Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 157 of 221
Found at i:47615492 original size:182 final size:181
Alignment explanation
Indices: 47615251--47615764 Score: 665
Period size: 182 Copynumber: 2.8 Consensus size: 181
47615241 TCAATCTACT
* * *
47615251 CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAGGAGATAAGATTTGT
1 CTTCAGGGAGATAAGATTTGCAGCTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTTGT
* * * *
47615316 AGCTTTCATTTGCTCCACTGCAACTTTAAGGAGATAAAATTTGTTATGGTGACTTCAATCCAACC
65 AGCTTTCATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATGGTGACTTCAATCCAACC
* *
47615381 CACTGCAACTTTAGAGGTATAGGATTTGTCGCTTCAATATGCTCCACTGCAA
130 CACTGCAACTTCAGAAGTATAGGATTTGTCGCTTCAATATGCTCCACTGCAA
*
47615433 CTTCAGGGAGATAAGATTTGCAGCTTCAATCTGCTCCACTGCAACTTCTGGGAGATAAGATTTGT
1 CTTCAGGGAGATAAGATTTGCAGCTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTTGT
* * *
47615498 AGCTTTCATCTGCTCTACTGCAACTTCAGGGAGATAAGATTT-TCTATGGTGGCTTCAATCTAAC
65 AGCTTTCATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-TATGGTGACTTCAATCCAAC
* *
47615562 CCACTGTAACTTCAGAAGTATAGGATTTGTCGCTTCAATATGTTCCACTGCAA
129 CCACTGCAACTTCAGAAGTATAGGATTTGTCGCTTCAATATGCTCCACTGCAA
* *
47615615 CTTCAGGGAGATAAGATTTGCTATGGTGGCTTCAATCTGAC-CCACTGCAACTTCAGAAGTATAG
1 CTTCAGGGAGATAAGATTTGC-A-----GCTTCAATCTG-CTCCACTGCAACTTCAGGAG-ATAA
* * * * *
47615679 GATTTGTCGC-TTCTATCTGCTCCACTGCAACTTCAGGGAGTTAGGATTCGCTATGGTGACTTCA
58 GATTTGTAGCTTTC-ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATGGTGACTTCA
* * * *
47615743 ATCCGACCTATTACAACTTCAG
122 ATCCAACCCACTGCAACTTCAG
47615765 GGGTATAAGA
Statistics
Matches: 289, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
181 1 0.00
182 185 0.64
183 1 0.00
187 6 0.02
188 95 0.33
189 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (181 bp):
CTTCAGGGAGATAAGATTTGCAGCTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGATTTGTA
GCTTTCATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATGGTGACTTCAATCCAACCC
ACTGCAACTTCAGAAGTATAGGATTTGTCGCTTCAATATGCTCCACTGCAA
Found at i:47615726 original size:138 final size:136
Alignment explanation
Indices: 47615265--47615718 Score: 451
Period size: 138 Copynumber: 3.3 Consensus size: 136
47615255 AGGGAGATAA
* * * * *
47615265 GATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTC-ATTTGC
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCGC-TTCAATATGC
* * * ** *
47615329 TCCACTGCAACTTTAAGGAGATAAAATTTGTTATGGTGACTTCAATCCAACCCACTGCAACTTTA
65 TCCACTGCAACTTCAGGGAGATAAGATTTG-TATGGTG-CTTCAATCTGACCCACTGCAACTTCA
*
47615394 GAGGTATAG
128 GAAGTATAG
* * *
47615403 GATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CAGCTTCAATCTGC
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTC-GCTTCAATATGC
* * *
47615467 TCCACTGCAACTTCTGGGAGATAAGATTTGTA-GCT--TTC-ATCTG-CTCTACTGCAACTTCAG
65 TCCACTGCAACTTCAGGGAGATAAGATTTGTATGGTGCTTCAATCTGAC-CCACTGCAACTTCA-
* *
47615527 GGAG-ATAA
128 GAAGTATAG
* * * *
47615535 GATTTTCTATGGTGGCTTCAATCTAAC-CCACTGTAACTTCA-GAAGTATAGGATTTGTCGCTTC
1 GA---T-T-T-GTCGCTTCAATCT-ACTCCACTGCAACTTCAGGGAG-ATAAGATTTGTCGCTTC
*
47615598 AATATGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTGGCTTCAATCTGACCCACTGC
58 AATATGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATGGT-GCTTCAATCTGACCCACTGC
47615663 AACTTCAGAAGTATAG
121 AACTTCAGAAGTATAG
* *
47615679 GATTTGTCGCTTCTATCTGCTCCACTGCAACTTCAGGGAG
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAG
47615719 TTAGGATTCG
Statistics
Matches: 256, Mismatches: 37, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
131 1 0.00
132 20 0.08
133 5 0.02
135 1 0.00
136 3 0.01
137 10 0.04
138 174 0.68
139 8 0.03
140 3 0.01
141 1 0.00
143 6 0.02
144 23 0.09
145 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (136 bp):
GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCGCTTCAATATGCT
CCACTGCAACTTCAGGGAGATAAGATTTGTATGGTGCTTCAATCTGACCCACTGCAACTTCAGAA
GTATAG
Found at i:47626230 original size:5 final size:5
Alignment explanation
Indices: 47626220--47626291 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
47626210 TGTTAAAAAA
* *
47626220 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
47626266 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
47626292 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:47626273 original size:19 final size:19
Alignment explanation
Indices: 47626249--47626291 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
47626239 ATTATGTTTT
47626249 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
47626268 TATATTATATTATATTATA
1 TATATTATATTATATTATA
47626287 TATAT
1 TATAT
47626292 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:47626324 original size:18 final size:19
Alignment explanation
Indices: 47626296--47626335 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
47626286 ATATATACAT
*
47626296 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
47626315 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
47626333 AAA
1 AAA
47626336 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:47627300 original size:44 final size:45
Alignment explanation
Indices: 47627205--47627338 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
47627195 ACAGGACAGA
* *
47627205 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
47627251 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
47627295 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
47627339 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:47637753 original size:132 final size:132
Alignment explanation
Indices: 47637585--47638005 Score: 547
Period size: 132 Copynumber: 3.2 Consensus size: 132
47637575 AACACCAAGG
* * * *
47637585 AGATAGGATTCGCTGCCTTCGATCTGCTCTACTACTGCTTAGGGATACAAGATCTACAATCTTCA
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* * * ** *
47637650 ACCTACTCCATTGCTGCTCAGGGAGA-AGGGATTGATGGCTTAAATCTATTTCTCTACTACCTTG
66 ACCTACTCCACTGCTGCTCAGGGAGATA-GGATTGGTGACTTAAATCTGCTTCCCTACTACCTTG
*
47637714 GAA
130 GGA
* * * * * *
47637717 AGATATGATTTGCTGCCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGGTCTATAATCTTCA
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* *
47637782 ACCTACTCCACTGCTGCCCAGGGAGATAGGACTGGTGACTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGACTTAAATCTGCTTCCCTACTACCTTGG
47637847 GA
131 GA
* *** *
47637849 AGATAAGATTTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCA
1 AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* * * *
47637914 ACCTATTCCACTACTACTCAGGGAGATAGGATTGGTGACTTAAATATGCTTCCCTACTACCTTGG
66 ACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGACTTAAATCTGCTTCCCTACTACCTTGG
47637979 GA
131 GA
* * *
47637981 AGATAAGATTCGCCGTCTTCGATCT
1 AGATAAGATTTGCTGCCTTCGATCT
47638006 ACTTCGCTAC
Statistics
Matches: 250, Mismatches: 38, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 249 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTTGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
ACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGACTTAAATCTGCTTCCCTACTACCTTGG
GA
Found at i:47637781 original size:44 final size:44
Alignment explanation
Indices: 47637733--47637941 Score: 138
Period size: 44 Copynumber: 4.8 Consensus size: 44
47637723 GATTTGCTGC
* * *
47637733 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGGTCTATAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * ** * ***
47637777 CTTCAACCTACTCCACTGCTGCCCAGGGAGATAGGA-CTGGTGA-
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAAT
* * * *
47637820 CTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTTACCAT
1 CTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAAGATCTACAAT
* * *
47637865 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* ** * *
47637909 CTTCAACCTATTCCACTACTACTCAGGGAGATA
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATA
47637942 GGATTGGTGA
Statistics
Matches: 123, Mismatches: 34, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
43 17 0.14
44 88 0.72
45 18 0.15
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
Found at i:47638045 original size:45 final size:45
Alignment explanation
Indices: 47637996--47638759 Score: 657
Period size: 45 Copynumber: 17.0 Consensus size: 45
47637986 AGATTCGCCG
* *
47637996 TCTTCGATCTACTTCGCTACCAGTACAGAAAGACAAGATATGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* *
47638041 TCTTCGATCTACTTCACT-CCCGATACAGGAAA-ACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACA-GAAAGACAAGATCTGCTA
* * * *
47638086 CCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* ** * * * * * *
47638131 TTTTTTTAACTTACTCCACTG-CTGCT-CA-AGGAGACAAG-GCTTG-TGA
1 -TCTTCGATC-TACTTCGCTGCCAG-TACAGA-AAGACAAGATC-TGCT-A
*
47638177 -CTTCGATCTACTTCGCTGAC-GATACATG-AAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACA-GAAAGACAAGATCTGCTA
* *
47638221 TCTTCAATCTACTTCGCTGAC-GATACATG-AAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACA-GAAAGACAAGATCTGCTA
* * *
47638266 TCTTCGATCTACTTCGCTGCCAGTATAGAAAGACAAGATATGTTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* *
47638311 TCTTCGATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* * * * * *
47638356 TCTTTGATCTACTTCGCTGCCAGTATAGGAAGATAAAATTTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* ** *
47638401 TCTTCGACCTACTTTACTGCCAGTACAGAAAGACAAGATCT-TTCA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCT-A
* * *
47638446 TCTTCGATCTACTTCGCTACCAATACA-AGAAGACAAAATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGA-AAGACAAGATCTGCTA
*** **
47638491 TCTTCGATCTACTTTTTTGCCAGTACAGGGAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* ** * *
47638536 TCTTCGATATACTTTACTGCCAGTACAGAAAGACAAGATCTACCA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* * *
47638581 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGGTCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* * *
47638626 TCTTCGATCTACTTCGTTGCCAGTACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
* * * * * * * *
47638671 TTTTCGACCTACTTCACTG-CTGCT-CA-AGGAGATAAGGT-TGGTA
1 TCTTCGATCTACTTCGCTGCCAG-TACAGA-AAGACAAGATCTGCTA
* * *
47638714 TCTTCGATCAACTTCGCTGCCAATACA-AGAAGACAAGATTTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGA-AAGACAAGATCTGCTA
47638759 T
1 T
47638760 TTTCAACCTA
Statistics
Matches: 578, Mismatches: 113, Indels: 56
0.77 0.15 0.07
Matches are distributed among these distances:
43 29 0.05
44 49 0.08
45 467 0.81
46 24 0.04
47 9 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAGTACAGAAAGACAAGATCTGCTA
Found at i:47647367 original size:22 final size:22
