Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 64 of 349
Found at i:18735063 original size:50 final size:50
Alignment explanation
Indices: 18734988--18735164 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
18734978 CCATGGCAAC
*
18734988 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATAAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
18735038 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
18735088 AAGTGATAAGTGATAACTTCGGCTACATTTATCTGATCAAGGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
18735138 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
18735165 CTAATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:18735178 original size:31 final size:31
Alignment explanation
Indices: 18735140--18735257 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
18735130 ACAAATAACA
* * *
18735140 AGTGAAAAGTGGTAGCTTCTGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
18735171 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
18735202 AGTGAAAAATGGTAGCTCCAGCTATCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
18735233 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
18735258 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:18735385 original size:49 final size:47
Alignment explanation
Indices: 18735279--18735450 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 47
18735269 GATTTCCGTA
* * * * *
18735279 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCATG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
18735325 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
18735374 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
18735416 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
18735451 AGATGTGTAA
Statistics
Matches: 115, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.30
44 1 0.01
45 1 0.01
46 25 0.22
47 1 0.01
48 14 0.12
49 37 0.32
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:18735417 original size:42 final size:43
Alignment explanation
Indices: 18735323--18735485 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 43
18735313 ATGTGATTCA
*
18735323 TGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATTACG
1 TGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T--G
*
18735372 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
*
18735414 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
18735456 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
18735486 GAAAACGAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.62
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.28
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:18736827 original size:17 final size:17
Alignment explanation
Indices: 18736805--18736838 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18736795 TTACTGCTTC
18736805 CACCACCTGCGAAGCTA
1 CACCACCTGCGAAGCTA
18736822 CACCACCTGCGAAGCTA
1 CACCACCTGCGAAGCTA
18736839 ACTTCCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.41, G:0.18, T:0.12
Consensus pattern (17 bp):
CACCACCTGCGAAGCTA
Found at i:18757567 original size:196 final size:196
Alignment explanation
Indices: 18757232--18757613 Score: 507
Period size: 196 Copynumber: 1.9 Consensus size: 196
18757222 TTGGCTTTTT
* * *
18757232 CCACAAGCTCATTAAACAACTCTGTATTTTAGGCCGCTAAATAAACTCAAATCTCACGATTGAGC
1 CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
* * * * * ** *
18757297 CTAAAGCGAAACCTCTTATAGCGATACTTATCAGTCAAAACCATCTTAGGAGTATACTGATAAAG
66 CCAAAGCGAAACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGATAAAG
*
18757362 GCACACAAACTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCCAAAAATTCCC
131 GCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCAAAAATTCCC
18757427 A
196 A
* * *
18757428 CCACAAGCTCATCAAACAACTTTGTATTTTGGGCCACTAAATAAACCCTAATCTCACGATTGAGC
1 CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
* * * *
18757493 CCAAAGC-AGAACTTCTTACAACGATCCTTCTAAGTCAAAACTATCTCAAAAGCATACTGACT-A
66 CCAAAGCGA-AACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGA-TAA
* * * ** *
18757556 AGGCGCACAAACTTTGTCTCATAGTCAGCCACAAATGAGCTACCTTGCGCAAGATCCA
129 AGGCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCA
18757614 TAAACTTCTT
Statistics
Matches: 159, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
195 1 0.01
196 157 0.99
197 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (196 bp):
CCACAAGCTCATCAAACAACTCTGTATTTTAGGCCACTAAATAAACCCAAATCTCACGATTGAGC
CCAAAGCGAAACCTCTTACAACGATACTTATAAGTCAAAACCATCTCAAAAGCATACTGATAAAG
GCACACAAACTCTGCCTCATAGTCAGCCACAAACAAGCTACCTTGCACAAGATCCAAAAATTCCC
A
Found at i:18759443 original size:10 final size:10
Alignment explanation
Indices: 18759411--18759453 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
18759401 ATTCTGACAC
18759411 ACAT-CAATT
1 ACATACAATT
**
18759420 ACATACAAAC
1 ACATACAATT
*
18759430 ACATATAATT
1 ACATACAATT
18759440 ACATACAATT
1 ACATACAATT
18759450 ACAT
1 ACAT
18759454 TTAATCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (10 bp):
ACATACAATT
Found at i:18768118 original size:18 final size:17
Alignment explanation
Indices: 18768065--18768114 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
18768055 TAGATTATAA
18768065 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAT
*
18768083 TATTACTTATTAAAATAT
1 TATTA-TTAATAAAATAT
18768101 TATTATTAATAAAA
1 TATTATTAATAAAA
18768115 ATATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATTAATAAAATAT
