 original size:96 final size:96
Alignment explanation
Indices: 32538411--32538649 Score: 307
Period size: 96 Copynumber: 2.5 Consensus size: 96
32538401 TAGATTTCTC
* * * * * ** * * * *
32538411 GGTGGCCTACACACAGTTCGTACCACCTTTGTGTAATAACAGACTCTCGGTGGCCTACACATAGT
1 GGTGGCCTACACACAGTCCGTGCAACCCTTGTATCTTAACAGAATATTGGTGGCCTACACACAGT
*
32538476 CTGTGCCACCCTTGTATCATAACAGAATATT
66 CCGTGCCACCCTTGTATCATAACAGAATATT
* * *
32538507 GGTGGCCTACACACAGTCTGTGCAACCCTTGTATCTTAACAGAATATTGGTGGTCTGCACACAGT
1 GGTGGCCTACACACAGTCCGTGCAACCCTTGTATCTTAACAGAATATTGGTGGCCTACACACAGT
*
32538572 CCGTGCCACCCTTGTATCTTAACAGAATATT
66 CCGTGCCACCCTTGTATCATAACAGAATATT
* * *
32538603 GGTGGCTTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATAT
1 GGTGGCCTACACACAGTCCGTGCAACCCTTGTATCTTAACAGAATAT
32538650 CGGTACGCAT
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 123 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (96 bp):
GGTGGCCTACACACAGTCCGTGCAACCCTTGTATCTTAACAGAATATTGGTGGCCTACACACAGT
CCGTGCCACCCTTGTATCATAACAGAATATT
Found at i:32540362 original size:132 final size:132
Alignment explanation
Indices: 32540213--32540588 Score: 585
Period size: 131 Copynumber: 2.9 Consensus size: 132
32540203 GGAGATAAAG
* * *
32540213 CTGGTGACTTAAATCTGCTTTCCTACTACCTCGGGAAGATAAGACTCGTCGTCTTTGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCAGGAAGATAAGATTCGTCGTCTTTGATCTGCTC
*
32540278 CACTACTGCTTAGGGAGACAGGATGTACAATCTTCAACCTACTCCACTACTACTC-AGGGAAATA
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTACTCAAGGG-AATA
32540342 GGA
130 GGA
* * *
32540345 CTGGTGGCTTAAATCTGCTTT-CTACTATCTCAGGAAGATAAGATTCGTCATCTTCGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCAGGAAGATAAGATTCGTCGTCTTTGATCTGCTC
* * *
32540409 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGGGATAG
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTACTCAAGGGAATAG
32540474 GA
131 GA
* * * * *
32540476 CTAGTGGCTTAAATCTGCTTCCCTACTACCTTAAGAAGATAAGATTCGCCGTCTTTGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCAGGAAGATAAGATTCGTCGTCTTTGATCTGCTC
*
32540541 CACTACTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACT
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
32540589 GCAAACTTAG
Statistics
Matches: 223, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
131 115 0.52
132 108 0.48
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (132 bp):
CTGGTGGCTTAAATCTGCTTTCCTACTACCTCAGGAAGATAAGATTCGTCGTCTTTGATCTGCTC
CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTACTCAAGGGAATAG
GA
Found at i:32540442 original size:44 final size:44
Alignment explanation
Indices: 32540270--32540588 Score: 134
Period size: 44 Copynumber: 7.3 Consensus size: 44
32540260 GTCGTCTTTG
* *
32540270 ATCTGCTCCACTACTGCTTAGGGAGACAGGATGTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCA
* * * * * ***** *
32540314 ACCTACTCCACTACTACTCAGGGAAATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCA
* * * * *
32540357 ATCTGCTTTCTACTA-T-CTCAGGAAGATAAGATTCGT-C-ATCTTCG
1 ATCTGC--TCCACTACTGCTTAGGGAGATAGGA-TC-TACAATCTTCA
*
32540401 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCA
* * * * **** *
32540445 ACCTACTCCACTGCTGCTCAAGGG-GATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCT-TAGGGAGATAGGATCTACAATCTTCA
* * * * * ** **
32540488 ATCTGCTTCC-CTACTACCTTAAGAAGATAAGAT-TCGCCGTCTTTG
1 ATCTGC-TCCACTACT-GCTTAGGGAGATAGGATCT-ACAATCTTCA
* *
32540533 ATCTGCTCCACTACTGCTTAGAGAGACAGGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCA
* *
32540577 ACCTACTCCACT
1 ATCTGCTCCACT
32540589 GCAAACTTAG
Statistics
Matches: 191, Mismatches: 67, Indels: 34
0.65 0.23 0.12
Matches are distributed among these distances:
42 7 0.04
43 42 0.22
44 114 0.60
45 27 0.14
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCA
Found at i:32540709 original size:88 final size:89
Alignment explanation
Indices: 32540587--32540779 Score: 237
Period size: 88 Copynumber: 2.2 Consensus size: 89
32540577 ACCTACTCCA
* * * * * *
32540587 CTGCAAACTTAGAGAGGCAAGGCTGGTGTTTTCGATTTGCTTCACTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
* ** *
32540652 ATCTG-TGTTTTCAGTTTGCTCTG
66 ATCTGCTATCGTCAGTCTGCTCTG
* * * *
32540675 TTGCAAACTCAGGGAGGCAATACTGGTGTCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
32540740 ATCTGCTATCGTCAGTCTGCTCTG
66 ATCTGCTATCGTCAGTCTGCTCTG
32540764 CTGC-AACTTCAGGGAG
1 CTGCAAAC-TCAGGGAG
32540780 ATAAGACTTG
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
88 63 0.72
89 25 0.28
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
ATCTGCTATCGTCAGTCTGCTCTG
Found at i:32540865 original size:44 final size:44
Alignment explanation
Indices: 32540846--32540963 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 44
32540836 ACATCATTTT
*
32540846 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATAGCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* ** **
32540890 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
*
32540934 AA-CCTACTCCACTGCAACTTCAGGGAGATA
1 AATCC-GCTCCACTGCAACTTCAGGGAGATA
32540964 AGGTTTGATG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 64 0.97
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (44 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
Found at i:32541143 original size:225 final size:223
Alignment explanation
Indices: 32540886--32541331 Score: 597
Period size: 225 Copynumber: 2.0 Consensus size: 223
32540876 GGATTAATAG
* * * *
32540886 CTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-ATTTTCAACCTACTCCACTGCA
1 CTTCAACCCGCTCCACTGCAAATTCAGGGAGATAAGATTAGTGACTTT-AACCTACTCCACTGCA
* ** *
32540950 ACTTCAGGGAGATAAGGTTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTATG
65 ACTTCAGGGAGATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATC-TATG
* * * * *
32541015 ATTTATAGCTTTGATCTAATCCACTGCAATCTTTAGGGAAACGAGATTTGCTATCTTCAGTTTGC
129 ATTTATAGCTTTAATCTAATCCACTGCAA-CTTCAGGAAAACGAGATTCGCTATCTTCAGTCTGC
* *
32541080 TCCACTGCAAATTTAGGGAGATAAGACTTCA
193 CCCACTGCAAATTCAGGGAGATAAGACTTCA
* * * * * *
32541111 CTTCAACCCGCTCCACTGTAAATTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
1 CTTCAACCCGCTCCACTGCAAATTCAGGGAGATAAGATTAGTGACTTTAACCTACTCCACTGCAA
* * * *
32541176 CTTCAGGGCGATAAGATTTGCCATGATCTACTTTACTGCAACTTCAGAGAGATAAGATCTGTGAT
66 CTTCAGGGAGATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGAT
* *
32541241 TTATAGCTTTAATCTATTCCACTGCAACTTCAGGAAAATGAGATTCGCTATCTTCAGTCTGCCCC
131 TTATAGCTTTAATCTAATCCACTGCAACTTCAGGAAAACGAGATTCGCTATCTTCAGTCTGCCCC
* *
32541306 ACTGCAACTTCAGGGGGATAAGACTT
196 ACTGCAAATTCAGGGAGATAAGACTT
32541332 GCTTTCTTCA
Statistics
Matches: 191, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
223 55 0.29
224 30 0.16
225 103 0.54
226 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (223 bp):
CTTCAACCCGCTCCACTGCAAATTCAGGGAGATAAGATTAGTGACTTTAACCTACTCCACTGCAA
CTTCAGGGAGATAAGATTTGACATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGAT
TTATAGCTTTAATCTAATCCACTGCAACTTCAGGAAAACGAGATTCGCTATCTTCAGTCTGCCCC
ACTGCAAATTCAGGGAGATAAGACTTCA
Found at i:32541421 original size:44 final size:44
Alignment explanation
Indices: 32541342--32541796 Score: 396
Period size: 44 Copynumber: 10.2 Consensus size: 44
32541332 GCTTTCTTCA
* *
32541342 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
32541386 ATAGGGTTTGTAACTTTAATCTGCTCTACTACAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
32541430 ATAGGATTAT-TGACTTTAATATGCTCTACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
32541474 ATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGTGG-G
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAG-GGAG
* ** * * * *
32541519 ATAAGACTTGCTTTCTTCAGTCTGCTCTACTGCAACTTCAAGGAG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
32541564 ATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTTAGGGGG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** *
32541608 ATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTTAGGGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
32541652 ATATGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGG-G
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** *
32541696 AATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
1 -ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
32541742 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACCTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
32541786 ATAGGATTTGT
1 ATAAGATTTGT
32541797 GGTTTCACCG
Statistics
Matches: 336, Mismatches: 65, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.00
44 190 0.57
45 142 0.42
46 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:32541522 original size:45 final size:44
Alignment explanation
Indices: 32541451--32541788 Score: 265