Alignment explanation
Indices: 47647327--47647368 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47647317 AATTTTAAAA
**
47647327 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAAATTTTTTT
47647349 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
47647369 AGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTTT
Found at i:47649895 original size:13 final size:13
Alignment explanation
Indices: 47649877--47649902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47649867 CCCGACCCGT
47649877 TTTTATTTTTTTA
1 TTTTATTTTTTTA
47649890 TTTTATTTTTTTA
1 TTTTATTTTTTTA
47649903 CTTAAAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:47652052 original size:13 final size:13
Alignment explanation
Indices: 47652034--47652137 Score: 90
Period size: 13 Copynumber: 8.2 Consensus size: 13
47652024 TATATTAAAG
*
47652034 TTAAAACATTATA
1 TTAAAACAGTATA
*
47652047 TTAAAACAATATA
1 TTAAAACAGTATA
*
47652060 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
47652073 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
47652087 TTAAAACGGTATA
1 TTAAAACAGTATA
*
47652100 TTACAA-A-T-T-
1 TTAAAACAGTATA
*
47652109 TTATAACAGTATA
1 TTAAAACAGTATA
*
47652122 TTAAAATAGTATA
1 TTAAAACAGTATA
47652135 TTA
1 TTA
47652138 CATTAAAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
11 2 0.03
12 1 0.01
13 52 0.71
14 11 0.15
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:47652066 original size:27 final size:27
Alignment explanation
Indices: 47652034--47652101 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
47652024 TATATTAAAG
* *
47652034 TTAAAACATTATA-TTAAAACAATATA
1 TTAAAAAAGTATATTTAAAACAATATA
* * *
47652060 TTAAAAAAGTATATTTATAATAGTATA
1 TTAAAAAAGTATATTTAAAACAATATA
**
47652087 TTAAAACGGTATATT
1 TTAAAAAAGTATATT
47652102 ACAAATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (27 bp):
TTAAAAAAGTATATTTAAAACAATATA
Found at i:47652120 original size:35 final size:35
Alignment explanation
Indices: 47652073--47652139 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
47652063 AAAAAGTATA
* *
47652073 TTTATAATAGTATATTAAAACGGTATATTACAAAT
1 TTTATAACAGTATATTAAAACAGTATATTACAAAT
*
47652108 TTTATAACAGTATATTAAAATAGTATATTACA
1 TTTATAACAGTATATTAAAACAGTATATTACA
47652140 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (35 bp):
TTTATAACAGTATATTAAAACAGTATATTACAAAT
Found at i:47654031 original size:13 final size:14
Alignment explanation
Indices: 47654013--47654051 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
47654003 ACGGGGTCGA
*
47654013 GGAAATGGG-GAGG
1 GGAAATGGGAAAGG
*
47654026 GGAAATGGGAAATG
1 GGAAATGGGAAAGG
47654040 GGAAATGGGAAA
1 GGAAATGGGAAA
47654052 TGTAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.49, T:0.10
Consensus pattern (14 bp):
GGAAATGGGAAAGG
Found at i:47654037 original size:7 final size:7
Alignment explanation
Indices: 47654025--47654053 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
47654015 AAATGGGGAG
47654025 GGGAAAT
1 GGGAAAT
47654032 GGGAAAT
1 GGGAAAT
47654039 GGGAAAT
1 GGGAAAT
47654046 GGGAAAT
1 GGGAAAT
47654053 G
1 G
47654054 TAAAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.14
Consensus pattern (7 bp):
GGGAAAT
Found at i:47654059 original size:14 final size:14
Alignment explanation
Indices: 47654028--47654071 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
47654018 TGGGGAGGGG
**
47654028 AAATGGGAAATGGG
1 AAATGGGAAATGTA
47654042 AAATGGGAAATGTA
1 AAATGGGAAATGTA
**
47654056 AAATGTAAAATGTA
1 AAATGGGAAATGTA
47654070 AA
1 AA
47654072 TGTAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.20
Consensus pattern (14 bp):
AAATGGGAAATGTA
Found at i:47654701 original size:13 final size:13
Alignment explanation
Indices: 47654683--47654707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47654673 AATTTTAATG
47654683 TAATATACTGTTT
1 TAATATACTGTTT
47654696 TAATATACTGTT
1 TAATATACTGTT
47654708 ATAAAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:47654969 original size:19 final size:19
Alignment explanation
Indices: 47654945--47654994 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
47654935 CCCTGAAGGA
47654945 TCCGTACACATGATGAGCC
1 TCCGTACACATGATGAGCC
47654964 TCCGTACACATGATGAGCC
1 TCCGTACACATGATGAGCC
47654983 TCCGTACACATG
1 TCCGTACACATG
47654995 CGCCTTCGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (19 bp):
TCCGTACACATGATGAGCC
Found at i:47668634 original size:41 final size:41
Alignment explanation
Indices: 47668523--47668804 Score: 165
Period size: 41 Copynumber: 6.6 Consensus size: 41
47668513 AAGTAAATCC
* *
47668523 TATCTCCCTGAAGTTGCAGTGGAGC-GAATTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAG-A--TAAAATCA-AG-TCT
* * * *** * *
47668568 TATCTCTCTTAAGTTGCAAAAGAGCAGATCACATCAAGTCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATAAAATCAAGTCT
* *
47668609 TATCTCCCTGAAGTTGTAGTGGAGCAGAAAAAAAGTCAA-TCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAG-ATAAAA-TCAAGTCT
* * * *
47668651 TATCTCTCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGA--TAAAATCA-AG-TCT
* * * * *
47668696 TATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCAAGTTT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATAAAATCAAGTCT
* * * * *
47668737 TATCTTCCTGAAGTTGTAGTGGAGAAGACAGAAGAAACTAA-TCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAG--ATAA-AATC-AAGTCT
*
47668781 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGTAGTGGAG
47668805 TGGATTAAAA
Statistics
Matches: 182, Mismatches: 43, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
41 50 0.27
42 35 0.19
43 21 0.12
44 25 0.14
45 50 0.27
46 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGATAAAATCAAGTCT
Found at i:47668740 original size:128 final size:129
Alignment explanation
Indices: 47668509--47668842 Score: 460
Period size: 128 Copynumber: 2.6 Consensus size: 129
47668499 AGAACAAATT
* *
47668509 GAAAAAGTAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTTAAAACCACAGATCTTATCTC
1 GAAAAAGT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
* *
47668574 TCTTAAGTTGCAAAAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-A
65 TCTGAAGTTGCAAAAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGACA
*
47668638 -AAAAAGTCAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
1 GAAAAAGT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
* ** * *
47668702 TCTGAAGTTGTAGTAGAGCAGATCACATCAAGTTTTATCTTCCTGAAGTTGTAGTGGAGAAGACA
65 TCTGAAGTTGCAAAAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGACA
* * ** * *
47668767 GAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAAAATGATAAACCTTATCTC
1 GAA-AAAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
47668831 -CTTGAAGTTGCA
65 TC-TGAAGTTGCA
47668843 GTGGAGTGGA
Statistics
Matches: 182, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
128 117 0.64
129 28 0.15
130 33 0.18
131 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (129 bp):
GAAAAAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTCT
CTGAAGTTGCAAAAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGACA
Found at i:47668829 original size:44 final size:44
Alignment explanation
Indices: 47668781--47668893 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
47668771 AAACTAATCC
47668781 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
*
47668825 TATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
* * *
47668869 TATCTCTCTAAAGTTGCAGTAGAGT
1 TATCTCCCTGAAGTTGCAGTGGAGT
47668894 AGGTCGCATC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
Found at i:47670901 original size:8 final size:9
Alignment explanation
Indices: 47670887--47670911 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47670877 TTATCACTGT
47670887 TTTTTTTTA
1 TTTTTTTTA
47670896 TTTTTTTTA
1 TTTTTTTTA
47670905 TTTTTTT
1 TTTTTTT
47670912 GTTTCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:47672011 original size:44 final size:44
Alignment explanation
Indices: 47671963--47672310 Score: 172
Period size: 44 Copynumber: 7.8 Consensus size: 44
47671953 CCTCGGTTGC
* * * *
47671963 AGTGGAGCAGGTTAAAGATTACAGATCTTATCTCCCTGAGTATT
1 AGTGGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGTAGT
* ** * * * *
47672007 AGTGGAGCAGATCGAAGA-CCCTAG-CCTTGTCTCCCTGAGTAGC
1 AGTGGAGCAGATCAAAGATTAC-AGATCTTATCTCCCTAAGTAGT
** * * *
47672050 AGTGGAATAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGTGGAGCA-GAT--CAAAGATTACAGATCTTATCTCCCTAAGTAGT
* * *
47672097 AGTGGAGCAGAACGAAGATGT-CAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGAT-TACAGATCTTATCTCCCTAAGTAGT
** * * ** *
47672141 AGTGGAGCAGATTGAAG---CCAGTAATCCTATCTCTTTGAAGTTA-C
1 AGTGGAGCAGATCAAAGATTACAG--ATCTTATCTCCCT-AAG-TAGT
* * * * *
47672185 AGTGGAGCAGATTAAA-ATAATAGATCTTATCTCTCTGAAGTTGT
1 AGTGGAGCAGATCAAAGATTACAGATCTTATCTCCCT-AAGTAGT
* * * * * *
47672229 AGTGGAGTAGACCGAAGAATATCAGATCTTATCTCCATAAGCAGT
1 AGTGGAGCAGATCAAAGATTA-CAGATCTTATCTCCCTAAGTAGT
* * * *
47672274 AGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCT
1 AGTGGAGCAGATCAAAGATTACAGATCTTATCTCCCT
47672311 GAGGATACAG
Statistics
Matches: 225, Mismatches: 61, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
41 3 0.01
43 34 0.15
44 118 0.52
45 26 0.12
46 21 0.09
47 23 0.10
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGTAGT
Found at i:47672041 original size:87 final size:88
Alignment explanation
Indices: 47671942--47672114 Score: 233
Period size: 90 Copynumber: 2.0 Consensus size: 88
47671932 TCGAAAACAA
* * * *
47671942 AGCCTTGCCTCCCTCG-GTTGCAGTGGAGCAGGTT-AAAGATTACAGATCTTATCTCCCTGAGTA
1 AGCCTTGCCTCCCT-GAGTAGCAGTGGAACAGGTTAAAAAATTACAGATCTTATCTCCCTAAGTA
* *
47672005 TTAGTGGAGCAGATCGAAGACCCT
65 GTAGTGGAGCAGAACGAAGACCCT
* *
47672029 AGCCTTGTCTCCCTGAGTAGCAGTGGAATAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGT
1 AGCCTTGCCTCCCTGAGTAGCAGTGGAACAGGTT--AAAAAATTACAGATCTTATCTCCCTAAGT
47672094 AGTAGTGGAGCAGAACGAAGA
64 AGTAGTGGAGCAGAACGAAGA
47672115 TGTCAGATCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 1 0.01
87 28 0.38
90 45 0.61
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGAGTAGCAGTGGAACAGGTTAAAAAATTACAGATCTTATCTCCCTAAGTAG
TAGTGGAGCAGAACGAAGACCCT
Found at i:47672360 original size:178 final size:177
Alignment explanation
Indices: 47672074--47672417 Score: 474
Period size: 178 Copynumber: 1.9 Consensus size: 177
47672064 AAAAAAATTA
* * * *
47672074 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGAACGAAGATGTCAGATCTTATCTCCCTAAGCA
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
* * * **