Found at i:18768677 original size:20 final size:20
Alignment explanation
Indices: 18768654--18768691 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18768644 ATGAAAATAA
18768654 TTAG-AATTAAATATTAAGGT
1 TTAGAAATTAAA-ATTAAGGT
18768674 TTAGAAATTAAAATTAAG
1 TTAGAAATTAAAATTAAG
18768692 TACCTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
TTAGAAATTAAAATTAAGGT
Found at i:18769258 original size:34 final size:34
Alignment explanation
Indices: 18769215--18769285 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
18769205 ATCTTGTATT
18769215 ACTAAGCTAAACTTCTATTTTAAAGTGATTTCTA
1 ACTAAGCTAAACTTCTATTTTAAAGTGATTTCTA
18769249 ACTAAGCTAAACTTCTATTTTAAAGTGATTTCTA
1 ACTAAGCTAAACTTCTATTTTAAAGTGATTTCTA
18769283 ACT
1 ACT
18769286 CACTTTTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.41
Consensus pattern (34 bp):
ACTAAGCTAAACTTCTATTTTAAAGTGATTTCTA
Found at i:18771864 original size:27 final size:27
Alignment explanation
Indices: 18771816--18771974 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
18771806 GCGAGGCTGC
* *
18771816 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
18771843 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
18771869 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
18771896 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
18771923 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
18771950 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
18771975 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:18771975 original size:54 final size:54
Alignment explanation
Indices: 18771834--18771977 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
18771824 GTGACGAAGT
* *
18771834 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
18771888 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
18771942 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
18771978 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:18772380 original size:8 final size:8
Alignment explanation
Indices: 18772364--18772393 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18772354 CTCAAAATAC
18772364 CGGCTTTT
1 CGGCTTTT
*
18772372 CGGCATTT
1 CGGCTTTT
18772380 CGGCTTTT
1 CGGCTTTT
18772388 CGGCTT
1 CGGCTT
18772394 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18773601 original size:26 final size:26
Alignment explanation
Indices: 18773571--18773678 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
18773561 TGAAATTCCC
18773571 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18773597 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18773623 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18773649 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18773675 ATCA
1 ATCA
18773679 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18777543 original size:47 final size:46
Alignment explanation
Indices: 18777423--18777600 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 46
18777413 ATAATTTCAC
* * *
18777423 CCATAATGAACTCGAAACGCAACTCAACGAGCTCGGGTGTTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCACAT
* *
18777469 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATG-TTCACAT
*
18777515 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGAT-TCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGT--TCA-CAT
* * * *
18777564 TC-TCACGAACTCGGAACGCAACTCAATGAGTTCGGAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
18777601 CTCAATTTCC
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.01
46 44 0.39
47 64 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCACAT
Found at i:18781983 original size:39 final size:39
Alignment explanation
Indices: 18781940--18782030 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
18781930 TGTTTTTGAG
*
18781940 TATTGTGATATATGATTGAATGTTATGTGATTATATGAC
1 TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
* * *
18781979 TATTGTGATATATGCTTAAATTTTATGTGATTATATGCC
1 TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
* *
18782018 AAATGTGATATAT
1 TATTGTGATATAT
18782031 CCTTAAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGATTAAATGTTATGTGATTATATGAC
Found at i:18786349 original size:28 final size:28
Alignment explanation
Indices: 18786317--18786441 Score: 160
Period size: 28 Copynumber: 4.5 Consensus size: 28
18786307 CCATGGCATA
* * *
18786317 TTCAAGTAAGAGTTTGCATGGACTACCT
1 TTCAAGCAAGAGTTCGCATGGACTATCT
* *
18786345 TTCAAGTAAGAGTTTGCATGGACTATCT
1 TTCAAGCAAGAGTTCGCATGGACTATCT
* * *
18786373 ATCAAGCAAGAGTCCGCATGGGCTATCT
1 TTCAAGCAAGAGTTCGCATGGACTATCT
* *
18786401 TTCAAGAAAGAGTTCGCAAGGACTATCT
1 TTCAAGCAAGAGTTCGCATGGACTATCT
18786429 TTCAAGCAAGAGT
1 TTCAAGCAAGAGT
18786442 CCACAAGGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (28 bp):
TTCAAGCAAGAGTTCGCATGGACTATCT
Found at i:18786481 original size:56 final size:56
Alignment explanation
Indices: 18786336--18786481 Score: 143
Period size: 56 Copynumber: 2.6 Consensus size: 56
18786326 GAGTTTGCAT
* * * ** * *
18786336 GGACTACCTTTCAAGTAAGAGTTTGCATGGACTATCTATCAAGCAAGAGTCCGCAT
1 GGACTATCTTTCAAGAAAGAGTTCGCAAAGACTATCTATCAAGCAAGAGTCCACAA
* * *
18786392 GGGCTATCTTTCAAGAAAGAGTTCGCAAGGACTATCTTTCAAGCAAGAGTCCACAA
1 GGACTATCTTTCAAGAAAGAGTTCGCAAAGACTATCTATCAAGCAAGAGTCCACAA
* * *
18786448 GGATTGT-TCTTCAAGAAGGAG-TCTGCAAAGACTA
1 GGACTATCT-TTCAAGAAAGAGTTC-GCAAAGACTA
18786482 ACTAATGGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
55 3 0.04
56 72 0.96