Period size: 45 Copynumber: 7.6 Consensus size: 44
32541441 GACTTTAATA
*
32541451 TGCTCTACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGG-GATAAGACTT-GCCATCTTCAGTC
* **
32541496 TGCCCCACTGCAACTTCAGTGGGATAAGACTTGCTTTCTTCAGTC
1 TGCTCCACTGCAACTTCAG-GGGATAAGACTTGCCATCTTCAGTC
* * * * * *
32541541 TGCTCTACTGCAACTTCAAGGAGATAAGACTTG-TAACTTTAATC
1 TGCTCCACTGCAACTTC-AGGGGATAAGACTTGCCATCTTCAGTC
* * * * * * *
32541585 CGCTCCACTGTAACTTTAGGGGGATAGGATTATTGGC-T-TT-AATC
1 TGCTCCACTGCAACTTCA-GGGGATAAGA--CTTGCCATCTTCAGTC
* * *
32541629 TGCTCCACTGCAACTTTAGGGAGATATGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGG-GATAAGACTTGCCATCTTCAGTC
* ** *
32541674 TGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTTAGTC
1 TGCTCCACTGCAACTTCAGGGG-ATAAGACTTGCCATCTTCAGTC
* * * *
32541719 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATC
1 TGCTCCACTGCAACTTCAGGG-GATAAGACTTGCCATCTTCAGTC
* *
32541763 CGCTCCACTGCAACCTCAGGGAGATA
1 TGCTCCACTGCAACTTCAGGG-GATA
32541789 GGATTTGTGG
Statistics
Matches: 241, Mismatches: 39, Indels: 27
0.79 0.13 0.09
Matches are distributed among these distances:
42 4 0.02
43 5 0.02
44 89 0.37
45 133 0.55
46 10 0.04
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGGATAAGACTTGCCATCTTCAGTC
Found at i:32541564 original size:90 final size:88
Alignment explanation
Indices: 32541342--32541747 Score: 349
Period size: 89 Copynumber: 4.6 Consensus size: 88
32541332 GCTTTCTTCA
** * * * * * * * *
32541342 ATAAGACTTG-TAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGGTTTG-TAACTTTAA
1 ATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATA-AGATTGCCATCTTCAG
* * *
32541405 TCTGCTCTACTACAACTTCAGGGAG
65 TCTGCCCCACTGCAACTTCAGGG-G
* * * * * *
32541430 ATAGGA-TT-ATTGACTTTAATATGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCA
1 ATAAGACTTGCTT-TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCCATCTTCA
32541493 GTCTGCCCCACTGCAACTTCAGTGGG
64 GTCTGCCCCACTGCAACTTCAG-GGG
* * * * * * *
32541519 ATAAGACTTGCTTTCTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAGACTTG-TAACTTTAA
1 ATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCCATCTTCAG
* * * *
32541583 TCCGCTCCACTGTAACTTTAGGGGG
65 TCTGCCCCACTGCAACTTCA-GGGG
* * * * * *
32541608 ATAGGA-TT-ATTGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATATGATTTGCCATCTTCA
1 ATAAGACTTGCTT-TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCCATCTTCA
32541671 GTCTGCCCCACTGCAACTTCAGGGG
64 GTCTGCCCCACTGCAACTTCAGGGG
32541696 AATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 -ATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
32541748 CTTGTAACTT
Statistics
Matches: 251, Mismatches: 53, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
87 8 0.03
88 78 0.31
89 84 0.33
90 75 0.30
91 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (88 bp):
ATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCCATCTTCAGT
CTGCCCCACTGCAACTTCAGGGG
Found at i:32541580 original size:134 final size:133
Alignment explanation
Indices: 32541355--32541788 Score: 369
Period size: 134 Copynumber: 3.3 Consensus size: 133
32541345 AGACTTGTAA
* * * ** * * * * *
32541355 CTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGGTTTG-TAACTTTAATCTGCTCTACTACA
1 CTTTAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCTCTACTGCA
* * * * * *
32541419 ACTTCAGGGAGATAGGA-TTATTGACTTTAATATGCTCTACTGCAACTTCAGGGAGATAAGA-T-
66 ACTTCAAGGAGATAAGACTT-GTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA
32541481 TCGC
130 TCGC
* **
32541485 CATCTTCAGTCTGCCCCACTGCAACTTCAGTGG-GATAAGACTTGCTTTCTTCAGTCTGCTCTAC
1 C-T-TT-AATCTGCCCCACTGCAACTTCAG-GGAGATAAGACTTGCCATCTTCAGTCTGCTCTAC
* * * * *
32541549 TGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTTAGGGGGATAGGA
62 TGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
32541614 TTATTGG
127 TTATCGC
* * * * * *
32541621 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATATGATTTGCCATCTTCAGTCTGCCCCACTGCA
1 CTTTAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCTCTACTGCA
* ** *
32541686 ACTTC-AGGGGAATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 ACTTCAAGGAG-ATAAGACTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* **
32541750 TGT-AA
128 TATCGC
* * *
32541755 CTTTAATCCGCTCCACTGCAACCTCAGGGAGATA
1 CTTTAATCTGCCCCACTGCAACTTCAGGGAGATA
32541789 GGATTTGTGG
Statistics
Matches: 244, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
130 1 0.00
131 1 0.00
132 8 0.03
133 92 0.38
134 132 0.54
135 7 0.03
136 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (133 bp):
CTTTAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCTCTACTGCA
ACTTCAAGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
CGC
Found at i:32541668 original size:178 final size:178
Alignment explanation
Indices: 32541364--32541793 Score: 673
Period size: 178 Copynumber: 2.4 Consensus size: 178
32541354 ACTTTAATCC
* ** * * *
32541364 GCTCCACTGCAACTTCAGGGAGATAGGGTTTGTAACTTTAATCTGCTCTACTACAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
*
32541429 GATAGGATTATTGACTTTAATATGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
66 GATAGGATTATTGACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
32541494 TCTGCCCCACTGCAACTTCAGTGGG-ATAAGACTTGCTTTCTTCAGTCT
131 TCTGCCCCACTGCAACTTCAG-GGGAATAAGACTTGCTTTCTTCAGTCT
* * * * *
32541542 GCTCTACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTTAGGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
* * * * *
32541607 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATATGATTTGCCATCTTCAG
66 GATAGGATTATTGACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
*
32541672 TCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTTAGTCT
131 TCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTCAGTCT
*
32541720 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACCTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
32541785 GATAGGATT
66 GATAGGATT
32541794 TGTGGTTTCA
Statistics
Matches: 227, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
177 3 0.01
178 224 0.99
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (178 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTATTGACTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
TCTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTCAGTCT
Found at i:32542107 original size:24 final size:24
Alignment explanation
Indices: 32542073--32542128 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
32542063 CAGATTGCCC
*
32542073 CCACTGTAATCTTCAAGGTTTAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
32542097 CTACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
32542121 CCACTGTA
1 CCACTGTA
32542129 CTTTTGGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:32548588 original size:29 final size:29
Alignment explanation
Indices: 32548534--32548607 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
32548524 ATGGAGTACA
**
32548534 CCACAAAGGCT--ATATATATAGTGTATG
1 CCACAAAGGCTACATATATATAAAGTATG
32548561 CCACAAAGGCTACATATATATAAAGTATG
1 CCACAAAGGCTACATATATATAAAGTATG
*
32548590 CCACAAAGGCAACATATA
1 CCACAAAGGCTACATATA
32548608 CAGAGTACGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 11 0.26
29 31 0.74
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (29 bp):
CCACAAAGGCTACATATATATAAAGTATG
Found at i:32556571 original size:18 final size:18
Alignment explanation
Indices: 32556545--32556581 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32556535 TAAAGTATCC
*
32556545 ACCCGTTGGCGGTATCTA
1 ACCCATTGGCGGTATCTA
32556563 ACCCATTGGCGGTATCTA
1 ACCCATTGGCGGTATCTA
32556581 A
1 A
32556582 GGATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (18 bp):
ACCCATTGGCGGTATCTA
Found at i:32557253 original size:167 final size:167
Alignment explanation
Indices: 32556978--32557421 Score: 746
Period size: 167 Copynumber: 2.7 Consensus size: 167
32556968 TGTAAGTCTT
* * *
32556978 ATGTTGAGTATCAAATTCATTTGGGATTCTATTTCATAAT-TAAAACATTGTAATCACCGAAATA
1 ATGTTGAGTATCAAAATCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* *
32557042 AGTTCGTTGTTGGGATCAACTTGAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
32557107 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
131 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
* *
32557144 ATGTTGAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATT
1 ATGTTGAGTATCAAAATCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* * *
32557209 ATTTCGTTGTTGGGATCGACTTAAAGATATGGTGTAACTGGAATTCAACAATACCGAAATAAGTT
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
* * *
32557274 CTCATGTTTTCACTGAAAATTATAGTTGGAAGTTCTC
131 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
32557311 ATGTTGAGTATCAAAATCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
1 ATGTTGAGTATCAAAATCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* *
32557376 AGTTCCTTGTTGGGATCGACTTAAAGATATGGTGTGACTAGAATTC
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTC
32557422 TACCAATTGC
Statistics
Matches: 259, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
166 38 0.15
167 221 0.85
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (167 bp):
ATGTTGAGTATCAAAATCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
Found at i:32563552 original size:35 final size:35
Alignment explanation
Indices: 32563512--32563583 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
32563502 TTTATTAGTG
32563512 ATTGCTCCATGTTAAAGTAAGTTTTATGACTCTGC
1 ATTGCTCCATGTTAAAGTAAGTTTTATGACTCTGC
32563547 ATTGCTCCATGTTAAAGTAAGTTTTATGACTCTGC
1 ATTGCTCCATGTTAAAGTAAGTTTTATGACTCTGC
32563582 AT
1 AT
32563584 GTTGTGCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (35 bp):
ATTGCTCCATGTTAAAGTAAGTTTTATGACTCTGC
Found at i:32577299 original size:557 final size:569
Alignment explanation
Indices: 32576220--32577645 Score: 1621
Period size: 557 Copynumber: 2.5 Consensus size: 569
32576210 TTAGGTTGTT
** * * * * **
32576220 ATGCATACAGAGCAAGTTGGCGGCTTGCTAAAAGACTATAGTACTCCTTAAAAATAAACTGGGAT
1 ATGCATACAGAGCAAGTTGGAAGCGTGGTAAAAGACTATAGTACTCCTTAGAAATAAATTGTAAT
* * * * * * * * * * *
32576285 ACTAGTAATAAATTGGGGTTTCAATTTTGATATGATTGTAGTTTAATTCCCTCATGTTGTATCCG
66 ACTTGTAATAAACTGAGGTCTCAATTTGGATATCATTGTAGTTCAATTACCTC-GGTCGT-T--A
* *
32576350 TATCTACTCATTGTATTTACTCATGTATTTTACTTTGAAATTTGTAGTTAAGT-AG-T-CACTAT
127 TA-CTACTCA-TGTATTTACTCATGTATTATAGTTTGAAATTTGTAGTTAAGTAAGTTGCACTAT
* * * * *
32576412 TTGTAAATGTTAAAATTAAGTTAAGCCTGTGTCTATAATAGCGTGGTAATGCCCAAGATTCAGAT
190 TTGTAAATGTTAAAAGTAAGTTAAGCATGTGTTTGTAATAGCGTGGTAATGCCTAAGATTCAGAT
* * ** * * * *
32576477 CTGGTTAATCGCATCGGGTTAAAGGCGTTACAAGTTTTGTGTCAGAGCCTAGTTCAGCCAATTTT
255 CTGGTTAATCGCATCGGGTTGAGGGCACTACAAGTTTTGTATCAAAGCCTAGTTCAACCAATTCT
* * * * *
32576542 TAGGTTACGAATATGAAAAACCGATGTATGCATAATACGCCGACCCTGATAGAGTTCCTCAGGTA
320 CAGATTACGAAGATGAAAAACCGATGTATGCATAATACGCCGAACCTGATAGAGTTCCTCAGATA
* *
32576607 TGTTCACAATTATCTTATCATGAGATCGATGTGTTAAAAATTGCTTGATCTAAAGAAATGATAAT
385 TGTTCACAATTATCTTATCATGAGATCGATGTGTTAAAAATTGCTTAATCGAAAGAAATGATAAT
* * * *
32576672 GAAACAAAAATATAAAAGAGAGATAAATGATCAATTCATTAACTTGAACAAAAAATGATGTTACT
450 GAAACAAAAAGATAAAAGAGAGATAAAGGATCAATTCATTAACTTGAACAAAAAAGGATGCTACT
32576737 TGAGATAGAGGACAAT-AA-AAAG-A-A-CGATTCATTAATATGAAAAAAAAGGG
515 TGAGATAGAGGACAATAAAGAAAGAAGATCGATTCATTAATATGAAAAAAAAGGG
* * * *
32576787 ATGTATATAGAGCAAGTTGGAAGTGTGGTCAAAGACTATAGTACTCCTTAGAAATAAATTAG-AA
1 ATGCATACAGAGCAAGTTGGAAGCGTGGTAAAAGACTATAGTACTCCTTAGAAATAAATT-GTAA
* *
32576851 TACTTGTAATAAACTGAGGTCTCAATTTGGATATCATTGTAGTTTAATTATCTC-G-CG-T-TA-
65 TACTTGTAATAAACTGAGGTCTCAATTTGGATATCATTGTAGTTCAATTACCTCGGTCGTTATAC
32576911 TA-TC-TGTATTTACTCATGTATTATAGTTTGAAATTTGTAGTTAAGTAAGTTGCACTATTTGTA
130 TACTCATGTATTTACTCATGTATTATAGTTTGAAATTTGTAGTTAAGTAAGTTGCACTATTTGTA
* ** * * *
32576974 AATGTTAAAAGTAGGTTAAGGTTGTGTTTGTAATAGCATGGTAATACCTAAGATTCAGATTTGGT
195 AATGTTAAAAGTAAGTTAAGCATGTGTTTGTAATAGCGTGGTAATGCCTAAGATTCAGATCTGGT
* * * * * * * **
32577039 TAATCACATCAGGTTGAGGGCACTACAATTTTTGTATTAAATCTTGGTTCAACCGGTTCTCAGAT
260 TAATCGCATCGGGTTGAGGGCACTACAAGTTTTGTATCAAAGCCTAGTTCAACCAATTCTCAGAT
* ** *
32577104 TACGAAGATGAATAAGCC-ATGTATGCATAATACGTTGAACCTGGTAGAGTTCCTCAGATATGTT
325 TACGAAGATGAA-AAACCGATGTATGCATAATACGCCGAACCTGATAGAGTTCCTCAGATATGTT
* *
32577168 CACAATTATCTTATTATGAGATCGATGTGTTAAAAATTTCTTAAT-GAAGAGAAATGATAATGAA
389 CACAATTATCTTATCATGAGATCGATGTGTTAAAAATTGCTTAATCGAA-AGAAATGATAATGAA
* * * *
32577232 ACAAAAAGATAAAAGAGAGATAGAGGATCAATTTATTAA-TATGAACAAAAAGGGATGCTATTTG
453 ACAAAAAGATAAAAGAGAGATAAAGGATCAATTCATTAACT-TGAACAAAAAAGGATGCTACTTG
*
32577296 AGATAGAGGACAATAAAAGGAAAGACAATAAAATGATCGATTCATTAATATGAACAAAAAGGG
517 AGATAGAGGACAAT-AAA-GAAAG-------AA-GATCGATTCATTAATATGAAAAAAAAGGG
* ** **
32577359 TTGCATACAGAGCAAGTTGGTGGCGTGGTAAAAGACTATAGTACTCCTTAGAAATAAATTGTTGT
1 ATGCATACAGAGCAAGTTGGAAGCGTGGTAAAAGACTATAGTACTCCTTAGAAATAAATTGTAAT
* * * *
32577424 ACTTGTAATAAATTGGGGTTTCAATTTGGATATCATTGTAGTTCAATTACCTCGTGTTGTATCTA
66 ACTTGTAATAAACTGAGGTCTCAATTTGGATATCATTGTAGTTCAATTACCTCG-GTCG--T-TA
* * *
32577489 TATCTACTCATTGTATTTACTCATGTATTCTAGTTTGAAATTTGTAGTTAAGTAAGTAGTCATTA
127 TA-CTACTCA-TGTATTTACTCATGTATTATAGTTTGAAATTTGTAGTTAAGTAAGTTG-CACTA
** * *
32577554 CCTGTAAATGTTAAAAGTAAGTTAAGCATGTGTTTGTAATAGTGTGGTAATGCCTAAGATCCAGA
189 TTTGTAAATGTTAAAAGTAAGTTAAGCATGTGTTTGTAATAGCGTGGTAATGCCTAAGATTCAGA
* *
32577619 TCCGGTTAATCGGATCGGGTTGAGGGC
254 TCTGGTTAATCGCATCGGGTTGAGGGC
32577646 TCATATAGGG
Statistics
Matches: 719, Mismatches: 103, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
554 40 0.06
555 2 0.00
556 6 0.01
557 291 0.40
558 4 0.01
559 4 0.01
561 4 0.01
562 1 0.00
564 1 0.00
565 1 0.00
567 97 0.13
568 1 0.00
569 1 0.00
571 2 0.00
572 127 0.18
574 1 0.00
575 1 0.00
579 1 0.00
580 2 0.00
582 2 0.00
583 2 0.00
585 46 0.06
586 82 0.11
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (569 bp):
ATGCATACAGAGCAAGTTGGAAGCGTGGTAAAAGACTATAGTACTCCTTAGAAATAAATTGTAAT
ACTTGTAATAAACTGAGGTCTCAATTTGGATATCATTGTAGTTCAATTACCTCGGTCGTTATACT
ACTCATGTATTTACTCATGTATTATAGTTTGAAATTTGTAGTTAAGTAAGTTGCACTATTTGTAA
ATGTTAAAAGTAAGTTAAGCATGTGTTTGTAATAGCGTGGTAATGCCTAAGATTCAGATCTGGTT
AATCGCATCGGGTTGAGGGCACTACAAGTTTTGTATCAAAGCCTAGTTCAACCAATTCTCAGATT
ACGAAGATGAAAAACCGATGTATGCATAATACGCCGAACCTGATAGAGTTCCTCAGATATGTTCA
CAATTATCTTATCATGAGATCGATGTGTTAAAAATTGCTTAATCGAAAGAAATGATAATGAAACA
AAAAGATAAAAGAGAGATAAAGGATCAATTCATTAACTTGAACAAAAAAGGATGCTACTTGAGAT
AGAGGACAATAAAGAAAGAAGATCGATTCATTAATATGAAAAAAAAGGG
Found at i:32579877 original size:16 final size:16
Alignment explanation
Indices: 32579856--32579907 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
32579846 TGGTTTACTA
*
32579856 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTG
32579872 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
* *
32579888 CAATGGAATAGAGTTG
1 TAATGGAATAGAGCTG
32579904 TAAT
1 TAAT
32579908 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.27
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:32582148 original size:23 final size:25
Alignment explanation
Indices: 32582096--32582148 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
32582086 TAATATACTT
* * *
32582096 AGCATATCACATATTTACTCAATTC
1 AGCATAACAAATATTTACTCAATTA
32582121 A-CATAACAAATATTTA-TCAA-TA
1 AGCATAACAAATATTTACTCAATTA
32582143 AGCATA
1 AGCATA
32582149 CACCGAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.08
23 8 0.33
24 13 0.54
25 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
AGCATAACAAATATTTACTCAATTA
Found at i:32583064 original size:43 final size:42
Alignment explanation
Indices: 32583010--32583137 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 42
32583000 CTCGTACAAC
*
32583010 GCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATG-AAACACATATCGAT
*
32583053 GCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACATG-AAACACATA-TCGAT
*
32583096 GCCAACGTCCTC-GACGTCGTCTTACATGATAACACATATCGA
1 GCCAACGTCC-CAGACGTGGTCTTACATGA-AACACATATCGA
32583138 AAATCCTATG
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
42 5 0.07
43 62 0.86
44 5 0.07
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACATGAAACACATATCGAT
Found at i:32590998 original size:43 final size:43
Alignment explanation
Indices: 32590942--32591065 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
32590932 AACTCGTACA
* * *
32590942 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATA-TTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACA-AGTCG
* *
32590985 ATGTC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGCAAACACAAGTCG
*
32591028 ATGCCAACGTCCCCGACGTGGTCTTACACG-ATAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCA-AACACA
32591066 TATCAGAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 5 0.07
43 60 0.88
44 3 0.04
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACAAGTCG
Found at i:32594518 original size:17 final size:17
Alignment explanation
Indices: 32594501--32594533 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32594491 ATAATATTAT
32594501 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
32594517 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
32594534 CTTATCCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:32594680 original size:58 final size:56
Alignment explanation
Indices: 32594494--32594681 Score: 152
Period size: 58 Copynumber: 3.2 Consensus size: 56
32594484 TCAAAAAATA
* *
32594494 ATATTATTTTAATA-AATTTAATATTTAATTTAATTTAATACTTATCCT-GAT-ATCATT
1 ATATTAATTTAATATAA-TTAATA-TTAATTTAATTTAATATTTAT-CTGGATAAT-ATT