47672139 GTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCTTTGAAGTTACAGTGGAGCAGATTAAAATA
66 GTAGTAGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * *
47672204 ATAGATCTTATCTCTCTGAAGTTGTAGTGGAGTAGACCGAAGAATAT
131 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGACCGAAGAATAT
* * * *
47672251 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGAGGA
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
* * **
47672316 -TACAGTAGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 GT--AGTAGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA
*
47672380 TAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGA
129 TAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA
47672418 TCGCATCAGG
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
176 1 0.01
177 57 0.40
178 86 0.60
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (177 bp):
CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
GTAGTAGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGACCGAAGAATAT
Found at i:47672394 original size:44 final size:44
Alignment explanation
Indices: 47672176--47672418 Score: 148
Period size: 44 Copynumber: 5.5 Consensus size: 44
47672166 CCTATCTCTT
* * * *
47672176 TGAAGTTACAGTGGAGCAGATTAAAATAATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGTAGATTAAAATAACAGATCTTATCTCCC
* ** * *
47672220 TGAAGTTGTAGTGGAGTAGACCGAAGAATATCAGATCTTATCTCCA
1 TGAAGTTGCAGTGGAGTAGA-TTAA-AATAACAGATCTTATCTCCC
** * * * * * * *
47672266 T-AAGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCC
1 TGAAGTTGCAGTGGAGTAGAT-TAAAATAACAGATCTTATCTCCC
* * * * * * *** *
47672310 TGAGGATACAGTAGAGTACATTGAAGCCACTA-ATCCTATCTCCC
1 TGAAGTTGCAGTGGAGTAGATTAAAATAAC-AGATCTTATCTCCC
* *
47672354 TGAAGTTGCAGTGGAGTGGATTAAAATAACAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGTAGATTAAAATAACAGATCTTATCTCCC
* *
47672398 TGAGGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTGGAGTAGAT
47672419 CGCATCAGGT
Statistics
Matches: 142, Mismatches: 51, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
43 1 0.01
44 92 0.65
45 32 0.23
46 17 0.12
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGTAGATTAAAATAACAGATCTTATCTCCC
Found at i:47672588 original size:219 final size:217
Alignment explanation
Indices: 47672209--47672896 Score: 872
Period size: 219 Copynumber: 3.1 Consensus size: 217
47672199 AAATAATAGA
* * * * * *
47672209 TCTTATCTCTCTGAAGTTGTAGTGGAGTAGACCGAAGAATATCAGATCTTATCTCCATAAGCAGT
1 TCTTATCTCCCTGAGGTTGCAG-CGAGCAGACCGAAGAATAGCAGATCTTATCTCC-TAAGCAGT
** * * ** * * *
47672274 AGTGGAGCAGATCGAAGAT-GACAGATTTTACCTCCCTGAGGATACAGTAGAGTACATTGAAGCC
64 AGTGGAGCAGATCGAAGATGGTGA-ATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGCC
* * *
47672338 AC-TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATAACAGATCTTATCTCTCTGAG
128 -CGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAG
*
47672402 GTTGCAGTAGAGTAGATCGCATCAGG
192 GTTGCAGTAGAGTAGATCACATCAGG
47672428 TCTTATCTCCCT-AGAGTTGCAGCGAAGCAGACCGAAGAATTA-CAGATCTTATCTTCCTAAGCA
1 TCTTATCTCCCTGAG-GTTGCAGCG-AGCAGACCGAAGAA-TAGCAGATCTTATC-TCCTAAGCA
* *
47672491 GTAGTGGAGCGGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGAAGC
62 GTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGC
* ** *
47672556 CCGTAATCCTATCTTCCTGAAGTTATAGTGGAGCGGATTAAAAACAATTGATCTTATCTCTCTGA
127 CCGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACAATAGATCTTATCTCTCTGA
47672621 GGTTGCAGTAGAGTAGATCACATCAGG
191 GGTTGCAGTAGAGTAGATCACATCAGG
** * **
47672648 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGATTG-AGAA-AGCA-AGTCTTATCCCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTGCAGC-GAGCAGACCGAAGAATAGCAGA-TCTTAT-CTCCT-AAGCA
47672710 GTAGTGG-GACAGA-CTGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAA
62 GTAGTGGAG-CAGATC-GAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAA
*
47672773 GCCTGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTG
125 GCCCGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTG
* *
47672838 AAGTTGCAGCAGAGTAGATCACATCAGG
190 AGGTTGCAGTAGAGTAGATCACATCAGG
47672866 TCTTATCTCCCTGAGGTTGCAGCTGAGCAGA
1 TCTTATCTCCCTGAGGTTGCAGC-GAGCAGA
47672897 TTGAGAAAGC
Statistics
Matches: 415, Mismatches: 39, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
217 2 0.00
218 95 0.23
219 233 0.56
220 82 0.20
221 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
TCTTATCTCCCTGAGGTTGCAGCGAGCAGACCGAAGAATAGCAGATCTTATCTCCTAAGCAGTAG
TGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGCCCGT
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAGGTTG
CAGTAGAGTAGATCACATCAGG
Found at i:47672704 original size:44 final size:44
Alignment explanation
Indices: 47672647--47672916 Score: 164
Period size: 44 Copynumber: 6.2 Consensus size: 44
47672637 ATCACATCAG
*
47672647 GTCTTATCTCCCTGAGGTTGCAGCGGAGCAGATTGAGAAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGAAAGCAA
* * * * ** *
47672691 GTCTTATCCCCCTGAAGTTGTAGTGG-GACAGACTGAAGATGGTGAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAG-CAGATTG-AGAAAG-CAA
* * *** *
47672737 -TCTTATCTCCCTG-AGTTTACAGTGGAGCAGATTGAAGCCTGTAA
1 GTCTTATCTCCCTGAAG-TTGCAGCGGAGCAGATTG-AGAAAGCAA
* * *
47672781 -TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-A-AAA-CAATA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGAAAGC-A-A
* * * * * * *
47672823 GATCTTATCTCTCTGAAGTTGCAGCAGAGTAGA-T--CACATCAG
1 G-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGAAAGCAA
* *
47672865 GTCTTATCTCCCTGAGGTTGCAGCTGAGCAGATTGAGAAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGAAAGCAA
47672909 GTCTTATC
1 GTCTTATC
47672917 CCTTTGAAGT
Statistics
Matches: 172, Mismatches: 39, Indels: 30
0.71 0.16 0.12
Matches are distributed among these distances:
41 28 0.16
42 4 0.02
43 5 0.03
44 97 0.56
45 35 0.20
46 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGAAAGCAA
Found at i:47673107 original size:50 final size:49
Alignment explanation
Indices: 47672951--47673107 Score: 143
Period size: 50 Copynumber: 3.1 Consensus size: 49
47672941 CTGAAGACGG
** * *
47672951 CAAATCTTACTTCCCAGGCAGTGCATTGGAACAGATTAAAGCCACAACAA
1 CAAATCTTACTT-CTTGGCAGTGCAGTGGAACAGATTAAAGCCACGACAA
* * * ** * * *
47673001 CGAATCTTACTTCTCTGACATTGCAGTTAAATAGATTGAAGCCACGATAA
1 CAAATCTTACTTCT-TGGCAGTGCAGTGGAACAGATTAAAGCCACGACAA
* * **
47673051 CGAATCTTACGTTCTTGGCAGTGCAGTGGAACAGATTAAAGCTACGACGG
1 CAAATCTTAC-TTCTTGGCAGTGCAGTGGAACAGATTAAAGCCACGACAA
47673101 CAAATCT
1 CAAATCT
47673108 CATTTCCCTG
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 1 0.01
50 77 0.94
51 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (49 bp):
CAAATCTTACTTCTTGGCAGTGCAGTGGAACAGATTAAAGCCACGACAA
Found at i:47674627 original size:5 final size:6
Alignment explanation
Indices: 47674575--47674632 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
47674565 AACAATTTAG
* * * *
47674575 TTTATC TTTATT TTTCCTT TTTATT TATATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTATT TTT-ATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
47674626 TTTATT T
1 TTTATT T
47674633 GAATTCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
6 30 0.71
7 10 0.24
8 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:47674666 original size:3 final size:3
Alignment explanation
Indices: 47674658--47674697 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47674648 TTTTTAATCC
47674658 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47674698 CCTTCTTTAT
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:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47676381 original size:14 final size:14
Alignment explanation
Indices: 47676354--47676471 Score: 71
Period size: 13 Copynumber: 9.3 Consensus size: 14
47676344 GGTTTCAACA
*
47676354 ATACTGTT-TTAAT
1 ATACTGTTATAAAT
*
47676367 ATACTATTATAAAT
1 ATACTGTTATAAAT
* *
47676381 ATACT-TTTTTAAT
1 ATACTGTTATAAAT
* *
47676394 ATATTGTT-TTAAT
1 ATACTGTTATAAAT
47676407 ATACTGTTATAAAT
1 ATACTGTTATAAAT
* *
47676421 ATATTGTT-TTAAT
1 ATACTGTTATAAAT
*
47676434 ATAATGTT-T---T
1 ATACTGTTATAAAT
47676444 A-ACT-TT-T-AAT
1 ATACTGTTATAAAT
47676454 ATACTGTTATAAAT
1 ATACTGTTATAAAT
47676468 ATAC
1 ATAC
47676472 ATCTAATTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.04
9 2 0.02
10 4 0.05
11 3 0.04
12 2 0.02
13 42 0.49
14 29 0.34
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (14 bp):
ATACTGTTATAAAT
Found at i:47676402 original size:40 final size:40
Alignment explanation
Indices: 47676358--47676445 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
47676348 TCAACAATAC
*
47676358 TGTTTTAATATACTATTATAAATATACTT-TTTTAATATAT
1 TGTTTTAATATACTATTATAAATATA-TTGTTTTAATATAA
*
47676398 TGTTTTAATATACTGTTATAAATATATTGTTTTAATATAA
1 TGTTTTAATATACTATTATAAATATATTGTTTTAATATAA
47676438 TGTTTTAA
1 TGTTTTAA
47676446 CTTTTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (40 bp):
TGTTTTAATATACTATTATAAATATATTGTTTTAATATAA
Found at i:47676421 original size:27 final size:27
Alignment explanation
Indices: 47676378--47676470 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
47676368 TACTATTATA
* *
47676378 AATATACT-TTTTTAATATATTGTTTT
1 AATATACTGTTATAAATATATTGTTTT
47676404 AATATACTGTTATAAATATATTGTTTT
1 AATATACTGTTATAAATATATTGTTTT
* *
47676431 AATATAATGTT-T---TA-A--CTTTT
1 AATATACTGTTATAAATATATTGTTTT
47676451 AATATACTGTTATAAATATA
1 AATATACTGTTATAAATATA
47676471 CATCTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
20 14 0.25
21 1 0.02
22 1 0.02
23 2 0.04
24 2 0.04
25 1 0.02
26 9 0.16
27 26 0.46
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (27 bp):
AATATACTGTTATAAATATATTGTTTT
Found at i:47676441 original size:13 final size:13
Alignment explanation
Indices: 47676354--47676445 Score: 103
Period size: 13 Copynumber: 6.9 Consensus size: 13
47676344 GGTTTCAACA
47676354 ATACTGTTTTAAT
1 ATACTGTTTTAAT
* *
47676367 ATACTATTATAAAT
1 ATACTGTT-TTAAT
*
47676381 ATACTTTTTTAAT
1 ATACTGTTTTAAT
*
47676394 ATATTGTTTTAAT
1 ATACTGTTTTAAT
*
47676407 ATACTGTTATAAAT
1 ATACTGTT-TTAAT
*
47676421 ATATTGTTTTAAT
1 ATACTGTTTTAAT
*
47676434 ATAATGTTTTAA
1 ATACTGTTTTAA
47676446 CTTTTAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
13 44 0.67
14 22 0.33
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.53
Consensus pattern (13 bp):
ATACTGTTTTAAT
Found at i:47676996 original size:44 final size:44
Alignment explanation
Indices: 47676933--47677022 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
47676923 ATTATTTCTC
47676933 ATAAGTGCTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