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (56 bp):
GGACTATCTTTCAAGAAAGAGTTCGCAAAGACTATCTATCAAGCAAGAGTCCACAA
Found at i:18788611 original size:30 final size:29
Alignment explanation
Indices: 18788571--18788636 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
18788561 TATATTCAAA
*
18788571 TTATATTTTATTATATAACATTTATTATATT
1 TTAT-TTTTATTATATAACACTTATTAT-TT
* **
18788602 TTATTTTTATTTTATATTACTTATTATTT
1 TTATTTTTATTATATAACACTTATTATTT
18788631 TTATTT
1 TTATTT
18788637 ATGTTATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.26
30 19 0.61
31 4 0.13
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TTATTTTTATTATATAACACTTATTATTT
Found at i:18788676 original size:7 final size:7
Alignment explanation
Indices: 18788601--18788684 Score: 52
Period size: 7 Copynumber: 12.0 Consensus size: 7
18788591 TTTATTATAT
18788601 TTTATT-
1 TTTATTA
18788607 TTTATT-
1 TTTATTA
18788613 TTATATTA
1 TT-TATTA
*
18788621 CTTATTA
1 TTTATTA
18788628 TTT-TTA
1 TTTATTA
18788634 TTTATGTTA
1 TTTA--TTA
18788643 TGTATATTA
1 T-T-TATTA
*
18788652 TATATTA
1 TTTATTA
*
18788659 TCTATTA
1 TTTATTA
18788666 --TATTA
1 TTTATTA
18788671 TTTATTA
1 TTTATTA
*
18788678 TTCATTA
1 TTTATTA
18788685 AAGTATTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
5 5 0.08
6 14 0.22
7 33 0.52
8 1 0.02
9 8 0.12
10 1 0.02
11 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:18788774 original size:23 final size:23
Alignment explanation
Indices: 18788748--18788797 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
18788738 AAATTATTAA
*
18788748 TTATTTATT-TATTATGTATTGTT
1 TTATTT-TTATATTATGTATTATT
*
18788771 TTATTTTTATATTATGTGTTATT
1 TTATTTTTATATTATGTATTATT
18788794 TTAT
1 TTAT
18788798 AAATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTATTTTTATATTATGTATTATT
Found at i:18789127 original size:33 final size:34
Alignment explanation
Indices: 18789072--18789148 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
18789062 ATTGATATTG
*
18789072 TATTACTTTTTTTGGTATATCATACATTATTTAAT
1 TATTAC-TTTTTTGGTACATCATACATTATTTAAT
*
18789107 TATTACTTTTTT-GTACATCATGCATTATTTAAT
1 TATTACTTTTTTGGTACATCATACATTATTTAAT
18789140 TATTACTTT
1 TATTACTTT
18789149 GTATGTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 28 0.70
34 6 0.15
35 6 0.15
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.57
Consensus pattern (34 bp):
TATTACTTTTTTGGTACATCATACATTATTTAAT
Found at i:18801913 original size:11 final size:11
Alignment explanation
Indices: 18801897--18801922 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18801887 TACTTATCTT
18801897 TTTTCTTATCA
1 TTTTCTTATCA
18801908 TTTTCTTATCA
1 TTTTCTTATCA
18801919 TTTT
1 TTTT
18801923 AACTTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCTTATCA
Found at i:18806520 original size:1 final size:1
Alignment explanation
Indices: 18806516--18806541 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18806506 AAAGGGGCCC
18806516 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
18806542 AGAGAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:18807907 original size:59 final size:59
Alignment explanation
Indices: 18807840--18807962 Score: 246
Period size: 59 Copynumber: 2.1 Consensus size: 59
18807830 GTTCTTCAAA
18807840 GTCTACATGTGTATATATAACATATACAGCTTAATATATATTGTAAACTCTAAAGTGTG
1 GTCTACATGTGTATATATAACATATACAGCTTAATATATATTGTAAACTCTAAAGTGTG
18807899 GTCTACATGTGTATATATAACATATACAGCTTAATATATATTGTAAACTCTAAAGTGTG
1 GTCTACATGTGTATATATAACATATACAGCTTAATATATATTGTAAACTCTAAAGTGTG
18807958 GTCTA
1 GTCTA
18807963 GTTTACCTAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (59 bp):
GTCTACATGTGTATATATAACATATACAGCTTAATATATATTGTAAACTCTAAAGTGTG
Found at i:18823759 original size:37 final size:37
Alignment explanation
Indices: 18823718--18823794 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
18823708 ATTCCCTGAA
* * *
18823718 AAAAGAAGATAG-GGATGAACATGAGTGATTCTCTGCC
1 AAAAGAA-ATAGAAGATGAACATGAGTGATTCCCCGCC
* * *
18823755 AAAAGCAATCGAAGATGAATATGAGTGATTCCCCGCC
1 AAAAGAAATAGAAGATGAACATGAGTGATTCCCCGCC
18823792 AAA
1 AAA
18823795 TGCGGACGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (37 bp):
AAAAGAAATAGAAGATGAACATGAGTGATTCCCCGCC
Found at i:18826446 original size:18 final size:18
Alignment explanation
Indices: 18826425--18826552 Score: 114
Period size: 18 Copynumber: 7.1 Consensus size: 18
18826415 AGTCACTCTT
*
18826425 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* *
18826443 TAAC-GATAAATTATTTAG
1 TAACAG-TCAATTATTCAG
*
18826461 TAACAATCAATTATTCAG
1 TAACAGTCAATTATTCAG
* ** **
18826479 TAACAATCTTTTACACAG
1 TAACAGTCAATTATTCAG
* * *
18826497 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
*
18826515 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
*
18826533 TAGCAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
18826551 TA
1 TA
18826553 CCTTTATTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
17 1 0.01
18 87 0.99
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:18826744 original size:51 final size:54
Alignment explanation
Indices: 18826640--18826754 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 54
18826630 GTGTAACGGT
* * *
18826640 AACAGTAACAGTAACAATAGCGGTACATAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCATCGAAACAAATCCGG
* *
18826694 AACAGTAACAATAACAGTA-AGGTACA-A-AGTACCTC-TCCGAAACGAATCCGG
1 AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCAT-CGAAACAAATCCGG
18826745 AACAGTAACA