* * *
32594551 TTATTAATTTAATATTAA--AGTGATTATTTTAATATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATA-TAATTAAT-ATTAATTT-A-ATTTAATATTTATC-TG--GAT-AATATT
* *
32594613 CTATTAATTTAATATAATTAATATTAAATTTAATCTAATATTTATCTGGATAAGTATT
1 ATATTAATTTAATATAATTAATATT-AATTTAATTTAATATTTATCTGGATAA-TATT
32594671 ATATTAATTTA
1 ATATTAATTTA
32594682 CTGTTAAAGT
Statistics
Matches: 106, Mismatches: 10, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
56 8 0.08
57 17 0.16
58 30 0.28
59 2 0.02
60 2 0.02
61 19 0.18
62 20 0.19
63 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (56 bp):
ATATTAATTTAATATAATTAATATTAATTTAATTTAATATTTATCTGGATAATATT
Found at i:32594697 original size:58 final size:59
Alignment explanation
Indices: 32594552--32594705 Score: 145
Period size: 58 Copynumber: 2.6 Consensus size: 59
32594542 GATATCATTT
* * *
32594552 TATTAATTTAATATTAAAGTGATT-ATTTTAATATTTAATATTTATCTTGTAGATAAATATTC
1 TATTAATTTAAT-TTAAAGTGATTAAATTT-A-ATCTAATATTTATCTTG-AGATAAATATTA
* * *
32594614 TATTAATTTAATATAATTAAT-ATTAAATTTAATCTAATATTTATC-TG-GATAAGTATTA
1 TATTAATTTAATTTAA--AGTGATTAAATTTAATCTAATATTTATCTTGAGATAAATATTA
* *
32594672 TATTAATTTACTGTTAAAGTGATTAAGTTTAATC
1 TATTAATTTAAT-TTAAAGTGATTAAATTTAATC
32594706 ATAGTTGAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
57 2 0.03
58 32 0.42
59 3 0.04
60 2 0.03
61 16 0.21
62 16 0.21
63 6 0.08
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (59 bp):
TATTAATTTAATTTAAAGTGATTAAATTTAATCTAATATTTATCTTGAGATAAATATTA
Found at i:32596651 original size:27 final size:27
Alignment explanation
Indices: 32596617--32596681 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
32596607 CCTATTAGGT
32596617 AGGCGCCAATGAATGTGCCTCATAGAG
1 AGGCGCCAATGAATGTGCCTCATAGAG
* *
32596644 AGGTGCCAATGAATGTGCCTCATAGGG
1 AGGCGCCAATGAATGTGCCTCATAGAG
32596671 AGGCGCCAATG
1 AGGCGCCAATG
32596682 GTGGCCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (27 bp):
AGGCGCCAATGAATGTGCCTCATAGAG
Found at i:32596831 original size:14 final size:13
Alignment explanation
Indices: 32596807--32596841 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
32596797 AGAGAGAGAG
*
32596807 AGAAAGGAGAAGA
1 AGAAAGAAGAAGA
32596820 AGAGAAGAAGAAGA
1 AGA-AAGAAGAAGA
32596834 AGAAAGAA
1 AGAAAGAA
32596842 AGAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAGA
Found at i:32597171 original size:19 final size:19
Alignment explanation
Indices: 32596984--32597151 Score: 137
Period size: 19 Copynumber: 8.4 Consensus size: 19
32596974 TTGAGTTAGT
*
32596984 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
*
32597003 ATTTTTTGTATGAATATTATA
1 A--TTTTGTATGAATATTGTA
32597024 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
32597043 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
32597062 ATTATTTTAT-AATTAAATTTGT-
1 ATT-TTGTATGAA-T--A-TTGTA
* * *
32597084 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
*
32597104 ATTTTGTATGAATATTATA
1 ATTTTGTATGAATATTGTA
32597123 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
32597144 ATTTTGTA
1 ATTTTGTA
32597152 ATTTTGTATG
Statistics
Matches: 122, Mismatches: 12, Indels: 30
0.74 0.07 0.18
Matches are distributed among these distances:
17 5 0.04
18 3 0.02
19 51 0.42
20 13 0.11
21 37 0.30
22 5 0.04
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:32597230 original size:60 final size:60
Alignment explanation
Indices: 32597166--32597287 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
32597156 TGTATGAATA
* * * * *
32597166 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
* *
32597226 TTGTAATTATTTAAAATTTAATTTATTTGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
32597286 TT
1 TT
32597288 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:32597426 original size:16 final size:15
Alignment explanation
Indices: 32597405--32597441 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
32597395 CTCATTTAAT
32597405 TTTTATATAATGTAA
1 TTTTATATAATGTAA
*
32597420 CTTTTATATAATTTAA
1 -TTTTATATAATGTAA
32597436 TTTTAT
1 TTTTAT
32597442 TTGATTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:32604872 original size:13 final size:13
Alignment explanation
Indices: 32604854--32604887 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
32604844 ATATAATTAT
32604854 TAATAATATTTAA
1 TAATAATATTTAA
32604867 TAATAAT-TTTAA
1 TAATAATATTTAA
32604879 T-ATAATATT
1 TAATAATATT
32604888 ATTATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:32606305 original size:21 final size:21
Alignment explanation
Indices: 32606275--32606340 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
32606265 CAGTTTCTTA
32606275 CCTCGTTCTTGCTGGTTTCTC
1 CCTCGTTCTTGCTGGTTTCTC
* * * *
32606296 TCTTGTTCTTACTGGTTTGTC
1 CCTCGTTCTTGCTGGTTTCTC
*
32606317 CCTCGTTTTTGCTGGTTTCTC
1 CCTCGTTCTTGCTGGTTTCTC
32606338 CCT
1 CCT
32606341 TTTTTTGCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.02, C:0.29, G:0.18, T:0.52
Consensus pattern (21 bp):
CCTCGTTCTTGCTGGTTTCTC
Found at i:32606346 original size:21 final size:21
Alignment explanation
Indices: 32606283--32606349 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
32606273 TACCTCGTTC
* *
32606283 TTGCTGGTTTCTCTCTTGTTC
1 TTGCTGGTTTCTCCCTTGTTT
* * *
32606304 TTACTGGTTTGTCCCTCGTTT
1 TTGCTGGTTTCTCCCTTGTTT
32606325 TTGCTGGTTTCTCCCTT-TTT
1 TTGCTGGTTTCTCCCTTGTTT
32606345 TTGCT
1 TTGCT
32606350 TTGTTCTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 8 0.21
21 30 0.79
ACGTcount: A:0.01, C:0.24, G:0.18, T:0.57
Consensus pattern (21 bp):
TTGCTGGTTTCTCCCTTGTTT
Found at i:32608837 original size:13 final size:14
Alignment explanation
Indices: 32608819--32608933 Score: 65
Period size: 13 Copynumber: 7.9 Consensus size: 14
32608809 AAGCAACCGT
*
32608819 AAATGGGA-ATGGG
1 AAATGGGAGAGGGG
32608832 AAATGGGAGGAGGGG
1 AAATGGGA-GAGGGG
*
32608847 AATCGATGGAAGAGGGG
1 AA---ATGGGAGAGGGG
*
32608864 AAATGGGA-ATGGG
1 AAATGGGAGAGGGG
*
32608877 AAATGGGAGGAGGGC
1 AAATGGGA-GAGGGG
** *
32608892 ACGGTGGAAGAGGGG
1 A-AATGGGAGAGGGG
* *
32608907 AAATGGGA-ATGGA
1 AAATGGGAGAGGGG
32608920 AAATGGGAGGAGGG
1 AAATGGGA-GAGGG
32608934 CACGGTGGAA
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
13 31 0.41
14 9 0.12
15 19 0.25
16 4 0.05
17 8 0.11
18 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.51, T:0.10
Consensus pattern (14 bp):
AAATGGGAGAGGGG
Found at i:32608907 original size:23 final size:23
Alignment explanation
Indices: 32608881--32608950 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
32608871 AATGGGAAAT
32608881 GGGAGGAGGGCACGGTGGAAGAG
1 GGGAGGAGGGCACGGTGGAAGAG
* * * *
32608904 GGGA-AATGGG-A--ATGGAAAAT
1 GGGAGGA-GGGCACGGTGGAAGAG
32608924 GGGAGGAGGGCACGGTGGAAGAG
1 GGGAGGAGGGCACGGTGGAAGAG
32608947 GGGA
1 GGGA
32608951 ATCGATGGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 2 0.06
23 17 0.50
ACGTcount: A:0.31, C:0.06, G:0.56, T:0.07
Consensus pattern (23 bp):
GGGAGGAGGGCACGGTGGAAGAG
Found at i:32608914 original size:43 final size:43
Alignment explanation
Indices: 32608819--32608951 Score: 221
Period size: 43 Copynumber: 3.0 Consensus size: 43
32608809 AAGCAACCGT
* *
32608819 AAATGGGAATGGGAAATGGGAGGAGGGGAATCGATGGAAGAGGGG
1 AAATGGGAATGGGAAATGGGAGGA-GGGCA-CGGTGGAAGAGGGG
32608864 AAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGG
1 AAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGG
*
32608907 AAATGGGAATGGAAAATGGGAGGAGGGCACGGTGGAAGAGGGG
1 AAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGG
32608950 AA
1 AA
32608952 TCGATGGAAA
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
43 57 0.67
44 4 0.05
45 24 0.28
ACGTcount: A:0.35, C:0.04, G:0.51, T:0.10
Consensus pattern (43 bp):
AAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGG
Found at i:32609053 original size:30 final size:30
Alignment explanation
Indices: 32608997--32609193 Score: 342
Period size: 30 Copynumber: 6.5 Consensus size: 30
32608987 CATTGTATTT
32608997 GTGTATTTTAAAAATAAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAAATATATGTA
* *
32609028 ATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
32609058 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
32609088 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
32609119 GTGTATTTTAAAAATAAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAAATATATGTA
32609150 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
32609179 GTGTATTTTAAAAAT
1 GTGTATTTTAAAAAT
32609194 CAAATTCAAA
Statistics
Matches: 160, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
29 29 0.18
30 63 0.39
31 62 0.39
32 6 0.04
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:32609114 original size:91 final size:91
Alignment explanation
Indices: 32608997--32609193 Score: 351