1 ATAAGTGCTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
* *
47676977 ATAAGTGCTTTTGAGTTAAAAAATACTTTTGAGTAAAAGTTAAA
1 ATAAGTGCTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
47677021 AT
1 AT
47677023 TTATTATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (44 bp):
ATAAGTGCTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
Found at i:47677007 original size:18 final size:20
Alignment explanation
Indices: 47676970--47677014 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
47676960 TTTGAGCAAA
*
47676970 AGTTAAAATAAGTGCTTTTG
1 AGTTAAAATAAGTACTTTTG
47676990 AGTTAAAA-AA-TACTTTTG
1 AGTTAAAATAAGTACTTTTG
47677008 AG-TAAAA
1 AGTTAAAA
47677015 GTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 2 0.08
20 8 0.33
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (20 bp):
AGTTAAAATAAGTACTTTTG
Found at i:47677019 original size:24 final size:23
Alignment explanation
Indices: 47676946--47677021 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
47676936 AGTGCTTTTG
*
47676946 AGTTAAAAAACACTTTTGAGCAAA
1 AGTTAAAAAATACTTTTGAG-AAA
*
47676970 AGTTAAAATAAGTGCTTTT--G---
1 AGTTAAAA-AA-TACTTTTGAGAAA
47676990 AGTTAAAAAATACTTTTGAGTAAA
1 AGTTAAAAAATACTTTTGAG-AAA
47677014 AGTTAAAA
1 AGTTAAAA
47677022 TTTATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
18 6 0.15
19 2 0.05
20 9 0.22
24 17 0.41
25 2 0.05
26 5 0.12
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (23 bp):
AGTTAAAAAATACTTTTGAGAAA
Found at i:47677960 original size:19 final size:18
Alignment explanation
Indices: 47677920--47678003 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
47677910 TTTTAGATTT
* *
47677920 TTTTTAACTTCTATTAGA
1 TTTTTAAGTTTTATTAGA
47677938 -TTTTAAGTTTTAGTTAGA
1 TTTTTAAGTTTTA-TTAGA
* **
47677956 TTTTTTAAATTCAATTAGA
1 -TTTTTAAGTTTTATTAGA
* *
47677975 TTTTTTAGATTTACTTAGA
1 TTTTTAAGTTTTA-TTAGA
47677994 -TTTTAAGTTT
1 TTTTTAAGTTT
47678004 AAACTTTAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
17 10 0.20
18 21 0.42
19 10 0.20
20 9 0.18
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTTAAGTTTTATTAGA
Found at i:47677973 original size:37 final size:38
Alignment explanation
Indices: 47677919--47677997 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
47677909 ATTTTAGATT
* * * *
47677919 TTTTTTAACTTCTATTAGA-TTTTAAGTTTTAGTTAGA
1 TTTTTTAAATTCAATTAGATTTTTAAGATTTACTTAGA
*
47677956 TTTTTTAAATTCAATTAGATTTTTTAGATTTACTTAGA
1 TTTTTTAAATTCAATTAGATTTTTAAGATTTACTTAGA
47677994 TTTT
1 TTTT
47677998 AAGTTTAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 17 0.47
38 19 0.53
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (38 bp):
TTTTTTAAATTCAATTAGATTTTTAAGATTTACTTAGA
Found at i:47677997 original size:18 final size:19
Alignment explanation
Indices: 47677932--47677997 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
47677922 TTTAACTTCT
* *
47677932 ATTAGA-TTTTAAGTTTTA
1 ATTAGATTTTTTAGATTTA
* * *
47677950 GTTAGATTTTTTAAATTCA
1 ATTAGATTTTTTAGATTTA
47677969 ATTAGATTTTTTAGATTTA
1 ATTAGATTTTTTAGATTTA
*
47677988 CTTAGATTTT
1 ATTAGATTTT
47677998 AAGTTTAAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 5 0.13
19 33 0.87
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (19 bp):
ATTAGATTTTTTAGATTTA
Found at i:47682694 original size:35 final size:35
Alignment explanation
Indices: 47682655--47682721 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
47682645 ATAAATGGTT
* * *
47682655 TACTGGCTCTACGGAGCGACATCATGGAAATGATC
1 TACTGGCTCTACAGAGCGACACCATGAAAATGATC
*
47682690 TACTGGTTCTACAGAGCGACACCATGAAAATG
1 TACTGGCTCTACAGAGCGACACCATGAAAATG
47682722 GTTTATTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (35 bp):
TACTGGCTCTACAGAGCGACACCATGAAAATGATC
Found at i:47684381 original size:25 final size:25
Alignment explanation
Indices: 47684319--47684372 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
47684309 TTAGTGTTAA
*
47684319 CGATTTATAGCTCGTGAGAGCATAC
1 CGATTCATAGCTCGTGAGAGCATAC
47684344 CGATTCATAGCTCGTGAGAGCATAC
1 CGATTCATAGCTCGTGAGAGCATAC
47684369 CGAT
1 CGAT
47684373 CTTCAGCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
CGATTCATAGCTCGTGAGAGCATAC
Found at i:47684412 original size:25 final size:25
Alignment explanation
Indices: 47684327--47684418 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
47684317 AACGATTTAT
*
47684327 AGCTCGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCGATTCAC
*
47684352 AGCTCGTGA-GAGCATACCGA-TCTTC
1 AGCTCGT-ATGAGCATACCGATTC-AC
**
47684377 AGCTCAAATGAGCATACCGATTCAC
1 AGCTCGTATGAGCATACCGATTCAC
*
47684402 AGGTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
47684419 ATGTACATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.05
25 51 0.91
26 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:47689668 original size:27 final size:27
Alignment explanation
Indices: 47689628--47689682 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47689618 GGTAATTTTT
* * *
47689628 TTTAAATTTGAACCCTGAACCCTAAAC
1 TTTAAATCTAAACCCTAAACCCTAAAC
*
47689655 TTTAAATCTAAACCTTAAACCCTAAAC
1 TTTAAATCTAAACCCTAAACCCTAAAC
47689682 T
1 T
47689683 CTGACATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (27 bp):
TTTAAATCTAAACCCTAAACCCTAAAC
Found at i:47691609 original size:3 final size:3
Alignment explanation
Indices: 47691595--47691639 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
47691585 CATACGCATG
*
47691595 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47691640 GATACAAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47692140 original size:19 final size:19
Alignment explanation
Indices: 47692116--47692169 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
47692106 AATCATATCT
47692116 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47692135 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47692154 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47692170 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47692165 original size:38 final size:40
Alignment explanation
Indices: 47692093--47692169 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
47692083 AAATTAAATC
47692093 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
47692135 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
47692170 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:47692630 original size:44 final size:43
Alignment explanation
Indices: 47692546--47692831 Score: 197
Period size: 44 Copynumber: 6.5 Consensus size: 43
47692536 CTGCTCTCTT
* * * *
47692546 CAACTTCAGAGAGATAAGATCTGTGATTTTAAT-TCACTCCACTG
1 CAACTTCAGGGAGATAAGAT-TTTGACTTTAATCT-GCTCCACTG
* * *
47692590 CAATTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATT-TTGACTTTAATCTGCTCCACTG
* * * * * * *
47692634 TAACTTTAGAGAGATAAGA-TTCGCCATCTTCAGTCTGC-CTCACTA
1 CAACTTCAGGGAGATAAGATTTTG--A-CTTTAATCTGCTC-CACTG
* *
47692679 CAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAGTCTGCTCCACTG
1 CAACTTCAGGGA-GATAA-GATT--TTGACTTTAATCTGCTCCACTG
* * * * *
47692723 CAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TTTGACTTTAATCTGCTCCACTG
* * *
47692767 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATT-TTGACTTTAATCTGCTCCACTG
47692811 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
47692832 CGCCATCTTC
Statistics
Matches: 185, Mismatches: 40, Indels: 34
0.71 0.15 0.13
Matches are distributed among these distances:
42 3 0.02
43 6 0.03
44 143 0.77
45 29 0.16
46 2 0.01
47 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
CAACTTCAGGGAGATAAGATTTTGACTTTAATCTGCTCCACTG
Found at i:47693245 original size:44 final size:44
Alignment explanation
Indices: 47693195--47693314 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
47693185 ATCTGCTATT
* * *
47693195 TTCAACCTACTCCACTGTTGTTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTT-AAAATC
*
47693239 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTTAAAATC
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTAAAATC
*
47693283 TTCAACCTATTCCACTGCTGTCCAGGGAGATA
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATA
47693315 AGGCTGGGGT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 67 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTAAAATC
Found at i:47694796 original size:14 final size:15
Alignment explanation
Indices: 47694773--47694805 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47694763 ATCGATGCTT
47694773 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
47694787 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
47694802 TTCC
1 TTCC
47694806 CAACTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:47701081 original size:19 final size:19
Alignment explanation
Indices: 47701013--47701087 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
47701003 AATCAATACA
47701013 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
47701033 C--TTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
*
47701050 CGATTTC-CAATTCACATAT
1 C-AATTCACAATTCACATAT
47701069 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
47701088 TCACACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 8 0.18
19 19 0.43
20 7 0.16
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:47701905 original size:13 final size:13
Alignment explanation
Indices: 47701887--47701927 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
47701877 CTCAATTTTC
47701887 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
47701900 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
* *
47701913 TC-CTTCTTTCCT
1 TCTTTTCTTTCTT
47701925 TCT
1 TCT
47701928 CTGTTTCGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:47702139 original size:8 final size:8
Alignment explanation
Indices: 47702128--47702182 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
47702118 ATTTATTTAA
47702128 AATATAAT
1 AATATAAT
47702136 AATATAAT
1 AATATAAT
47702144 AATATAAT
1 AATATAAT
* *
47702152 -ATAATTTAC
1 AAT-A-TAAT
47702161 AATATAAT
1 AATATAAT
*
47702169 AAAATAAT
1 AATATAAT
47702177 AATATA
1 AATATA
47702183 CTTCAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 2 0.05
8 31 0.82
9 3 0.08
10 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATAAT
Found at i:47703720 original size:20 final size:20
Alignment explanation
Indices: 47703697--47703734 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47703687 ATAGTATTAA
* *
47703697 TAATATTAAAATAATTAATT
1 TAATAATAAAAAAATTAATT
47703717 TAATAATAAAAAAATTAA
1 TAATAATAAAAAAATTAA
47703735 AATAACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAATAAAAAAATTAATT
Found at i:47704164 original size:19 final size:19
Alignment explanation
Indices: 47704140--47704193 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
47704130 AATCATATCT
47704140 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47704159 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47704178 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47704194 CTTGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47704189 original size:38 final size:40
Alignment explanation
Indices: 47704117--47704193 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
47704107 AAATTAAATC
47704117 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
47704159 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
47704194 CTTGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:47709402 original size:42 final size:41
Alignment explanation
Indices: 47709312--47709416 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 41
47709302 GTTGATGTGA
47709312 CTGAAAACGC-TACCAGTTGGAATTTTTTTTTTGTAAATCAC
1 CTGAAAACGCTTA-CAGTTGGAATTTTTTTTTTGTAAATCAC
* * *
47709353 CTAAAAACGCTTACAGCTGGACATTTTTTTTTTG-AATTTCAC
1 CTGAAAACGCTTACAGTTGGA-ATTTTTTTTTTGTAA-ATCAC
* *
47709395 TTGAAAACGCTTCCAGTTGGAA
1 CTGAAAACGCTTACAGTTGGAA
47709417 ATGTTTTCGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 19 0.35
42 35 0.65
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (41 bp):
CTGAAAACGCTTACAGTTGGAATTTTTTTTTTGTAAATCAC
Found at i:47709772 original size:41 final size:40
Alignment explanation
Indices: 47709698--47709777 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 40
47709688 TTGTAATATT
47709698 ATTATTTATACTAAGTATTTAAAAGATAATTAAATATTTAG
1 ATTATTTATACTAAGTATTTAAAAGATAATTAAA-ATTTAG
* * * *
47709739 ATTATTTTATATTAATTATTTACAA-ATATTTAAAATTTA
1 ATTA-TTTATACTAAGTATTTAAAAGATAATTAAAATTTA
47709778 TATTTCATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.15
41 12 0.35
42 17 0.50
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (40 bp):
ATTATTTATACTAAGTATTTAAAAGATAATTAAAATTTAG
Found at i:47712366 original size:26 final size:26
Alignment explanation
Indices: 47712330--47712406 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
47712320 TAGTGATTAT
*
47712330 GTGATTATTTAGCAAGCTTTGAGCTG
1 GTGATTATTTAGCAAGCTTTGAGCCG
*
47712356 GTGATTTTTTAGCAAGCTTTGAGCCG
1 GTGATTATTTAGCAAGCTTTGAGCCG
* * *
47712382 ATGATTATTTAACAGGCTTTGAGCC
1 GTGATTATTTAGCAAGCTTTGAGCC
47712407 AGTGCTTACT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (26 bp):
GTGATTATTTAGCAAGCTTTGAGCCG
Found at i:47713506 original size:21 final size:22
Alignment explanation
Indices: 47713466--47713513 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
47713456 ACTGTTTGAG
* *
47713466 CACACGGGCGTGTGGAGGTAGT
1 CACACGGGCATGTGGAGGTAGC
47713488 CACACGGGCATGT-GAGGTAGC
1 CACACGGGCATGTGGAGGTAGC
47713509 CACAC
1 CACAC
47713514 AGGCTAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.15
Consensus pattern (22 bp):
CACACGGGCATGTGGAGGTAGC
Found at i:47714054 original size:13 final size:13
Alignment explanation
Indices: 47714036--47714060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47714026 AAACATATTT
47714036 TTTATTTGTGTAG
1 TTTATTTGTGTAG
47714049 TTTATTTGTGTA
1 TTTATTTGTGTA
47714061 ACACCCCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (13 bp):
TTTATTTGTGTAG
Found at i:47718996 original size:29 final size:29
Alignment explanation
Indices: 47718925--47719030 Score: 122
Period size: 29 Copynumber: 3.7 Consensus size: 29
47718915 GTTCCGGAAG
* * * *
47718925 AAATAAATTTGACAAGATGGGATATGAAA
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
47718954 AAATAAATTTGACGTGATGTGTTCTGAAG
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
47718983 AAATAAATTTGACGTGATGTGTTCTAAAA
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
47719012 AAATTATTTTGACGAGATG
1 AAATAAATTTGACGAGATG
47719031 GATTTTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (29 bp):
AAATAAATTTGACGAGATGTGTTCTGAAA
Found at i:47719013 original size:58 final size:58
Alignment explanation
Indices: 47718921--47719030 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
47718911 TATTGTTCCG
* *
47718921 GAAGAAATAAATTTGACAAGATGGGATATGAAAAAATAAATTTGACGTGATGTGTTCT
1 GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATGTGTTCT
** * * * * *
47718979 GAAGAAATAAATTTGACGTGATGTGTTCTAAAAAAATTATTTTGACGAGATG
1 GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATG
47719031 GATTTTGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (58 bp):
GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATGTGTTCT
Found at i:47723943 original size:18 final size:18
Alignment explanation
Indices: 47723891--47723960 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
47723881 TCGACTGTTA
*
47723891 TAAAAAATATAAAAAATAT
1 TAAAAAAT-TAAATAATAT
* *
47723910 TAATTAAATTAAA-AATGAAA
1 TAA-AAAATTAAATAAT--AT
47723930 TAAAAATATTAAATAATAT
1 TAAAAA-ATTAAATAATAT
47723949 TAAAAAATTAAA
1 TAAAAAATTAAA
47723961 ATTAACCCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.21
19 16 0.38
20 14 0.33
21 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (18 bp):
TAAAAAATTAAATAATAT
Found at i:47723960 original size:8 final size:9
Alignment explanation
Indices: 47723893--47723961 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
47723883 GACTGTTATA
*
47723893 AAAAATATA
1 AAAAATATT
47723902 AAAAATATT
1 AAAAATATT
*
47723911 AATTAA-ATT
1 AA-AAATATT
*
47723920 AAAAATGAAAT
1 AAAAAT--ATT
47723931 AAAAATATT
1 AAAAATATT
47723940 AAATAATATT
1 AAA-AATATT
47723950 AAAAA-ATT
1 AAAAATATT
47723958 AAAA
1 AAAA
47723962 TTAACCCCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 9 0.18
9 22 0.44
10 11 0.22
11 8 0.16
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:47725093 original size:14 final size:14
Alignment explanation
Indices: 47725074--47725104 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
47725064 TTCCCCTTTT
47725074 CAACGCTTCATGTG
1 CAACGCTTCATGTG
47725088 CAACGCTTCATGTG
1 CAACGCTTCATGTG
47725102 CAA
1 CAA
47725105 GAGTATGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (14 bp):
CAACGCTTCATGTG
Found at i:47725578 original size:20 final size:20
Alignment explanation
Indices: 47725553--47725592 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47725543 CGTAAAATGA
*
47725553 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
47725573 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
47725593 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:47725582 original size:34 final size:35
Alignment explanation
Indices: 47725538--47725604 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47725528 CAGTAAAATA
*
47725538 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
47725572 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
47725605 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:47725787 original size:22 final size:24
Alignment explanation
Indices: 47725762--47725812 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
47725752 TTATTTATAA
47725762 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
47725782 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
47725808 ATAAA
1 ATAAA
47725813 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:47731178 original size:17 final size:17
Alignment explanation
Indices: 47731156--47731189 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47731146 CAATAATTTC
47731156 GGATTGTGTGGATGGAT
1 GGATTGTGTGGATGGAT
*
47731173 GGATTGTGTGGGTGGAT
1 GGATTGTGTGGATGGAT
47731190 TTTTGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (17 bp):
GGATTGTGTGGATGGAT
Found at i:47742384 original size:17 final size:17
Alignment explanation
Indices: 47742362--47742406 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
47742352 TTGTGTGGGG
47742362 CCATACACCCGTGTGGC
1 CCATACACCCGTGTGGC
47742379 CCATACACCCGTGTGGC
1 CCATACACCCGTGTGGC
47742396 CCATACGACCC
1 CCATAC-ACCC
47742407 TATTTGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.16
Consensus pattern (17 bp):
CCATACACCCGTGTGGC
Found at i:47743117 original size:15 final size:15
Alignment explanation
Indices: 47743097--47743130 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47743087 TGGGAATTTG
47743097 AAAATAACAA-AAATA
1 AAAATAA-AAGAAATA
47743112 AAAATAAAAGAAATA
1 AAAATAAAAGAAATA
47743127 AAAA
1 AAAA
47743131 ATTTTAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAAGAAATA
Found at i:47744610 original size:23 final size:22
Alignment explanation
Indices: 47744583--47744631 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
47744573 CTAAGAAATT
47744583 TTTAAGTGTGAATA-ATATGAGAA
1 TTTAAGTG-GAATACATA-GAGAA
* *
47744606 TTTAATTGGTATACATAGAGAA
1 TTTAAGTGGAATACATAGAGAA
47744628 TTTA
1 TTTA
47744632 TTTACAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (22 bp):
TTTAAGTGGAATACATAGAGAA
Found at i:47746679 original size:28 final size:27
Alignment explanation
Indices: 47746630--47746731 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
47746620 ATTTCTTCAT
*
47746630 TTGCCACAAGGGCTTTCC-TTTCCTTAGA
1 TTGCCACAAAGGC-TTCCATTT-CTTAGA
*
47746658 TTGCCACAAAGGCTTCCATTTCATAGA
1 TTGCCACAAAGGCTTCCATTTCTTAGA
*
47746685 CTT-CCACAGAGGCTTCCATTT-TTAGA
1 -TTGCCACAAAGGCTTCCATTTCTTAGA
* *
47746711 TTTCTACAAAGGCTTCCATTT
1 TTGCCACAAAGGCTTCCATTT
47746732 TCTCGTGAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.03
26 20 0.31
27 26 0.40
28 17 0.26
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
TTGCCACAAAGGCTTCCATTTCTTAGA
Found at i:47746723 original size:26 final size:26
Alignment explanation
Indices: 47746653--47746732 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
47746643 TTTCCTTTCC
*
47746653 TTAGATTGCCACAAAGGCTTCCATTT
1 TTAGATTTCCACAAAGGCTTCCATTT
* * *
47746679 CATAGACTTCCACAGAGGCTTCCATTT
1 -TTAGATTTCCACAAAGGCTTCCATTT
*
47746706 TTAGATTTCTACAAAGGCTTCCATTT
1 TTAGATTTCCACAAAGGCTTCCATTT
47746732 T
1 T
47746733 CTCGTGAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (26 bp):
TTAGATTTCCACAAAGGCTTCCATTT
Found at i:47748264 original size:30 final size:30
Alignment explanation
Indices: 47748230--47748288 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
47748220 ACCGTAACAC
*
47748230 TTTGTTTAGCCTTTCGAATTCCTTAACAAT
1 TTTGTTAAGCCTTTCGAATTCCTTAACAAT
*
47748260 TTTGTTAAGCCTTTTGAATTCCTTAACAA
1 TTTGTTAAGCCTTTCGAATTCCTTAACAA
47748289 ATTTCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTGTTAAGCCTTTCGAATTCCTTAACAAT
Found at i:47751080 original size:27 final size:28
Alignment explanation