1 AACAGTAACA
18826755 GTAAGGTGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 30 0.55
52 1 0.02
53 6 0.11
54 17 0.31
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (54 bp):
AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCATCGAAACAAATCCGG
Found at i:18828047 original size:31 final size:32
Alignment explanation
Indices: 18827991--18828053 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
18827981 TACATTTGTC
*
18827991 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
18828023 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
18828054 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:18828061 original size:18 final size:19
Alignment explanation
Indices: 18828033--18828086 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
18828023 ATAATATAAT
18828033 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
18828052 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
18828070 TATTTAA-TAATTAAATA
1 TATTTAATTAA-TAAATA
18828087 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:18832508 original size:16 final size:18
Alignment explanation
Indices: 18832473--18832510 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18832463 ATCCTTATTT
*
18832473 AAATCAAATACAATAGTA
1 AAATAAAATACAATAGTA
18832491 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
18832507 AAAT
1 AAAT
18832511 CCATATAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:18836855 original size:28 final size:28
Alignment explanation
Indices: 18836815--18836893 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
18836805 GCAATCAAAT
*
18836815 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
18836843 ATGGCACTTAGTGTTCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * **
18836871 ACGACACTTAGTGTGTGAAATAT
1 ATGGCACTTAGTGTACGAAATAT
18836894 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:18837334 original size:21 final size:22
Alignment explanation
Indices: 18837303--18837343 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18837293 GAATGTATTG
*
18837303 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
18837325 TGAT-TATGTGCTAATGAAA
1 TGATGTATGTGCAAATGAAA
18837344 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:18839834 original size:33 final size:33
Alignment explanation
Indices: 18839792--18839859 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
18839782 AAAATAAAAC
18839792 AAAAAAAAAATCAAAGACTAACAGGGAAATTTA
1 AAAAAAAAAATCAAAGACTAACAGGGAAATTTA
*
18839825 AAAAAAAAAATGAAAGACTAACAGGGAAATTTA
1 AAAAAAAAAATCAAAGACTAACAGGGAAATTTA
18839858 AA
1 AA
18839860 GAAATTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.65, C:0.07, G:0.13, T:0.15
Consensus pattern (33 bp):
AAAAAAAAAATCAAAGACTAACAGGGAAATTTA
Found at i:18840840 original size:20 final size:20
Alignment explanation
Indices: 18840802--18840840 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18840792 TTTAGAAATC
* *
18840802 ATACCAAAAATTACGAGTAA
1 ATACCAAAAAATACAAGTAA
*
18840822 ATACCAAAAAATATAAGTA
1 ATACCAAAAAATACAAGTA
18840841 TGTATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
ATACCAAAAAATACAAGTAA
Found at i:18840947 original size:20 final size:24
Alignment explanation
Indices: 18840910--18840957 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
18840900 TATTCCCTAT
*
18840910 TTTTTTTTAGCATACCCTTAT-AA
1 TTTTTTTTAGCATACCCTAATAAA
18840933 TTTTTTTTA-C-T-CCCTAATAAA
1 TTTTTTTTAGCATACCCTAATAAA
18840954 TTTT
1 TTTT
18840958 GATTTTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 1 0.04
23 9 0.39
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTTTTAGCATACCCTAATAAA
Found at i:18841060 original size:21 final size:21
Alignment explanation
Indices: 18841015--18841061 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18841005 GTATGCTTTT
* * * *
18841015 AAAATTAATTTTTTGTTTGAG
1 AAAATCAATTTTTTGTATAAA
18841036 AAAATCAATTTTTTGTATAAA
1 AAAATCAATTTTTTGTATAAA
18841057 AAAAT
1 AAAAT
18841062 TTGTACAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATCAATTTTTTGTATAAA
Found at i:18841689 original size:20 final size:21
Alignment explanation
Indices: 18841666--18841747 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 21
18841656 TATATAAACA
18841666 AATACCAAAAATTATA-AGAG
1 AATACCAAAAATTATATAGAG
* * *
18841686 AATA-CAAAAAGTATATATAA
1 AATACCAAAAATTATATAGAG
* * * *
18841706 AATATCAAAAATCAT-GAGAT
1 AATACCAAAAATTATATAGAG
*
18841726 TATACCAAAAATTATATAGAG
1 AATACCAAAAATTATATAGAG
18841747 A
1 A
18841748 TGCAAAATAT
Statistics
Matches: 45, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
19 10 0.22
20 24 0.53
21 11 0.24
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (21 bp):
AATACCAAAAATTATATAGAG
Found at i:18850748 original size:7 final size:7
Alignment explanation
Indices: 18850718--18850765 Score: 60
Period size: 7 Copynumber: 6.3 Consensus size: 7
18850708 CCAAAAGTTA
18850718 TATTTAT
1 TATTTAT
18850725 TATCTTAT
1 TAT-TTAT
18850733 TATCTTTTAT
1 TA---TTTAT
18850743 TATTTAT
1 TATTTAT
18850750 TATTTAT
1 TATTTAT
18850757 TATTTAT
1 TATTTAT
18850764 TA
1 TA
18850766 GTCTATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 24 0.65
8 6 0.16
10 6 0.16
11 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:18855789 original size:50 final size:49
Alignment explanation
Indices: 18855685--18855800 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 49
18855675 CTAATCGAGT
* * * *