Period size: 91 Copynumber: 2.2 Consensus size: 91
32608987 CATTGTATTT
*
32608997 GTGTATTTTAAAAATAAAAAAAATATATGTAATGTATTTTAAAAAT-AAAGAAATATATGTAGTG
1 GTGTATTTTAAAAATAAAAAAAATATATGTAATGTATTTTAAAAATAAAAAAAATATATGTAGTG
32609061 TATTTTAAAAATAAAAAAATATATGTA
66 TATTTTAAAAAT-AAAAAATATATGTA
* *
32609088 GTGTATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTAGTG
1 GTGTATTTTAAAAATAAAAAAAATATATGTAATGTATTTTAAAAATAAAAAAAATATATGTAGTG
32609153 TATTTTAAAAATAAAAAATATATGTA
66 TATTTTAAAAATAAAAAATATATGTA
32609179 GTGTATTTTAAAAAT
1 GTGTATTTTAAAAAT
32609194 CAAATTCAAA
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
91 73 0.72
92 29 0.28
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (91 bp):
GTGTATTTTAAAAATAAAAAAAATATATGTAATGTATTTTAAAAATAAAAAAAATATATGTAGTG
TATTTTAAAAATAAAAAATATATGTA
Found at i:32610700 original size:21 final size:21
Alignment explanation
Indices: 32610676--32610728 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
32610666 CATTGTTTCT
*
32610676 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
32610697 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
32610718 AATCTGACCGC
1 AATCTCACCGC
32610729 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:32613606 original size:6 final size:6
Alignment explanation
Indices: 32613595--32613630 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
32613585 CACTTTCAAC
32613595 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
32613631 TTTCTCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:32614512 original size:3 final size:3
Alignment explanation
Indices: 32614504--32614543 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
32614494 TTTAGATTCT
32614504 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32614544 ATACAGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32615117 original size:20 final size:20
Alignment explanation
Indices: 32615092--32615131 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32615082 CGGAAAATGA
32615092 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
*
32615112 TTTCTGGAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
32615132 AAAAATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:32616545 original size:3 final size:3
Alignment explanation
Indices: 32616537--32616576 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
32616527 AAGAAAAGAA
32616537 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC -AC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
32616577 TAATAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:32619661 original size:44 final size:44
Alignment explanation
Indices: 32619611--32619944 Score: 312
Period size: 44 Copynumber: 7.5 Consensus size: 44
32619601 ATCTGCGATA
* * * *
32619611 TTCGATCTATTTCACGCCAATACATGAAGACAAGACCTGTTTTC
1 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATC
* * *** *
32619655 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTACC
1 TTCGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTATC
* * *
32619700 TTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGTTTTC
1 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATC
* * * * * *
32619744 TTCAATCTACTTCACGCCAATACATGAAGATAAGATTTGCTCTC
1 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATC
* * *** *
32619788 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTATC
** *
32619833 TTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTT-TC
1 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTATC
* * * *
32619877 TTGGATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGTTATC
1 TTCGATCTACTTC-ACGCCAGTA-CATGAAGACAAGATCTGTTATC
*
32619922 TTTGATCTACTTCACGCCAGTAC
1 TTCGATCTACTTCACGCCAGTAC
32619945 NNNNNNNNNN
Statistics
Matches: 230, Mismatches: 54, Indels: 13
0.77 0.18 0.04
Matches are distributed among these distances:
44 127 0.55
45 102 0.44
46 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATC
Found at i:32619809 original size:89 final size:89
Alignment explanation
Indices: 32619631--32619944 Score: 337
Period size: 89 Copynumber: 3.5 Consensus size: 89
32619621 TTCACGCCAA
* * * * * *** * *
32619631 TACATGAAGACAAGACCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
1 TACATGAAGACAAGATCTGTTATCTTCAATCTACTTC-ACGCCAGTACATGAAGATAAGATCTGC
* * *
32619696 TAC-CTTTGATCTACTTC-ACGCCAG
65 T-CTCTTCGATCTACTTCGCCACCAG
* * * *
32619720 TACATGAAGATAAGATCTGTTTTCTTCAATCTACTTCACGCCAATACATGAAGATAAGATTTGCT
1 TACATGAAGACAAGATCTGTTATCTTCAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCT
32619785 CTCTTCGATCTACTTCGCCACCAG
66 CTCTTCGATCTACTTCGCCACCAG
*** * *
32619809 TATGGGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCT
1 TACATGAAGACAAGATCTGTTATCTTCAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCT
* *
32619874 TTCTTGGATCTACTTCGCCACCAG
66 CTCTTCGATCTACTTCGCCACCAG
* **
32619898 TATGA-GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 TA-CATGAAGACAAGATCTGTTATCTTCAATCTACTTCACGCCAGTAC
32619945 NNNNNNNNNN
Statistics
Matches: 192, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
87 1 0.01
88 32 0.17
89 159 0.83
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
TACATGAAGACAAGATCTGTTATCTTCAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCT
CTCTTCGATCTACTTCGCCACCAG
Found at i:32619943 original size:133 final size:133
Alignment explanation
Indices: 32619615--32619934 Score: 444
Period size: 133 Copynumber: 2.4 Consensus size: 133
32619605 GCGATATTCG
* * * *
32619615 ATCTATTTCACGCCAATACATGAAGACAAGACCTGTTTTCTTCGATCTACTTCGCCACCAGTATG
1 ATCTACTTCACACCAATACATGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTATG
* * *
32619680 GGAAGACAAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGTTTTCT
66 GGAAGACAAGATCTGCTACCTTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT
32619745 TCA
131 TCA
* * * * *
32619748 ATCTACTTCACGCCAATACATGAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATG
1 ATCTACTTCACACCAATACATGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTATG
*
32619813 GGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT
66 GGAAGACAAGATCTGCTACCTTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT
**
32619878 TGG
131 TCA
* * * *
32619881 ATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGTTATCTTTGATCTACTTC
1 ATCTACTTC-ACACCAATA-CATGAAGACAAGATCTGTTATCTTCGATCTACTTC
32619935 ACGCCAGTAC
Statistics
Matches: 164, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
133 130 0.79
134 33 0.20
135 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (133 bp):
ATCTACTTCACACCAATACATGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTATG
GGAAGACAAGATCTGCTACCTTTAATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT
TCA
Found at i:32624079 original size:19 final size:19
Alignment explanation
Indices: 32624055--32624100 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
32624045 AGAGGTGTTT
* *
32624055 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
32624073 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
32624093 AATGCAAA
1 AATGCAAA
32624101 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:32628422 original size:22 final size:22
Alignment explanation
Indices: 32628380--32628422 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32628370 CTTAATGAAA
*
32628380 TGAAAGAAAAAAAAATGAAAAT
1 TGAAAGAAAAAAAAATCAAAAT
*
32628402 TGAAAGAATAGAAAAA-CAAAA
1 TGAAAGAA-AAAAAAATCAAAA
32628423 CCATAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (22 bp):
TGAAAGAAAAAAAAATCAAAAT
Found at i:32628529 original size:22 final size:22
Alignment explanation
Indices: 32628504--32628545 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
32628494 ATATTATAAC
32628504 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
32628526 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
32628546 CATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTTATTTACCAAAATATA
Found at i:32628649 original size:27 final size:27
Alignment explanation
Indices: 32628616--32628679 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
32628606 CGCTAAAACG
*
32628616 ATTGGCGGCACCAAAGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAGCC
* *
32628643 ATTGGCGGCACCAATGGTGCCAAAGGC
1 ATTGGCGGCACCAAAGGTGCCAAAGCC
32628670 ATTGGCGGCA
1 ATTGGCGGCA
32628680 TTACTCGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGCC
Found at i:32628919 original size:3 final size:3
Alignment explanation
Indices: 32628913--32628941 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32628903 ATTATTATTA
32628913 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
32628942 AGTATTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:32629835 original size:18 final size:18
Alignment explanation