Indices: 47751048--47751117 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
47751038 CTTTTGTGTG
* *
47751048 TGCCACAAAGGCATT-CTTTTCTTCA-TT
1 TGCCACAAAGGCATTCCTTTCCTT-AGAT
* * *
47751075 TTCCACAAGGGCTTTCCTTTCCTTAGAT
1 TGCCACAAAGGCATTCCTTTCCTTAGAT
47751103 TGCCACAAAGGCATT
1 TGCCACAAAGGCATT
47751118 TATTTAATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (28 bp):
TGCCACAAAGGCATTCCTTTCCTTAGAT
Found at i:47751149 original size:27 final size:27
Alignment explanation
Indices: 47751098--47751149 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
47751088 TTCCTTTCCT
* *
47751098 TAGATTGCCACAAAGGCATTTATTTAA
1 TAGATTGCCAAAAAGGCATTCATTTAA
47751125 TAGATTGCCAAAAAGGC-TTCCATTT
1 TAGATTGCCAAAAAGGCATT-CATTT
47751150 TCTAGCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
TAGATTGCCAAAAAGGCATTCATTTAA
Found at i:47758913 original size:21 final size:21
Alignment explanation
Indices: 47758874--47758913 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47758864 TTTTAACCCA
*
47758874 TAATTATTTTTATACAATTTT
1 TAATTATTTTTATAAAATTTT
47758895 TAATTATTTTTCA-AAAATT
1 TAATTATTTTT-ATAAAATT
47758914 AGGATAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATTTTTATAAAATTTT
Found at i:47759297 original size:21 final size:21
Alignment explanation
Indices: 47759271--47759317 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
47759261 GTCAAAATCC
*
47759271 TAAAACGA-AAATACTTACCCA
1 TAAAACGATAAACACTTA-CCA
*
47759292 TAAAACGATGAACACTTACCA
1 TAAAACGATAAACACTTACCA
47759313 TAAAA
1 TAAAA
47759318 ACTTCAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (21 bp):
TAAAACGATAAACACTTACCA
Found at i:47759849 original size:19 final size:19
Alignment explanation
Indices: 47759825--47759868 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
47759815 TATTTATTTT
*
47759825 TTTAATTAGAATCGAAAAG
1 TTTAATTAGAATAGAAAAG
47759844 TTTAATTAGAATAGAAAAG
1 TTTAATTAGAATAGAAAAG
*
47759863 TATAAT
1 TTTAAT
47759869 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
TTTAATTAGAATAGAAAAG
Found at i:47762474 original size:21 final size:21
Alignment explanation
Indices: 47762450--47762491 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47762440 AAATTTAGTA
47762450 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
47762471 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
47762492 GAACAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAAAGTTCCGATAATTAATT
Found at i:47764590 original size:46 final size:45
Alignment explanation
Indices: 47764523--47764882 Score: 382
Period size: 46 Copynumber: 8.6 Consensus size: 45
47764513 TGAGTACTTT
* *
47764523 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
47764569 TGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* * *
47764605 TGATCAAGAGACAAAGTGATAACTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
47764651 TGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
47764687 TGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
*
47764723 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
*
47764769 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
* *
47764815 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* *
47764860 TGATC-AG-GGACAAGTGATAAGTG
1 TGATCAAGTGAAAAAGTGATAAGTG
47764883 ATCATACGTA
Statistics
Matches: 277, Mismatches: 12, Indels: 53
0.81 0.04 0.15
Matches are distributed among these distances:
33 1 0.00
34 2 0.01
35 1 0.00
36 83 0.30
37 3 0.01
38 1 0.00
40 4 0.01
42 6 0.02
43 15 0.05
44 2 0.01
45 23 0.08
46 136 0.49
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:47764598 original size:36 final size:36
Alignment explanation
Indices: 47764557--47764747 Score: 256
Period size: 36 Copynumber: 5.0 Consensus size: 36
47764547 GGTAGCTTTA
47764557 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
47764593 GCTACACTTATCTGATCAAGAGACAAAGTGATAACTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
47764638 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
47764675 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
47764711 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
47764747 G
1 G
47764748 GTAGCCTTAG
Statistics
Matches: 138, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:47764660 original size:82 final size:82
Alignment explanation
Indices: 47764523--47764839 Score: 384
Period size: 82 Copynumber: 3.9 Consensus size: 82
47764513 TGAGTACTTT
*
47764523 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
47764588 TAAGTGCTACACTTATC
66 TAAGTGCTACACTTATC
* *
47764605 TGATCAAGAGACAAAGTGATAACTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
*
47764670 TAAGTGCTATACTTATC
66 TAAGTGCTACACTTATC
* *
47764687 TGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTATCTGATCAAGTGAGAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
47764742 TAAGTGGTAGCCTTAGCTACACTTATC
66 T-A-----AG---T-GCTACACTTATC
* * * *
47764769 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
47764834 TAAGTG
66 TAAGTG
47764840 GTAGCCTAGC
Statistics
Matches: 206, Mismatches: 9, Indels: 40
0.81 0.04 0.16
Matches are distributed among these distances:
72 31 0.15
73 2 0.01
76 2 0.01
78 2 0.01
81 2 0.01
82 128 0.62
83 2 0.01
86 2 0.01
88 2 0.01
91 2 0.01
92 31 0.15
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (82 bp):
TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGCTACACTTATC
Found at i:47764770 original size:118 final size:118
Alignment explanation
Indices: 47764557--47764793 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
47764547 GGTAGCTTTA
47764557 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
47764622 GATAACTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
47764675 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGAGAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
47764740 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
66 GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
47764793 G
1 G
47764794 GTAGCCTTAG
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:47768631 original size:38 final size:38
Alignment explanation
Indices: 47768576--47768652 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
47768566 ATTTTTAACG
*
47768576 TTAATTCTGTCCTATTATTTGCCCTAATTAACATAAAA
1 TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
* *
47768614 TTAATTCTGTCCGATTATTTTCCCTAATTGACATAAAA
1 TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
47768652 T
1 T
47768653 CCACCCTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.43
Consensus pattern (38 bp):
TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
Found at i:47776347 original size:23 final size:23
Alignment explanation
Indices: 47776310--47776385 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
47776300 GACACACGGG
* *
47776310 GTGCCTG--ATACGACATACAAA
1 GTGCCTGATATACGACACATAAA
*
47776331 GTGCTTGATATACGACACATAAA
1 GTGCCTGATATACGACACATAAA
* *
47776354 GTGCCTGATGTACGTCACATAAA
1 GTGCCTGATATACGACACATAAA
47776377 GTGCCTGAT
1 GTGCCTGAT
47776386 CGACAAGGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
GTGCCTGATATACGACACATAAA
Found at i:47776645 original size:36 final size:38
Alignment explanation
Indices: 47776585--47776673 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 38
47776575 CTTTTCAAAT
* * *
47776585 TCACATTTCAAATC-AATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
47776621 TCACAATTCAATTCAAATTT-ACTTTTCCATTTTCAAG
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
47776658 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
47776674 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (38 bp):
TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
Found at i:47777631 original size:17 final size:16
Alignment explanation
Indices: 47777611--47777666 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
47777601 TGTCTTTATT
*
47777611 TAATTTATTTCTTAATA
1 TAATTTATTT-ATAATA
47777628 TAA--TATTTATAATA
1 TAATTTATTTATAATA
*
47777642 TAATTAATTTGATAATA
1 TAATTTATTT-ATAATA
*
47777659 TACTTTAT
1 TAATTTAT
47777667 AATTAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.25
15 5 0.16
16 4 0.12
17 15 0.47
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATTTATTTATAATA
Found at i:47777642 original size:14 final size:17
Alignment explanation
Indices: 47777623--47777660 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
47777613 ATTTATTTCT
47777623 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTGA
47777637 TAATATAATTAATTTGA
1 TAATATAATTAATTTGA
47777654 TAATATA
1 TAATATA
47777661 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTGA
Found at i:47789266 original size:38 final size:37
Alignment explanation
Indices: 47789193--47789268 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
47789183 TTAAGTTGAA
* *
47789193 TACATGTCGTCATGTTGTGACACGTATATCGCCTCGT
1 TACACGTCGCCATGTTGTGACACGTATATCGCCTCGT
* *
47789230 TACACGTCGCCATGTTGTGACATGGTATATTGCCTCGT
1 TACACGTCGCCATGTTGTGACA-CGTATATCGCCTCGT
47789268 T
1 T
47789269 GGGACGTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 20 0.59
38 14 0.41
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (37 bp):
TACACGTCGCCATGTTGTGACACGTATATCGCCTCGT
Found at i:47790752 original size:23 final size:23
Alignment explanation
Indices: 47790725--47790769 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47790715 TTACTCGATG
*
47790725 TTATATTATAAATATAATTTAAT
1 TTATAGTATAAATATAATTTAAT
*
47790748 TTATAGTATTAATATAATTTAA
1 TTATAGTATAAATATAATTTAA
47790770 AATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATAGTATAAATATAATTTAAT
Found at i:47797913 original size:68 final size:68
Alignment explanation
Indices: 47797804--47797940 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
47797794 AATTACTATA
* *
47797804 TGCACAACAATATGATTAGGAATTAAACTAGTTAATCGAGACCAGCCCCAACATCCATTAACATT
1 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
47797869 AAC
66 AAC
47797872 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
1 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
47797937 AAC
66 AAC
47797940 T
1 T
47797941 AAATGAGTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (68 bp):
TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
AAC
Found at i:47802210 original size:28 final size:28
Alignment explanation
Indices: 47802177--47802230 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
47802167 CTCTACAAAG
47802177 TTTTGTGTCTTTATCATAAAAACAATAA
1 TTTTGTGTCTTTATCATAAAAACAATAA
47802205 TTTTGTGTCTTTATCATAAAAACAAT
1 TTTTGTGTCTTTATCATAAAAACAAT