18855685 GCTCGTCACGACTTCTAAGATACCACATCGCGACTTCACTCTCCGACTAA
1 GCTCGTCACGACTTC-AAGATACCACATCGCAACGTCACTCACCGAATAA
* *
18855735 GCTCGTCACGACTTCAAGAGTACCACAAT-GCAACGTCACTCACTGAATAG
1 GCTCGTCACGACTTCAAGA-TACCAC-ATCGCAACGTCACTCACCGAATAA
**
18855785 GCTCGTCGTGACTTCA
1 GCTCGTCACGACTTCA
18855801 TGAACCCGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.07
50 50 0.89
51 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (49 bp):
GCTCGTCACGACTTCAAGATACCACATCGCAACGTCACTCACCGAATAA
Found at i:18856507 original size:23 final size:23
Alignment explanation
Indices: 18856454--18856551 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 23
18856444 AAAATCGATA
*
18856454 ATTTGCACCAGAGTGCCACTGTT
1 ATTTGCACCAGAGTGCCACTGTC
* * * * *
18856477 ATTCGCACGAGCGTGCTATTGTC
1 ATTTGCACCAGAGTGCCACTGTC
* *
18856500 ATTTGCA-CTGAAGTGCCACTATC
1 ATTTGCACCAG-AGTGCCACTGTC
* * * * *
18856523 ACTTGCATCATAGTGTCACTATC
1 ATTTGCACCAGAGTGCCACTGTC
18856546 ATTTGC
1 ATTTGC
18856552 GCACATAAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
22 1 0.02
23 53 0.96
24 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
ATTTGCACCAGAGTGCCACTGTC
Found at i:18859478 original size:15 final size:15
Alignment explanation
Indices: 18859458--18859487 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18859448 ATGCTAATAG
18859458 GTATAATGATTTTTT
1 GTATAATGATTTTTT
18859473 GTATAATGATTTTTT
1 GTATAATGATTTTTT
18859488 TGACCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
GTATAATGATTTTTT
Found at i:18859688 original size:9 final size:9
Alignment explanation
Indices: 18859676--18859752 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
18859666 AGTAAAAACT
18859676 ATTTTTATA
1 ATTTTTATA
18859685 ATTTTTAAATA
1 ATTTTT--ATA
* *
18859696 ATTTTAATG
1 ATTTTTATA
18859705 ATTTTT-T-
1 ATTTTTATA
*
18859712 ATTTTTAAA
1 ATTTTTATA
18859721 ATATTTT-TA
1 AT-TTTTATA
*
18859730 TATTTTTTTA
1 -ATTTTTATA
*
18859740 ATTTTTAAA
1 ATTTTTATA
18859749 ATTT
1 ATTT
18859753 AATCGAATCC
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 31 0.57
10 8 0.15
11 8 0.15
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:18859726 original size:27 final size:28
Alignment explanation
Indices: 18859675--18859750 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 28
18859665 TAGTAAAAAC
18859675 TATTTTTATAATTTTT-AAATAATTTTAA
1 TATTTTT-TAATTTTTAAAATAATTTTAA
*
18859703 TGATTTTTT-ATTTTTAAAAT-ATTTTTA
1 T-ATTTTTTAATTTTTAAAATAATTTTAA
18859730 TATTTTTTTAATTTTTAAAAT
1 TA-TTTTTTAATTTTTAAAAT
18859751 TTAATCGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 1 0.02
27 19 0.44
28 17 0.40
29 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (28 bp):
TATTTTTTAATTTTTAAAATAATTTTAA
Found at i:18866675 original size:24 final size:24
Alignment explanation
Indices: 18866647--18866698 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18866637 TTTCTATAAG
*
18866647 ATTTAATATTCATTAGTATAATAT
1 ATTTAACATTCATTAGTATAATAT
* * *
18866671 ATTTAGCATTTATTAGTATAATTT
1 ATTTAACATTCATTAGTATAATAT
18866695 ATTT
1 ATTT
18866699 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAACATTCATTAGTATAATAT
Found at i:18869292 original size:34 final size:34
Alignment explanation
Indices: 18869253--18869353 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
18869243 CCATCCTATA
18869253 TTCTCAATCCTCAATTTTCAATTTATTTCTAATT
1 TTCTCAATCCTCAATTTTCAATTTATTTCTAATT
*
18869287 TTCTC-A-----AATTTT-ATACTTTGTTT-TACA--
1 TTCTCAATCCTCAATTTTCA-A-TTTATTTCTA-ATT
18869314 -TCTCAATCCTCAATTTTCAATTTATTTCTAATT
1 TTCTCAATCCTCAATTTTCAATTTATTTCTAATT
18869347 TTCTCAA
1 TTCTCAA
18869354 ATTGTATACT
Statistics
Matches: 51, Mismatches: 2, Indels: 28
0.63 0.02 0.35
Matches are distributed among these distances:
26 4 0.08
27 2 0.04
28 9 0.18
29 7 0.14
31 7 0.14
32 9 0.18
33 2 0.04
34 11 0.22
ACGTcount: A:0.27, C:0.20, G:0.01, T:0.52
Consensus pattern (34 bp):
TTCTCAATCCTCAATTTTCAATTTATTTCTAATT
Found at i:18869327 original size:60 final size:60
Alignment explanation
Indices: 18869254--18869379 Score: 243
Period size: 60 Copynumber: 2.1 Consensus size: 60
18869244 CATCCTATAT
*
18869254 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
1 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTGTATACTTTGTTTTACA
18869314 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTGTATACTTTGTTTTACA
1 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTGTATACTTTGTTTTACA
18869374 TCTCAA
1 TCTCAA
18869380 ATGTACAATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (60 bp):
TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTGTATACTTTGTTTTACA
Found at i:18881018 original size:54 final size:54
Alignment explanation
Indices: 18880936--18881060 Score: 189
Period size: 54 Copynumber: 2.3 Consensus size: 54
18880926 GAATGACCAA
*
18880936 CTCACTTTACAATG-GAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
1 CTCACTTTCCAA-GAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
* * *
18880990 CTCACTTTCCAAGAGAAATTGTTGGTTGTTTGTGGAGGTTTAGTGGCAACAAGC
1 CTCACTTTCCAAGAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
*
18881044 CTCACTTTCTAAGAGAA
1 CTCACTTTCCAAGAGAA
18881061 GTTTCTAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (54 bp):
CTCACTTTCCAAGAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
Found at i:18881083 original size:54 final size:54
Alignment explanation
Indices: 18880936--18881094 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 54
18880926 GAATGACCAA