Indices: 32629802--32629836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32629792 GTTGGTGGTG
* *
32629802 AAGAAGAATGTGGTGGCT
1 AAGAAGAAGGTAGTGGCT
32629820 AAGAAGAAGGTAGTGGC
1 AAGAAGAAGGTAGTGGC
32629837 GATCATTGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.40, T:0.17
Consensus pattern (18 bp):
AAGAAGAAGGTAGTGGCT
Found at i:32635645 original size:21 final size:22
Alignment explanation
Indices: 32635621--32635682 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
32635611 CCTTCATTCC
32635621 CTCTTCTTC-TTCTTTTTTTTT
1 CTCTTCTTCTTTCTTTTTTTTT
* * *
32635642 CTCTTCTCCTTTCCTTTTCTTT
1 CTCTTCTTCTTTCTTTTTTTTT
32635664 CT-TTCTTTCTTTCTTTTTT
1 CTCTTC-TTCTTTCTTTTTT
32635683 CTTCCCCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
CTCTTCTTCTTTCTTTTTTTTT
Found at i:32635648 original size:18 final size:18
Alignment explanation
Indices: 32635625--32635755 Score: 74
Period size: 18 Copynumber: 7.1 Consensus size: 18
32635615 CATTCCCTCT
32635625 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
*
32635643 TCTTCTCCTTTCCTTTTCTT-
1 TCTTCTTCTTT--TTTT-TTC
*
32635663 TCTTTCTTTCTTTCTTTTT-
1 TC-TTC-TTCTTTTTTTTTC
**
32635682 TCTTCCCCTTTCCTTTTCTTC
1 TCTTCTTCTTT--TTTT-TTC
32635703 T-TTCTT-TTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
* **
32635719 TCTTCTCCTTTCCTTTTC
1 TCTTCTTCTTTTTTTTTC
*
32635737 T-TTCCTTCTTTTTCTTTC
1 TCTT-CTTCTTTTTTTTTC
32635755 T
1 T
32635756 TTCCTCTCCT
Statistics
Matches: 86, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
16 4 0.05
17 14 0.16
18 33 0.38
19 10 0.12
20 14 0.16
21 6 0.07
22 5 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTTCTTCTTTTTTTTTC
Found at i:32635662 original size:34 final size:37
Alignment explanation
Indices: 32635633--32635783 Score: 184
Period size: 37 Copynumber: 4.1 Consensus size: 37
32635623 CTTCTTCTTC
32635633 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCT
1 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCT
* *
32635670 TTCTTTCTTTTTTCTTCCCCTTTCCTTTTC-TTCTTTCTT
1 TT-TTT-TTTTCTCTTCTCCTTTCCTTTTCTTTCTTTC-T
*
32635709 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCT
* *
32635746 TTTTCTTTCTT-TCCTCTCC-TTCC-TTCCTTTCTTTCT
1 TTTT-TTT-TTCTCTTCTCCTTTCCTTTTCTTTCTTTCT
32635782 TT
1 TT
32635784 CTTTCTATAT
Statistics
Matches: 100, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
36 13 0.13
37 32 0.32
38 29 0.29
39 26 0.26
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (37 bp):
TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCT
Found at i:32635666 original size:4 final size:4
Alignment explanation
Indices: 32635657--32635789 Score: 78
Period size: 4 Copynumber: 32.2 Consensus size: 4
32635647 CTCCTTTCCT
*
32635657 TTTC TTTC TTTC TTTC TTTC TTT- TTTC TTCCCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT--TC TTT-C TTTC T-TTC
* * * *
32635703 TTTC TTTT TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC
* * *
32635751 TTTC TTTCC TCTCC TTCC TTCC TTTC TTTC TTTC TTTC T
1 TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC T
32635790 ATATATTTTG
Statistics
Matches: 106, Mismatches: 9, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
3 10 0.09
4 75 0.71
5 14 0.13
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:32635789 original size:38 final size:39
Alignment explanation
Indices: 32635638--32635789 Score: 179
Period size: 39 Copynumber: 3.9 Consensus size: 39
32635628 TCTTCTTTTT
*
32635638 TTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCTTTCTTTC
1 TTTTCTCTCCTCCTTTCCTTTTCTTTCTTTCTTTCTTTC
* *
32635677 TTTTTTCTTCC-CCTTTCCTTTTC-TTCTTTCTTT-TTTT
1 TTTTCTC-TCCTCCTTTCCTTTTCTTTCTTTCTTTCTTTC
* *
32635714 TTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTC
1 TTTTCTCTCCTCCTTTCCTTTTCTTT-CTT-TCTTTCTTTC
*
32635755 TTTCCTCTCCTTCC-TTCC-TTTCTTTCTTTCTTTCT
1 TTTTCTCTCC-TCCTTTCCTTTTCTTTCTTTCTTTCT
32635790 ATATATTTTG
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
36 2 0.02
37 21 0.22
38 18 0.19
39 24 0.25
40 13 0.14
41 15 0.16
42 3 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (39 bp):
TTTTCTCTCCTCCTTTCCTTTTCTTTCTTTCTTTCTTTC
Found at i:32637750 original size:32 final size:32
Alignment explanation
Indices: 32637704--32637772 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
32637694 GACTTGTTAT
32637704 TTTAACTGGCCACGTTAGAG-TGTTTGCTGTCA
1 TTTAACTGGCCACGTTAGAGAT-TTTGCTGTCA
* * * *
32637736 TTTAATTGGTCACGTTGGAGATTTTGTTGTCA
1 TTTAACTGGCCACGTTAGAGATTTTGCTGTCA
32637768 TTTAA
1 TTTAA
32637773 ACAGCCTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (32 bp):
TTTAACTGGCCACGTTAGAGATTTTGCTGTCA
Found at i:32638523 original size:31 final size:30
Alignment explanation
Indices: 32638480--32638548 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
32638470 ATGTTAGCGG
*
32638480 GTGATTGATTTGTCACTTTTCAATAATGTT-A
1 GTGACTGATTTGTCACTTTTCAA-AA-GTTGA
* * *
32638511 GTGACTGATTTGTTATTTTTTAAAAGTTGA
1 GTGACTGATTTGTCACTTTTCAAAAGTTGA
32638541 GTGACTGA
1 GTGACTGA
32638549 GTTGAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.33
31 19 0.58
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (30 bp):
GTGACTGATTTGTCACTTTTCAAAAGTTGA
Found at i:32639776 original size:12 final size:12
Alignment explanation
Indices: 32639738--32639779 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
32639728 ACTGGTCATA
32639738 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
32639750 GAGGGATATT-TG
1 GAGAGAT-TTGAG
32639762 GAGAGATTTGAG
1 GAGAGATTTGAG
32639774 GAGAGA
1 GAGAGA
32639780 ATATTGGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:32639786 original size:24 final size:24
Alignment explanation
Indices: 32639738--32639784 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
32639728 ACTGGTCATA
*
32639738 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
32639762 GAGAGATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
32639785 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:32640901 original size:27 final size:27
Alignment explanation
Indices: 32640871--32640960 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
32640861 CTAAAATAAG
*
32640871 TAAAATGACCAAAATACCCCCATAGGA
1 TAAAATGACCGAAATACCCCCATAGGA
* * *
32640898 TAAAATGATCGCAATACCCCCATA-TA
1 TAAAATGACCGAAATACCCCCATAGGA
* *
32640924 GTAAAATGACCGAGATACCCCCATAGGG
1 -TAAAATGACCGAAATACCCCCATAGGA
32640952 TAAAATGAC
1 TAAAATGAC
32640961 TGTTATACCT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGA
Found at i:32641468 original size:33 final size:35
Alignment explanation
Indices: 32641424--32641495 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
32641414 ACTGCATGAT
** *
32641424 TGATATCTATTACTGTTA-TGGGCCAAGGCCCCAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
*
32641458 TGATA-CTATTACTGAAATTGGGCAAAGGCCCTAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
32641492 TGAT
1 TGAT
32641496 TACTGGCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (35 bp):
TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
Found at i:32642822 original size:26 final size:26
Alignment explanation
Indices: 32642749--32642833 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
32642739 CCTAGTAAGA
* *
32642749 TTGAGTGGGCTCAAAGACCCTTGAGT
1 TTGAGTGGGTTCGAAGACCCTTGAGT
* * * *
32642775 TTGAAATGGGTTGGATGTCCCTTGAGT
1 TTG-AGTGGGTTCGAAGACCCTTGAGT
*
32642802 TTGAGTGGGTTCGAAGACCCTTTAGT
1 TTGAGTGGGTTCGAAGACCCTTGAGT
*
32642828 ATGAGT
1 TTGAGT
32642834 TGGTCAGAGA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 26 0.57
27 20 0.43
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (26 bp):
TTGAGTGGGTTCGAAGACCCTTGAGT
Found at i:32644151 original size:26 final size:25
Alignment explanation
Indices: 32644122--32644182 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
32644112 TACCCCTAAC
* *
32644122 AAAAATTTGACGATTTTAGCTATTGT
1 AAAATTTTGACGATTTT-GCCATTGT
* *
32644148 AAAATTTTGATGATTTTGCCCTTGT
1 AAAATTTTGACGATTTTGCCATTGT
32644173 AAAATTTTGA
1 AAAATTTTGA
32644183 AAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (25 bp):
AAAATTTTGACGATTTTGCCATTGT
Found at i:32645471 original size:371 final size:369
Alignment explanation
Indices: 32644830--32645522 Score: 1014
Period size: 371 Copynumber: 1.9 Consensus size: 369
32644820 TCCTTTTTCA
* *
32644830 AATCAGTTATTGCATAACGCTCCAATATCTTATCTATGTATGAAGCCTGAGACAGTGCTATCACT
1 AATCAGTCATTGCATAACGCTCCAATATCTTATCTATGTATGAAGCATGAGACAGTGCTATCACT
* * * ** **
32644895 TTGTTCTTTGATCCCTTAGGTTTCGAATACCTAGAATGAAATTAGCTTCTCCCAAGTCATTCATG
66 TTGTTCTTTGATCCATTAAGATTCGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCATG
* ** * *
32644960 CTAAATTGTTGGGTTAGTCATAGTTTAACCAATAACAATGTCTCTACAACATTTTCAATGAGTAG
131 CTAAACTGTTGGGTTAACCACAGTTTAACCAATAACAATGTCCCTACAACATTTTCAATGAGTAG