47802231 CTAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTGTGTCTTTATCATAAAAACAATAA
Found at i:47803629 original size:27 final size:27
Alignment explanation
Indices: 47803599--47803671 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
47803589 ATAGGTGGTG
*
47803599 CCTATCTGGTAGGCGCCACCGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
* * *
47803626 CCTATCTAATAGTCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
47803653 CCTA-CTTGATAGGCGCCAC
1 CCTATC-TGATAGGCGCCAC
47803672 TAGTGCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACCGGTGACT
Found at i:47805683 original size:62 final size:62
Alignment explanation
Indices: 47805615--47805775 Score: 205
Period size: 62 Copynumber: 2.6 Consensus size: 62
47805605 CCGTGTGATT
* * **
47805615 TTATACCACAAATAATGAGTTACACGACCAAGGCACACGCCTGTGTACCTAGCCATGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* * * * * * *
47805677 TTATACCATAAACAGTGAGTTATACGGCCAAAGCACACGCCCATGTCCCTGGCCGTGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* *
47805739 TTATACCACAAGTAGTGAGTTACACGGCCATGGCACA
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACA
47805776 TGTTCGTGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (62 bp):
TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
Found at i:47807454 original size:45 final size:44
Alignment explanation
Indices: 47807304--47807511 Score: 179
Period size: 45 Copynumber: 4.7 Consensus size: 44
47807294 ATTTGTTCTG
* *
47807304 CTGTAACTTCAGGGAGATAAAATTAG-TAGCTTCAATCTACTCCA
1 CTGTAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTACTCCA
* * * * **
47807348 CTGCAACTTCAGGGAAATAAAATT--TATCGCTTTAATCTACTTTA
1 CTGTAACTTCAGGGAGATAAGATTGCTAT--CTTCAATCTACTCCA
* ** *
47807392 CTGTAATTTCAAAGAGATAAGATCTGCTATCTTCAATCTGCTCCA
1 CTGTAACTTCAGGGAGATAAGAT-TGCTATCTTCAATCTACTCCA
* *
47807437 CTGTAACTTCAGGGAGATAAGATTTACTGTCTTCAATCTACTCCA
1 CTGTAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTACTCCA
* * * *
47807482 CTGCAACTTCAGAGTGATGAGATTTGCTAT
1 CTGTAACTTCAGGGAGATAAGA-TTGCTAT
47807512 GGTAGAATTA
Statistics
Matches: 130, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
42 2 0.02
44 51 0.39
45 73 0.56
46 1 0.01
47 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
CTGTAACTTCAGGGAGATAAGATTGCTATCTTCAATCTACTCCA
Found at i:47807677 original size:95 final size:95
Alignment explanation
Indices: 47807552--47808221 Score: 891
Period size: 95 Copynumber: 7.1 Consensus size: 95
47807542 AGAGGTATAG
* * *
47807552 GATTTGTGACTTATAA-CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCATCTTC
1 GATTTGTGGCTT-TAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
* *
47807616 AATCTGTTTCATTGCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* * *
47807647 AATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
* * *
47807712 ATCTGTTTCATTTCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* *
47807742 GATTTGTGGCTTTAAGCTTTAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTCGCATCATCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
47807807 ATATGCTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * *
47807837 GATTTGTAGCTTTAAACTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
47807902 ATCTACTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * *
47807932 GATTTGTAGCTTTAAGCTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCATCTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG-ATTCGCATCTTC
*
47807996 AATCTGCTCCATTTCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * *
47808027 G-GTTGTGGCTTTAAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGTCTTCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
47808091 ATCTGCTCTATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * *
47808121 GATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGACTT-GTAACTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCATCTTC
* * * * *
47808185 AACCTGTTCCACTGTAACTT-TAGAGAGATAA
65 AATCTGCTCCATTGCAACTTCAAG-GAGATAA
47808216 GATTTG
1 GATTTG
47808222 CCATAGTGAC
Statistics
Matches: 509, Mismatches: 60, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
94 89 0.17
95 418 0.82
96 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (95 bp):
GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
ATCTGCTCCATTGCAACTTCAAGGAGATAA
Found at i:47807711 original size:51 final size:50
Alignment explanation
Indices: 47807616--47808179 Score: 391
Period size: 51 Copynumber: 11.8 Consensus size: 50
47807606 TCGCATCTTC
* * *
47807616 AATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * *
47807667 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTA----T--CTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* * *
47807711 AATCTGTTTCATTTCAACTTCAAGGAGATAAGATTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * * * *
47807762 AATCTGTTTCACTGCAACTTCAGGGAAATAAGA--T-TCGC---ATCATC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* *
47807806 AATATGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAACTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT-AACTTT
* * * * * *
47807857 AATCTGTTCGACTGCAATTTCAGGGAAATAAGA-TT-T-GC---ATCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
**
47807901 AATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * * *
47807952 AATATGTTCCACTACAACTTCAGGGAAAT-AG-TATT-T-GC---ATCTTC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGAT-TTGTAGCTTTAACTTT
* * * *
47807996 AATCTGCTCCATTTCAACTTCAAGGAGATAAG-GTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * *
47808046 AATCTGTTCCATTGCAACTTCAGGGAAAT-A-ATAT-TCGC-GT--CTTC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* *
47808090 AATCTGCTCTATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * *
47808141 AATCTGTTCCACTACAACTTCAAGGAGATAAGACTTGTA
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTA
47808180 ACTTCAACCT
Statistics
Matches: 388, Mismatches: 88, Indels: 74
0.71 0.16 0.13
Matches are distributed among these distances:
44 152 0.39
45 8 0.02
46 7 0.02
47 10 0.03
48 12 0.03
49 7 0.02
50 35 0.09
51 157 0.40
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (50 bp):
AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
Found at i:47807729 original size:44 final size:44
Alignment explanation
Indices: 47807568--47808135 Score: 265
Period size: 44 Copynumber: 12.1 Consensus size: 44
47807558 TGACTTATAA
* * * * *
47807568 CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
47807612 CTTCAATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-T--C-GT-AT
* *
47807663 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * *
47807707 CTTTAATCTGTTTCATTTCAACTTCAAGGAGATAAGATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-T--C-GT-AT
* * * *
47807758 CTTTAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
47807802 CATCAATATGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTA----T
* * * * * *
47807850 AAACTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCAT
1 ---CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
** * *
47807897 CTTTAATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTA----T
* * * * * *
47807945 AAGCTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCAT
1 ---CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAG-ATTCGTAT
* * * * * * *
47807992 CTTCAATCTGCTCCATTTCAACTTCAAGGAGATAAGGTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAA-GAT-T--C-GT-AT
* * **
47808042 CTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
47808086 CTTCAATCTGCTCTATTGCAACTTCAAGGAGATAAGATTTGTAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
47808130 CTTTAA
1 CTTTAA
47808136 GCTTTAATCT
Statistics
Matches: 385, Mismatches: 103, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
44 196 0.51
45 3 0.01
46 7 0.02
47 4 0.01
48 5 0.01
49 5 0.01
50 34 0.09
51 131 0.34
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (44 bp):
CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
Found at i:47808253 original size:189 final size:185
Alignment explanation
Indices: 47807408--47808259 Score: 749
Period size: 190 Copynumber: 4.5 Consensus size: 185
47807398 TTTCAAAGAG
* *
47807408 ATAAGATCTGCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTACT-GT--CTT
1 ATAAGAT-TGC-ATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGATTTGCTAGTAACTT
* ** * ** * * * * *
47807470 CAATCTACTCCACTGCAACTTCAGAGTGATGAGATTTGCTATGGTAGAATTAATCCGAC-CTATA
63 TAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC-AT-CT----TTAATCTG-CTCTATT
* * * * * * *
47807534 ACATCTTCAGAGG-TATAGGATTTGT-GACTTATAA-CTTTAATCTATTCCACTGCAATTTCAGG
121 GCAACTTCA-AGGAGATAAGATTTGTAG-CTT-TAAGCTTTAATCTGTTCCACTACAACTTCAGG
47807596 GAA
183 GAA
* * * * *
47807599 ATAAGATTCGCATCTTCAATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCT-TTAAG
1 ATAAGATT-GCATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGA-TT-T-GCTAGTAA-
* * *
47807663 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTTAATCTG-TTTCATTTCA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCT-ATTGCA
* * *
47807727 ACTTCAAGGAGATAAGATTTGTGGCTTTAAGCTTTAATCTGTTTCACTGCAACTTCAGGGAA
124 ACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * *
47807789 ATAAGATTCGCATCATCAATATGCTCCATTGCAACTTCAAGGAGATAAGATTTG-TAGCTTTAAA
1 ATAAGATT-GCATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGATTTGCTAG---T-AA
* * * * *
47807853 CTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCATCTTTAATCTACTCCATTGCAA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAA
*
47807918 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATATGTTCCACTACAACTTCAGGGAA
125 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * *
47807979 AT-AGTATTTGCATCTTCAATCTGCTCCATTTCAACTTCAAGGAGATAAGGTTGTGGCT-TTAAG
1 ATAAG-A-TTGCATCTTCAATCTGCTCCATGT-AACTTCAAGGAGATAAGATT-T-GCTAGTAA-
* * * *
47808042 CTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGTCTTCAATCTGCTCTATTGCAA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAA
* *
47808107 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAAGGAG
125 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * * * * *
47808168 ATAAGACTTGTAACTTCAACCTGTTCCACTGTAACTT-TAGAGAGATAAGATTTGCCATAGTGAC
1 ATAAGA-TTGCATCTTCAATCTGCTCCA-TGTAACTTCAAG-GAGATAAGATTTG-C-TAGTAAC
* ** *
47808232 TTCAATCCATCCCACTGCAACTTCAGGG
61 TTTAATCTGTTCCACTGCAACTTCAGGG
47808260 GTATAGGTAA
Statistics
Matches: 551, Mismatches: 79, Indels: 64
0.79 0.11 0.09
Matches are distributed among these distances:
186 1 0.00
187 2 0.00
188 7 0.01
189 187 0.34
190 294 0.53