* * * *
18880936 CTCACTTTACAATG-GAAATTATTGGTTGT-TGGTGGAGGTTTAGTGACAACAAGC
1 CTCACTTTCCAA-GAGAAATTGTTAGTTGTAT-GTGAAGGTTTAGTGACAACAAGC
* * * *
18880990 CTCACTTTCCAAGAGAAATTGTTGGTTGTTTGTGGAGGTTTAGTGGCAACAAGC
1 CTCACTTTCCAAGAGAAATTGTTAGTTGTATGTGAAGGTTTAGTGACAACAAGC
* * *
18881044 CTCACTTTCTAAGAGAAGTT-TCTAGTTGTCAT-TGAAGGTTCAGTGACAACA
1 CTCACTTTCCAAGAGAAATTGT-TAGTTGT-ATGTGAAGGTTTAGTGACAACA
18881095 GGCACAAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
53 2 0.02
54 87 0.96
55 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (54 bp):
CTCACTTTCCAAGAGAAATTGTTAGTTGTATGTGAAGGTTTAGTGACAACAAGC
Found at i:18884165 original size:20 final size:21
Alignment explanation
Indices: 18884127--18884166 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18884117 TTTATTAAGT
**
18884127 TAAATTTAAAATATTTTTTTA
1 TAAATTTAAAATAAGTTTTTA
18884148 TAAA-TTAAAATAAGTTTTT
1 TAAATTTAAAATAAGTTTTT
18884167 GTCTTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTTAAAATAAGTTTTTA
Found at i:18884165 original size:21 final size:21
Alignment explanation
Indices: 18884127--18884166 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18884117 TTTATTAAGT
*
18884127 TAAATTTAAAATATTTTTTTA
1 TAAATTTAAAATAGTTTTTTA
18884148 TAAA-TTAAAATAAGTTTTT
1 TAAATTTAAAAT-AGTTTTT
18884167 GTCTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTTAAAATAGTTTTTTA
Found at i:18886067 original size:38 final size:40
Alignment explanation
Indices: 18886016--18886098 Score: 134
Period size: 38 Copynumber: 2.1 Consensus size: 40
18886006 ATCATATGCA
18886016 TTTAATAATTTTATATTTC-AAAAA-AATAATATAATAGT
1 TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
* *
18886054 TTTAATAATTTTATATTTCAAAAAATAATAATTTCATAGT
1 TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
18886094 TTTAA
1 TTTAA
18886099 AATCATTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 19 0.46
39 5 0.12
40 17 0.41
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (40 bp):
TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
Found at i:18886100 original size:23 final size:23
Alignment explanation
Indices: 18886056--18886100 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
18886046 ATAATAGTTT
*
18886056 TAATAATTTTATATTTCAAAAAA
1 TAATAATTTCATATTTCAAAAAA
*
18886079 TAATAATTTCATAGTTTTAAAA
1 TAATAATTTCATA-TTTCAAAA
18886101 TCATTTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAATTTCATATTTCAAAAAA
Found at i:18889830 original size:49 final size:50
Alignment explanation
Indices: 18889725--18889900 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
18889715 CCATGGCAAC
* *
18889725 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
18889775 AAGTGATAAGTAATAGCTTCGGCTACA-TTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
18889824 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
18889874 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
18889901 TTGATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
49 44 0.39
50 47 0.41
51 23 0.20
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:18889914 original size:31 final size:31
Alignment explanation
Indices: 18889876--18889996 Score: 179
Period size: 31 Copynumber: 3.9 Consensus size: 31
18889866 ACAAATGACA
* *
18889876 AGTGAAAAGTGGTAGCTTCTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACATGATC
18889907 AGTGAAAAGTGGTAGCTTCGGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACATGATC
* * *
18889938 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACATGATC
* *
18889969 AGTGAATAGTGGTAGCTTCAGCTACATG
1 AGTGAAAAGTGGTAGCTTCGGCTACATG
18889997 TGACAAGTGA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACATGATC
Found at i:18890138 original size:41 final size:43
Alignment explanation
Indices: 18890062--18890210 Score: 124
Period size: 49 Copynumber: 3.3 Consensus size: 43
18890052 TGCTACTGTA
* *
18890062 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATC--T--GATATGTGATTACGTG
*
18890108 TAAGACCATAGCTGGGCTATGGCGTCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTAT-G-G-C---ATCTGATATGTGATTACGTG
* *
18890157 TAAGACCATAGCTGGGCTATGGCATC-GATA-GATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCTGATATG-TGATTACGTG
*
18890199 TAAAACCATAGC
1 TAAGACCATAGC
18890211 CCATCATTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
41 1 0.01
42 23 0.26
43 2 0.02
46 19 0.22
47 2 0.02
48 13 0.15
49 25 0.28
50 1 0.01
52 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCTGATATGTGATTACGTG
Found at i:18890186 original size:49 final size:48
Alignment explanation
Indices: 18890015--18890184 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
18890005 GATTTCCGTA
* * * * *
18890015 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * *
18890062 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
* *
18890108 TAAGACCATAGCTGGGCTATGGCGTCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
*
18890157 TAAGACCATAGCTGGGCTATGGCATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
18890185 TAGATGAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 25 0.23
47 38 0.35
48 14 0.13
49 31 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:18894727 original size:11 final size:11
Alignment explanation
Indices: 18894711--18894758 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
18894701 ATTAGATAAA
18894711 TAATATTTTAT
1 TAATATTTTAT
18894722 TAATATTTTAAT
1 TAATATTTT-AT
* *
18894734 GAGATATTTTAC
1 TA-ATATTTTAT