* ** * * *
32645025 AATGTCCTCGACATATAGAATGAGAAAGATCACCTTTCTATCTCCTAAATGTTTGTAAACACAAG
196 AATGTCATCGACATATAGAACAAGAAAGACCACCTTTCTATCCCCTAAATATTTGTAAACACAAG
* *
32645090 GTTCATCTACATTTTTTCTCAAATCCAAAAGTCTTGATCGCTTGATCAAATCTTTGGTTCCATGA
261 GTTCATCTACA-TTTTGCTCAAATCCAAAAGTCTTGATCGCTTGATCAAATCTTTGATTCCATGA
32645155 GCGGGATATGAAATCCTGATTCAGAAGGTTGATTTCCCTTTACTG
325 GCGGGATATGAAATCCTGATTCAGAAGGTTGATTTCCCTTTACTG
* * *
32645200 AATCAGTCATTGTATAACGTTCCAATATCTTATCTATTTATGAAGCATGAGACAGTGCTATCACT
1 AATCAGTCATTGCATAACGCTCCAATATCTTATCTATGTATGAAGCATGAGACAGTGCTATCACT
* *
32645265 TTGTTCTTTCGATCCATTAAGATTCGAATACCTAGAAAAAAATTAAATTCTCTCAAGTCCTTCAT
66 TTGTTCTTT-GATCCATTAAGATTCGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCAT
** *
32645330 GCTAAACTGTTGGGTTAACCACAGTTTAACTGATGACAATGTCCCTACATA-A-TTTCTAATGAG
130 GCTAAACTGTTGGGTTAACCACAGTTTAACCAATAACAATGTCCCTACA-ACATTTTC-AATGAG
*
32645393 TTGAATGTCATCGACATATAGAACAAGAAAGACCACCTTT-TGATCCCCTAAATATTTGTAAACA
193 TAGAATGTCATCGACATATAGAACAAGAAAGACCACCTTTCT-ATCCCCTAAATATTTGTAAACA
* * *
32645457 CAATGTTCATCTACATTTTGCTCAAATCCAAAATTCTTGATTGCTTGATCAAATCTTTGATTCCA
257 CAAGGTTCATCTACATTTTGCTCAAATCCAAAAGTCTTGATCGCTTGATCAAATCTTTGATTCCA
32645522 T
322 T
32645523 TAGCAGAATG
Statistics
Matches: 285, Mismatches: 34, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
370 121 0.42
371 163 0.57
372 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (369 bp):
AATCAGTCATTGCATAACGCTCCAATATCTTATCTATGTATGAAGCATGAGACAGTGCTATCACT
TTGTTCTTTGATCCATTAAGATTCGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCATG
CTAAACTGTTGGGTTAACCACAGTTTAACCAATAACAATGTCCCTACAACATTTTCAATGAGTAG
AATGTCATCGACATATAGAACAAGAAAGACCACCTTTCTATCCCCTAAATATTTGTAAACACAAG
GTTCATCTACATTTTGCTCAAATCCAAAAGTCTTGATCGCTTGATCAAATCTTTGATTCCATGAG
CGGGATATGAAATCCTGATTCAGAAGGTTGATTTCCCTTTACTG
Found at i:32651468 original size:26 final size:26
Alignment explanation
Indices: 32651445--32651511 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
32651435 ACATCCCAAC
*
32651445 CCACAGCTCGTGTGAACAGGCCCATT
1 CCACAGCTCGTGTGAACAAGCCCATT
32651471 CCACAGCTCGTGTGAACAAGCCCATT
1 CCACAGCTCGTGTGAACAAGCCCATT
*
32651497 TCACAGCTCGTGTGA
1 CCACAGCTCGTGTGA
32651512 GCATTGTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (26 bp):
CCACAGCTCGTGTGAACAAGCCCATT
Found at i:32657559 original size:25 final size:25
Alignment explanation
Indices: 32657529--32657609 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
32657519 TTCTGATCTG
*
32657529 CAGCTCGTGTGAGCATGCCGATTTA
1 CAGCTCGTGTGAGCATACCGATTTA
* * *
32657554 CAGCTCGTGAGAGCATACCGGTCTA
1 CAGCTCGTGTGAGCATACCGATTTA
* * * *
32657579 CAGCTCGAGTGAGCATTCCAATTCA
1 CAGCTCGTGTGAGCATACCGATTTA
32657604 CAGCTC
1 CAGCTC
32657610 ATATAAGCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (25 bp):
CAGCTCGTGTGAGCATACCGATTTA
Found at i:32657920 original size:16 final size:16
Alignment explanation
Indices: 32657899--32657929 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32657889 CATGGCTAAC
32657899 TTGTTTGATGTATATA
1 TTGTTTGATGTATATA
32657915 TTGTTTGATGTATAT
1 TTGTTTGATGTATAT
32657930 GTATAGGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (16 bp):
TTGTTTGATGTATATA
Found at i:32660085 original size:55 final size:55
Alignment explanation
Indices: 32660023--32660152 Score: 197
Period size: 55 Copynumber: 2.4 Consensus size: 55
32660013 ATGTCTTAGG
* ***
32660023 CCATGTAACTCACTGACTTGGGTCACACGGTCAACCACACGCTTGTGTGACTAGC
1 CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGTGACTAGC
* *
32660078 CCGTGTAACTCACTGACTTGGGTCACATGGCCAACCACACGCCAATGTGACTAGC
1 CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGTGACTAGC
*
32660133 CCATGTAACTCAATGACTTG
1 CCATGTAACTCACTGACTTG
32660153 CTTCCATTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (55 bp):
CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGTGACTAGC
Found at i:32668139 original size:19 final size:19
Alignment explanation
Indices: 32668104--32668192 Score: 56
Period size: 18 Copynumber: 4.5 Consensus size: 19
32668094 GTATTTTATA
*
32668104 TTTAAAAAAA-ATGAAAAT
1 TTTAAAAAAATATAAAAAT
* *
32668122 TTTAAAAAAATTTAAAAAA
1 TTTAAAAAAATATAAAAAT
*
32668141 TAT-AAAAAATCATAATATATAT
1 TTTAAAAAAAT-ATAA-A-A-AT
* *
32668163 TTTAAAAATAATTTATAAAT
1 TTTAAAAA-AATATAAAAAT
32668183 TTATAAAAAA
1 TT-TAAAAAA
32668193 TTTCAAGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
18 17 0.31
19 10 0.19
20 6 0.11
21 8 0.15
22 4 0.07
23 6 0.11
24 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
TTTAAAAAAATATAAAAAT
Found at i:32668305 original size:16 final size:17
Alignment explanation
Indices: 32668286--32668330 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
32668276 ATTAAAAATA
* *
32668286 AAAAAATATAATTTA-T
1 AAAAAATATAAATTACG
32668302 AAAAAATATAAATTACG
1 AAAAAATATAAATTACG
32668319 AAAAAATATAAA
1 AAAAAATATAAA
32668331 AATTGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAAATATAAATTACG
Found at i:32668753 original size:17 final size:16
Alignment explanation
Indices: 32668715--32668753 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
32668705 AATTGTAAAG
*
32668715 ATTTTTTTATATTTTT
1 ATTTTTATATATTTTT
*
32668731 AATTTTATATAATTTTT
1 ATTTTTATAT-ATTTTT
32668748 ATTTTT
1 ATTTTT
32668754 TTTCTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTATATATTTTT
Found at i:32669877 original size:29 final size:31
Alignment explanation
Indices: 32669826--32669889 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 31
32669816 ATTATTCAAA
32669826 TATTAAAAAGATTCTATTTAAGTTACT-GAAT
1 TATTAAAAAGATTCTATTTAAGTTACTAG-AT
*
32669857 TATT-AAAA-ATTTTATTTAAGTTACTAGAT
1 TATTAAAAAGATTCTATTTAAGTTACTAGAT
32669886 TATT
1 TATT
32669890 TTTTTTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 22 0.71
30 5 0.16
31 4 0.13
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (31 bp):
TATTAAAAAGATTCTATTTAAGTTACTAGAT
Found at i:32673092 original size:82 final size:82
Alignment explanation
Indices: 32672955--32673157 Score: 334
Period size: 82 Copynumber: 2.5 Consensus size: 82
32672945 GATATACATC
*
32672955 TTTCAACAAATCATTCCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
*
32673020 AAGATGTTAACCAATCA
66 AAGATGTTAACCAACCA
* * * *
32673037 TTTCAACAAATCATTTAAAAAAACAAATAAAATATGTTATGCTAACAAAATGATCCTATAGTAGT
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
*
32673102 AAGTTGTTAACCAACCA
66 AAGATGTTAACCAACCA
*
32673119 TTTCAAGAAATCATTTCAAAAAACAAATAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTA
32673158 ACAATCTCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 112 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.29
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
AAGATGTTAACCAACCA
Found at i:32675760 original size:45 final size:45
Alignment explanation
Indices: 32675696--32675823 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 45
32675686 ACCACCTCTA
* * * * *
32675696 TCACTCTCTCCACCTTTACTGTCAGA-AACCTCACCACCCTCACCT
1 TCACCCTCACCACATTTACTGCCA-ACAACCTCACCACCCTCACCC
32675741 TCACCCTCACCACATTTACTGCCAACAACCT---CA--C-CACCC
1 TCACCCTCACCACATTTACTGCCAACAACCTCACCACCCTCACCC
*
32675780 TCACCCTCACCACATTTACTGCCAACAACCTTACCACCCTCACC
1 TCACCCTCACCACATTTACTGCCAACAACCTCACCACCCTCACC
32675824 AACTTCATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
39 35 0.49
40 1 0.01
42 4 0.06
44 2 0.03
45 29 0.41
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (45 bp):
TCACCCTCACCACATTTACTGCCAACAACCTCACCACCCTCACCC
Found at i:32675786 original size:39 final size:39
Alignment explanation
Indices: 32675736--32675823 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
32675726 TCACCACCCT
*
32675736 CACCTTCACCCTCACCACATTTACTGCCAACAACCTCAC
1 CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
*
32675775 CACCCTCACCCTCACCACATTTACTGCCAACAACCTTAC
1 CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
32675814 CACCCTCACC
1 CACCCTCACC
32675824 AACTTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.19
Consensus pattern (39 bp):
CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
Found at i:32678246 original size:10 final size:9
Alignment explanation
Indices: 32678216--32678252 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
32678206 CTGATTAGTG
32678216 TTTAACTTGT
1 TTTAA-TTGT
*
32678226 TTTAATTTT
1 TTTAATTGT
32678235 TTTAATTGT
1 TTTAATTGT
32678244 TTTAATTGT
1 TTTAATTGT
32678253 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:32678311 original size:18 final size:18
Alignment explanation
Indices: 32678278--32678316 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
32678268 ATTTTCTAAT
*
32678278 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
32678295 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