191 18 0.03
192 2 0.00
193 4 0.01
194 1 0.00
195 2 0.00
196 33 0.06
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (185 bp):
ATAAGATTGCATCTTCAATCTGCTCCATGTAACTTCAAGGAGATAAGATTTGCTAGTAACTTTAA
TCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAACTTCAA
GGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
Found at i:47819112 original size:7 final size:7
Alignment explanation
Indices: 47819100--47819140 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
47819090 AAGTAAATTA
47819100 ATAAAAG
1 ATAAAAG
47819107 ATAAAAG
1 ATAAAAG
47819114 ATAAAAG
1 ATAAAAG
*
47819121 ATAAAAA
1 ATAAAAG
*
47819128 ATAAAAA
1 ATAAAAG
47819135 ATAAAA
1 ATAAAA
47819141 TAATAATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (7 bp):
ATAAAAG
Found at i:47819119 original size:14 final size:14
Alignment explanation
Indices: 47819099--47819146 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
47819089 TAAGTAAATT
47819099 AATAAAAGATAAAA
1 AATAAAAGATAAAA
*
47819113 GATAAAAGATAAAA
1 AATAAAAGATAAAA
*
47819127 AATAAAAAATAAAA
1 AATAAAAGATAAAA
47819141 TAATAA
1 -AATAA
47819147 TGATAATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 25 0.83
15 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AATAAAAGATAAAA
Found at i:47821561 original size:39 final size:39
Alignment explanation
Indices: 47821507--47821586 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
47821497 AGTTTGATTA
47821507 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
1 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
47821546 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
1 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
47821585 AT
1 AT
47821587 ATATGATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (39 bp):
ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
Found at i:47824095 original size:21 final size:22
Alignment explanation
Indices: 47824063--47824112 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
47824053 CCTAGGCTTT
* * *
47824063 TTTTG-TATTTTGGGCTTGTAC
1 TTTTGTTATTTTGGACCTGTAA
47824084 TTTTGTTA-TTTGGACCTGTAA
1 TTTTGTTATTTTGGACCTGTAA
47824105 TTTTGTTA
1 TTTTGTTA
47824113 ATGGACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.14, C:0.08, G:0.20, T:0.58
Consensus pattern (22 bp):
TTTTGTTATTTTGGACCTGTAA
Found at i:47827234 original size:19 final size:19
Alignment explanation
Indices: 47827212--47827248 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47827202 CAAACAGATA
*
47827212 GCTTTCATACAATTAAATC
1 GCTTTCATACAATCAAATC
47827231 GCTTTCATACAATCAAAT
1 GCTTTCATACAATCAAAT
47827249 TCAACTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (19 bp):
GCTTTCATACAATCAAATC
Found at i:47827563 original size:62 final size:62
Alignment explanation
Indices: 47827464--47827637 Score: 172
Period size: 62 Copynumber: 2.8 Consensus size: 62
47827454 TACATGCTCG
* * * * * * *
47827464 TGTCCTTGACCGTGTGGTTTTATACGACAAAAAGTGAGTTATACGGCCAAGGCACACGAC-CA
1 TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACAC-ACTCA
* * * **
47827526 TGTCCCTGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGACTAAGGCACACACTTG
1 TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACACACTCA
* * * *
47827588 TGTCTATGGCCGTGTGGTCTTATACC-ATAAATAATGAGTTACACAGCCAA
1 TGTCCATGGCCGTGTGGTATTAT-CCGATAAATAGTGAGTTACACGGCCAA
47827638 TTACACGCCC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
61 2 0.02
62 88 0.96
63 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (62 bp):
TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACACACTCA
Found at i:47830806 original size:74 final size:77
Alignment explanation
Indices: 47830663--47830893 Score: 301
Period size: 74 Copynumber: 3.1 Consensus size: 77
47830653 TTACGTAAAT
* * * * * * * * *
47830663 AATACAAAGTTTATTATTTAAATAGCAAAAAAACTCC-TAAAATTAATAATTGAAATAGC-GAAG
1 AATACAAACTTGAATATTTAAATTGCAAAAAAAC-CCATAAAATTAATAACTAAAATGGCAAAAA
47830726 AAGTCATTACATA
65 AAGTCATTACATA
*
47830739 AATACAAACTTGAATATTTAGATTGC-AAAAAACCCAT-AAATTAATAACTAAAATGG-AAAAAA
1 AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
47830801 AGTCATTACATA
66 AGTCATTACATA
* *
47830813 AATACAAAGTTGACTATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
1 AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
*
47830878 AGTCATTATATA
66 AGTCATTACATA
47830890 AATA
1 AATA
47830894 TGAAGTTATT
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
74 56 0.41
75 19 0.14
76 40 0.29
77 21 0.15
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (77 bp):
AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
AGTCATTACATA
Found at i:47833226 original size:16 final size:15
Alignment explanation
Indices: 47833202--47833231 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47833192 TAAAAATCAA
47833202 ATAAAATTACATTAT
1 ATAAAATTACATTAT
47833217 ATAAATATTACATTA
1 ATAAA-ATTACATTA
47833232 AAAAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:47833528 original size:103 final size:99
Alignment explanation
Indices: 47833233--47833534 Score: 324
Period size: 103 Copynumber: 2.9 Consensus size: 99
47833223 ATTACATTAA
* *
47833233 AAAATCACAAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAAAAAA
1 AAAACCACAAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAA
* * *
47833298 TTATTTTTTTTTAAAAACTACATTATTAAAAATCAC
64 TTATTTTTTTTTAAAAATTACATTATAAAAAATAAC
* * **
47833334 AAAACCCTAAACTAAACACTAACAATTTGTAACCTAATCCCATAAATTACTAAGTAAATAA--AT
1 AAAA-CC---ACAAAACACTAACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTAT
**
47833397 AACAATTACATTTTTTTAAAAGAAATTACATTACTAAAAAATAAC
60 AA-AATT--ATTTTTTTTTAA-AAATTACATTA-TAAAAAATAAC
* *
47833442 AAAA-CACAAAACACTATCAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATT
1 AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
*
47833506 ATTTTTTTTT-AAATTTACATTACTAAAAA
66 ATTTTTTTTTAAAAATTACATTA-TAAAAA
47833535 CTCAGAGAAC
Statistics
Matches: 168, Mismatches: 20, Indels: 29
0.77 0.09 0.13
Matches are distributed among these distances:
98 17 0.10
99 1 0.01
100 8 0.05
101 22 0.13
102 5 0.03
103 42 0.25
104 6 0.04
105 33 0.20
106 11 0.07
107 10 0.06
108 13 0.08
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (99 bp):
AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
ATTTTTTTTTAAAAATTACATTATAAAAAATAAC
Found at i:47833602 original size:72 final size:72
Alignment explanation
Indices: 47833519--47833749 Score: 403
Period size: 72 Copynumber: 3.2 Consensus size: 72
47833509 TTTTTTTAAA
*
47833519 TTTACATTACTAAAAACTCAGAGAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
47833584 AAATAAT
66 AAATAAT
*
47833591 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
47833656 AAATAAT
66 AAATAAT
*
47833663 TTTACATTACTAAAAACTC-GTAAAACACAAAAATTTATAATAAATTACTAACAAAATATTTAAC
1 TTTACATTACTAAAAACTCAG-AAAACACAACAATTTATAATAAATTACTAACAAAATATTTAAC
47833727 -AAATAAT
65 AAAATAAT
*
47833734 TTTACATTAATAAAAA
1 TTTACATTACTAAAAA
47833750 ATCACCAAAT
Statistics
Matches: 153, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
71 22 0.14
72 131 0.86
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:47833626 original size:34 final size:34
Alignment explanation
Indices: 47833519--47833698 Score: 103
Period size: 34 Copynumber: 5.1 Consensus size: 34
47833509 TTTTTTTAAA
* *
47833519 TTTACATTACTAAAAACTCAGAGAACACAACAATT
1 TTTACATTACTAAAAACTCATAAAACACAACAA-T
* * ** * *
47833554 TATAATAAATTACTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCATAAAACACAACAAT
*
47833591 TTTACATTACTAAAAACTCACAAAACACAACAATT
1 TTTACATTACTAAAAACTCATAAAACACAACAA-T
* * ** * *
47833626 TATAATAAATTACTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCATAAAACACAACAAT
* *
47833663 TTTACATTACTAAAAACTCGTAAAACACAAAAAT
1 TTTACATTACTAAAAACTCATAAAACACAACAAT
47833697 TT
1 TT
47833699 ATAATAAATT
Statistics
Matches: 106, Mismatches: 28, Indels: 23
0.68 0.18 0.15
Matches are distributed among these distances:
33 8 0.08
34 41 0.39
35 3 0.03
36 4 0.04
37 4 0.04
38 38 0.36
39 8 0.08
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (34 bp):
TTTACATTACTAAAAACTCATAAAACACAACAAT
Found at i:47833837 original size:60 final size:60
Alignment explanation
Indices: 47833767--47833890 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
47833757 AATACTAAAC
*
47833767 TAAACACAACAATTTAAAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
47833827 TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
47833887 TAAA
1 TAAA
47833891 AAAACAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:47833857 original size:27 final size:27
Alignment explanation
Indices: 47833766--47833857 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
47833756 AAATACTAAA
*
47833766 CTAAACACAACAATTTAAAACATAATC
1 CTAAACACAACAATTTATAACATAATC
* * * * *
47833793 CTAAATTACTAATAAATTAATTTTAAAATAATT
1 CTAAA-CAC-AA-CAA-T--TTATAACATAATC
*
47833826 ATAAACACAACAATTTATAACATAATC
1 CTAAACACAACAATTTATAACATAATC
47833853 CTAAA
1 CTAAA
47833858 TTACTAACAA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
27 19 0.41
28 2 0.04
29 3 0.07
30 4 0.09
31 3 0.07
32 2 0.04
33 13 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (27 bp):
CTAAACACAACAATTTATAACATAATC
Found at i:47834056 original size:3 final size:3
Alignment explanation
Indices: 47834050--47834085 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
47834040 ATACATTACC
47834050 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
47834086 CTTTTCTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:47836458 original size:20 final size:20
Alignment explanation
Indices: 47836416--47836458 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47836406 ATATTATTTG
*
47836416 ATATTTCAAAAAAAATTATA
1 ATATTTCAAAAAAAATTAGA
*
47836436 ATATTTCAAAAAAAATTGGA
1 ATATTTCAAAAAAAATTAGA
47836456 ATA
1 ATA
47836459 AATATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATTTCAAAAAAAATTAGA
Found at i:47841829 original size:25 final size:25
Alignment explanation
Indices: 47841748--47841845 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
47841738 ATTAGGGTCA
**
47841748 CCGAT-TTCAGCTCTTATGAGCTTC
1 CCGATATTCAGCTCGCATGAGCTTC
* *
47841772 CCGATACTCAGCTCGCATGAGCATC
1 CCGATATTCAGCTCGCATGAGCTTC
*
47841797 CCGTTATTCAGCT-GACATGAGCTTC
1 CCGATATTCAGCTCG-CATGAGCTTC
* * * *
47841822 CCGCTATTTAGCTCGGAGGAGCTT
1 CCGATATTCAGCTCGCATGAGCTT
47841846 ACTGTTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 6 0.10
25 53 0.88
26 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (25 bp):
CCGATATTCAGCTCGCATGAGCTTC
Done.