18894746 TAATATTTTAT
1 TAATATTTTAT
18894757 TA
1 TA
18894759 TAAATAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 19 0.61
12 5 0.16
13 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:18896704 original size:20 final size:22
Alignment explanation
Indices: 18896674--18896721 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
18896664 GAATATGCTG
*
18896674 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
18896696 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
18896717 TAAAT
1 TAAAT
18896722 CGCTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:18897448 original size:33 final size:33
Alignment explanation
Indices: 18897429--18897557 Score: 208
Period size: 33 Copynumber: 3.9 Consensus size: 33
18897419 TTATGTACAC
*
18897429 TTTGTGTATACCATATGAAAAGGAAAGGTATAC
1 TTTGTGTATACCATATGAAAAGGAAAGGTATAA
*
18897462 TTTGTGTATACCATATGAATAGGAAAGGTA-AA
1 TTTGTGTATACCATATGAAAAGGAAAGGTATAA
18897494 TGTTGTGTATACCATATGAAAAGGAAAGGTATAA
1 T-TTGTGTATACCATATGAAAAGGAAAGGTATAA
18897528 TTTGTGTATACCACT-TGAAAAGGAAAGGTA
1 TTTGTGTATACCA-TATGAAAAGGAAAGGTA
18897558 CACTATATGT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.02
33 84 0.93
34 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (33 bp):
TTTGTGTATACCATATGAAAAGGAAAGGTATAA
Found at i:18897581 original size:32 final size:32
Alignment explanation
Indices: 18897408--18897582 Score: 110
Period size: 33 Copynumber: 5.3 Consensus size: 32
18897398 AAATGGTACA
** * * *
18897408 ACTTGAAAAGGTTATGTACACTTTGTGTATAC
1 ACTTGAAAAGGAAAGGTACAATATGTGTATAC
* * *
18897440 -CATATGAAAAGGAAAGGTATACTTTGTGTATAC
1 AC-T-TGAAAAGGAAAGGTACAATATGTGTATAC
* *
18897473 -CATATGAATAGGAAAGGTA-AATGTTGTGTATAC
1 AC-T-TGAAAAGGAAAGGTACAAT-ATGTGTATAC
* *
18897506 -CATATGAAAAGGAAAGGTATAATTTGTGTATACC
1 AC-T-TGAAAAGGAAAGGTACAATATGTGTATA-C
18897540 ACTTGAAAAGGAAAGGTACACTATATGTGTA-A-
1 ACTTGAAAAGGAAAGGTACA--ATATGTGTATAC
18897572 ACTTGAAAAGG
1 ACTTGAAAAGG
18897583 TTAATGTGCA
Statistics
Matches: 126, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
31 1 0.01
32 14 0.11
33 96 0.76
34 6 0.05
35 9 0.07
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (32 bp):
ACTTGAAAAGGAAAGGTACAATATGTGTATAC
Found at i:18897628 original size:33 final size:33
Alignment explanation
Indices: 18897542--18897628 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 33
18897532 TGTATACCAC
* * * * *
18897542 TTGAAAAGG-AAAGGTACACTATATGTGTAAAC
1 TTGAAAAGGTTAATGTACACTTTAAGTGTAAAA
*
18897574 TTGAAAAGGTTAATGTGCACTTTAAGTGTACAAA
1 TTGAAAAGGTTAATGTACACTTTAAGTGTA-AAA
18897608 TTGAAAAAGG-T-ATGTACACTT
1 TTG-AAAAGGTTAATGTACACTT
18897629 CGTGTGTAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 9 0.20
33 24 0.53
34 6 0.13
35 6 0.13
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (33 bp):
TTGAAAAGGTTAATGTACACTTTAAGTGTAAAA
Found at i:18897669 original size:33 final size:33
Alignment explanation
Indices: 18897566--18897682 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 33
18897556 TACACTATAT
* **
18897566 GTGTA-AACTTGAAAAGGTTAATGTGCACTTTAA
1 GTGTACAACTTGAAAAGG-GAATGTGCACTTCGA
* * * * *
18897599 GTGTACAAATTGAAAAAGGTATGTACACTTCGT
1 GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
*
18897632 GTGTA-ACACTTGAAAAGGGAATGTGCACCTCGA
1 GTGTACA-ACTTGAAAAGGGAATGTGCACTTCGA
* *
18897665 GTGTACGACTAGAAAAGG
1 GTGTACAACTTGAAAAGG
18897683 AAAAGTCCAT
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
32 1 0.02
33 54 0.83
34 10 0.15
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (33 bp):
GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
Found at i:18905145 original size:17 final size:17
Alignment explanation
Indices: 18905123--18905157 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18905113 TAATTTAGCC
* *
18905123 AAAATATAAACACTTTA
1 AAAATAAAAAAACTTTA
18905140 AAAATAAAAAAACTTTA
1 AAAATAAAAAAACTTTA
18905157 A
1 A
18905158 TTATTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAAAAAACTTTA
Found at i:18918979 original size:41 final size:41
Alignment explanation
Indices: 18918917--18919075 Score: 196
Period size: 41 Copynumber: 3.9 Consensus size: 41
18918907 AATCATCACA
* **
18918917 AAAGG-TGAGCAATAGCGGCGTTTTTGGTCCAAACGACTTT
1 AAAGGTTGAGCAATAGTGGCGTTTTTGGTCCAAACGACGCT
* * *
18918957 AAAGGTTGAGCAATAGTGGCGTTTTTTGTCTAAACGCCGCT
1 AAAGGTTGAGCAATAGTGGCGTTTTTGGTCCAAACGACGCT
* * *
18918998 AAAGGTTGAGCTATAGTGGCGTTTTTTTGTTCAAAC-ACCGCT
1 AAAGGTTGAGCAATAGTGGCG-TTTTTGGTCCAAACGA-CGCT
*
18919040 AAATGTTGAGCAATAGTGGCGTTTTTGGTCCAAACG
1 AAAGGTTGAGCAATAGTGGCGTTTTTGGTCCAAACG
18919076 CCACGAATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 5 0.05
41 61 0.60
42 35 0.35
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
AAAGGTTGAGCAATAGTGGCGTTTTTGGTCCAAACGACGCT
Found at i:18919605 original size:15 final size:15
Alignment explanation
Indices: 18919525--18919605 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 15
18919515 ATGGCTTTCT
18919525 CTAAACCCT-AACCC
1 CTAAACCCTAAACCC
* *
18919539 TTAAACCCTTAAACCG
1 CTAAACCC-TAAACCC
* * *
18919555 CTAAACCTTTAAATCT
1 CTAAACC-CTAAACCC
* *
18919571 C-AAACCCGAAA-TC
1 CTAAACCCTAAACCC
*
18919584 TTAAACCCTAAACCC
1 CTAAACCCTAAACCC
18919599 CTAAACC
1 CTAAACC
18919606 ATTGAACCAT
Statistics
Matches: 48, Mismatches: 14, Indels: 9
0.68 0.20 0.13
Matches are distributed among these distances:
14 19 0.40
15 13 0.27
16 16 0.33
ACGTcount: A:0.40, C:0.37, G:0.02, T:0.21
Consensus pattern (15 bp):