32678314 TTT
1 TTT
32678317 GCTGACGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:32690548 original size:37 final size:38
Alignment explanation
Indices: 32690442--32690556 Score: 223
Period size: 38 Copynumber: 3.1 Consensus size: 38
32690432 TTCAATGGAG
32690442 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
1 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
32690480 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
1 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
32690518 TATGCCCAAAGACCAGT-ATGAGATGATTGTAATAACA
1 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
32690555 TA
1 TA
32690557 CTTGTTTTAC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 22 0.29
38 55 0.71
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (38 bp):
TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
Found at i:32696272 original size:533 final size:534
Alignment explanation
Indices: 32695000--32696583 Score: 2767
Period size: 534 Copynumber: 3.0 Consensus size: 534
32694990 TACTCACATT
* * * * * *
32695000 CCATTTGTTGGAATAACTGATGAGATCTCACACCACTCTGGCAAACTAAATAGCAATTGGGTTTA
1 CCATTTATTGGAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
* *
32695065 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCATTACCTCACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
*
32695130 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTT
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
* *
32695195 CGCTTACACGTTGGTTACCATCGAACTACCCATTTGGCAAGTACTTCA-CAACATAATCCCCTTA
196 CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTT-AGCAACATAATCCCCTTA
* *
32695259 AAGAGGAATAGTCTTAACAGACATATTTGTCACTTGATATATCCCTTTGTGTGACTCTCTCTGAC
260 AAGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGAC
32695324 TATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAA
325 TATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAA
*
32695389 CATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTCTTATTGGTGGATTTTTATCTGTGATCCTCG
390 CATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTCTTATTGGTGGATCTTTATCTGTGATCCTCG
*
32695454 GATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCATGTTTATTGTTCATGAATAA
455 GATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCGTG-TTATTGTTCATGAATAA
32695519 TTGATGAGATCCCACA
519 TTGATGAGATCCCACA
32695535 CCATTTATTGGAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
1 CCATTTATTGGAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
32695600 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
* *
32695665 GACCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATTTAAGTTCACGATTC
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
32695730 CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTTAGC-ACATAATCCCCTTAA
196 CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTTAGCAACATAATCCCCTTAA
32695794 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
261 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
* ** * *
32695859 ATGGCTTCTAGCTAAACCCTCTTTATTCAATGGACTAGTCGTCGTATTTACGCTCATTCTCTAAC
326 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
* * *
32695924 ATGCAAGTTTTCACTGAGCACCTTTTGGTGGTTCTTATTAGTGGATCTTTATCTGTGATCCTCGG
391 ATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTCTTATTGGTGGATCTTTATCTGTGATCCTCGG
32695989 ATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCGTGTTATTGTTCATGAATAATT
456 ATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCGTGTTATTGTTCATGAATAATT
32696054 GATGAGATCCCACA
521 GATGAGATCCCACA
*
32696068 CCATTTATTGTAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
1 CCATTTATTGGAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
* *
32696133 ATAGTGATGGGATTACATCTTTGTAACCTAATTCACATGCGTTACCTTACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
*
32696198 GCCCATCAACTATGGATTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
* * * * *
32696263 CTCTTACACGTTGGTTCCCATGGAACTACCCATTTGGTGAGTACTTCGCAACATAATCCCCGTAA
196 CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTTAGCAACATAATCCCCTTAA
* * *
32696328 AGAGGAATAGTATTAACAGACATATTTGTCACTCGATATATCCTTCTGTGTGACTCACTCTGACT
261 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
32696393 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
326 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
* *
32696458 ATGTAGGTTTTCACTGAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCGG
391 ATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTCTTATTGGTGGATCTTTATCTGTGATCCTCGG
* *
32696523 ATAAACCTTCTTTTGTTTGCCTATACACCAGGCACCTACTAGCGTGTTATTGTTTATGAAT
456 ATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCGTGTTATTGTTCATGAAT
32696584 GCTTCAAGAT
Statistics
Matches: 996, Mismatches: 51, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
533 267 0.27
534 500 0.50
535 229 0.23
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (534 bp):
CCATTTATTGGAATAACTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTTAGCAACATAATCCCCTTAA
AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
ATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTCTTATTGGTGGATCTTTATCTGTGATCCTCGG
ATAAACCTTCTTTTGTTTACCTATACACCAGGCACCTACTAGCGTGTTATTGTTCATGAATAATT
GATGAGATCCCACA
Found at i:32697043 original size:27 final size:27
Alignment explanation
Indices: 32697013--32697070 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
32697003 GCCCCTATGT
*
32697013 ACTATCTCATGTTTATTGTCCCGTCAG
1 ACTATCTCATGTTTAATGTCCCGTCAG
** *
32697040 ACTATCTTGTGTTTAATGTCCTGTCAG
1 ACTATCTCATGTTTAATGTCCCGTCAG
32697067 ACTA
1 ACTA
32697071 ACTATGATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (27 bp):
ACTATCTCATGTTTAATGTCCCGTCAG
Found at i:32700116 original size:22 final size:22
Alignment explanation
Indices: 32700091--32700139 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32700081 TACGCATAGA
*
32700091 TATGAAAACCCTTTACGAGTAG
1 TATGAAAACCCTTTAAGAGTAG
* *
32700113 TATGAAAGCCCTTTAAGGGTAG
1 TATGAAAACCCTTTAAGAGTAG
32700135 TATGA
1 TATGA
32700140 GACTCTGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (22 bp):
TATGAAAACCCTTTAAGAGTAG
Found at i:32703084 original size:34 final size:34
Alignment explanation
Indices: 32703041--32703108 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
32703031 GCATTTTTGA
*
32703041 CACTGTACTGAGATGGGCTAAGGCCTAA-ACTGT
1 CACTGTACTGAAATGGGCTAAGGCCTAAGACTGT
* *
32703074 CACTGATACTGAAATGGGCTTAGGTCTAAGACTGT
1 CACTG-TACTGAAATGGGCTAAGGCCTAAGACTGT
32703109 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (34 bp):
CACTGTACTGAAATGGGCTAAGGCCTAAGACTGT
Found at i:32703850 original size:26 final size:26
Alignment explanation
Indices: 32703820--32703881 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
32703810 GCTGTAAGTG
32703820 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
32703846 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
32703872 TTTTGAAACT
1 TTCTGAAACT
32703882 ACTATAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:32707776 original size:14 final size:13
Alignment explanation
Indices: 32707740--32707766 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32707730 TTCTTCTAGT
32707740 TCAATCTTTTTCC
1 TCAATCTTTTTCC
32707753 TCAATCTTTTTCC
1 TCAATCTTTTTCC
32707766 T
1 T
32707767 ACATCCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (13 bp):
TCAATCTTTTTCC
Found at i:32710460 original size:12 final size:13
Alignment explanation
Indices: 32710443--32710471 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32710433 CTCATACATG
32710443 AATAAATAAA-GC
1 AATAAATAAATGC
32710455 AATAAATAAATGC
1 AATAAATAAATGC
32710468 AATA
1 AATA
32710472 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:32714047 original size:21 final size:21
Alignment explanation
Indices: 32714021--32714070 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
32714011 TACGACATAT
*
32714021 AAGTGCCTGATACGACACACG
1 AAGTGCCTGATACAACACACG
32714042 AAGTGCCTGATACAACACACG
1 AAGTGCCTGATACAACACACG
*
32714063 AGGTGCCT
1 AAGTGCCT
32714071 AAAATACGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (21 bp):
AAGTGCCTGATACAACACACG
Found at i:32714077 original size:23 final size:21
Alignment explanation
Indices: 32714021--32714101 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
32714011 TACGACATAT
*
32714021 AAGTGCCTGATACGACACACG
1 AAGTGCCTAATACGACACACG
* *
32714042 AAGTGCCTGATACAACACACG
1 AAGTGCCTAATACGACACACG
* **
32714063 AGGTGCCTAAAATACGACACATA
1 AAGTGCCT--AATACGACACACG
*
32714086 AAGTGTCTAAT-CGACA
1 AAGTGCCTAATACGACA
32714102 AAGCCGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.10
21 30 0.60
23 15 0.30
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
AAGTGCCTAATACGACACACG
Done.