CTAAACCCTAAACCC
Found at i:18920580 original size:114 final size:116
Alignment explanation
Indices: 18920098--18920587 Score: 602
Period size: 117 Copynumber: 4.3 Consensus size: 116
18920088 AGCTTTGTTT
* * * * *
18920098 TTAGTGGCGTTTTGACTAAAACGTCGCAAAAGGATAGCCGA-TAGTGGCGTTTTCAC-AAAAAAT
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCC-ATTAGTGGCATTTTCACAAAAAAAC
* ** * *
18920161 GTCATGAATATGTTTTAAGA--GTGCAAAACACCACCGTTTTTATCTGCCTA
65 GCCGCGAATATGTTTTAAGAGTGTGCAAAACACTACAGTTTTTATCTGCCTA
* * *
18920211 TTAGTGGCATTTTTACTAAAATGCCGCAAAAGGATATCCATTAGTGGCGTTTTCACAAAAAAACG
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCCATTAGTGGCATTTTCACAAAAAAACG
*
18920276 CCGCGAATATGTTTTAAGAGTGTGCAAAACGC-AGTC-GTTTTTATCTGCCTA
66 CCGCGAATATGTTTTAAGAGTGTGCAAAACACTA--CAGTTTTTATCTGCCTA
* * **
18920327 TTAGTGGTGTTTTTACTAAAATGCTACAAAAGGATATCCATTAGTGGCATTTTCACAAAAAAAAC
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCCATTAGTGGCATTTTCAC-AAAAAAAC
* * *
18920392 GCCGCGAATATGTTTTAAGAGTGTGCAAAACGCTGCATTTTTTATCTGCCTA
65 GCCGCGAATATGTTTTAAGAGTGTGCAAAACACTACAGTTTTTATCTGCCTA
* * * *
18920444 TCAGTGGCGCTTTTACTAAAACGCCGCAAAAGGATATCCTTTAGTGGCATTTTCAC-ATAAAACG
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCCATTAGTGGCATTTTCACAAAAAAACG
* * * *
18920508 CTGCGAA-ATGGCTTTAAGA-TGTGCAAAACACTACAGTTTTTATCTGCTTT
66 CCGCGAATAT-GTTTTAAGAGTGTGCAAAACACTACAGTTTTTATCTGCCTA
*
18920558 TTAGTGGCGTTTTTACTAAAACGTCGCAAA
1 TTAGTGGCGTTTTTACTAAAACGCCGCAAA
18920588 TAGAGATTAC
Statistics
Matches: 332, Mismatches: 35, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
112 1 0.00
113 49 0.15
114 78 0.23
115 22 0.07
116 77 0.23
117 105 0.32
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (116 bp):
TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCCATTAGTGGCATTTTCACAAAAAAACG
CCGCGAATATGTTTTAAGAGTGTGCAAAACACTACAGTTTTTATCTGCCTA
Found at i:18921920 original size:13 final size:14
Alignment explanation
Indices: 18921904--18921939 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
18921894 CAATCTCATA
18921904 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
18921917 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
18921930 TCTC-ATTTCA
1 TCTCAATTTCA
18921940 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:18921929 original size:18 final size:19
Alignment explanation
Indices: 18921891--18921931 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
18921881 TGGTTCATGT
18921891 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
18921910 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
18921928 TTTC
1 TTTC
18921932 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:18922590 original size:15 final size:15
Alignment explanation
Indices: 18922570--18922616 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
18922560 TATATTATAT
18922570 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
18922585 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
18922600 TTCAATCAATATAAA
1 TTCAATCAATATAAA
18922615 TT
1 TT
18922617 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:18923579 original size:23 final size:23
Alignment explanation
Indices: 18923528--18923582 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
18923518 TCGTCCCTGC
*
18923528 TATTCTGTTTCTTTCTTTCTTTT
1 TATTCTTTTTCTTTCTTTCTTTT
*
18923551 TATTCTTTTTGTTTCTTTC-TTT
1 TATTCTTTTTCTTTCTTTCTTTT
18923573 TATTTCTTTT
1 TA-TTCTTTT
18923583 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.05, C:0.15, G:0.04, T:0.76
Consensus pattern (23 bp):
TATTCTTTTTCTTTCTTTCTTTT
Found at i:18925511 original size:9 final size:9
Alignment explanation
Indices: 18925497--18925641 Score: 141
Period size: 9 Copynumber: 16.1 Consensus size: 9
18925487 ATTCCTTTCT
18925497 TAACTTACA
1 TAACTTACA
18925506 TAACTTACA
1 TAACTTACA
* *
18925515 TAA-ATATA
1 TAACTTACA
* *
18925523 TATCATATCA
1 TAACTTA-CA
18925533 TAACTTACA
1 TAACTTACA
*
18925542 TAACTTATA
1 TAACTTACA
18925551 TAACTTACA
1 TAACTTACA
*
18925560 TAATTTACA
1 TAACTTACA
18925569 TAACTTACA
1 TAACTTACA
* *
18925578 TAA-ATATA
1 TAACTTACA
* *
18925586 TATCATATCA
1 TAACTTA-CA
18925596 TAACTTACA
1 TAACTTACA
18925605 TAACTTACA
1 TAACTTACA
* *
18925614 CAATTTACA
1 TAACTTACA
18925623 TAACTTACA
1 TAACTTACA
*
18925632 TAAATTACA
1 TAACTTACA
18925641 T
1 T
18925642 GATTTAATTC
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
8 10 0.09
9 89 0.80
10 12 0.11
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TAACTTACA
Found at i:18925600 original size:63 final size:63
Alignment explanation
Indices: 18925497--18925641 Score: 245
Period size: 63 Copynumber: 2.3 Consensus size: 63
18925487 ATTCCTTTCT
* *
18925497 TAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTATATAACTTACA
1 TAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACACAACTTACA
* *
18925560 TAATTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACACAATTTACA
1 TAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACACAACTTACA
*
18925623 TAACTTACATAAATTACAT
1 TAACTTACATAACTTACAT
18925642 GATTTAATTC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 76 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (63 bp):
TAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACACAACTTACA
Found at i:18929496 original size:45 final size:45
Alignment explanation
Indices: 18929446--18929543 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
18929436 GTAGCAGTAG
* * *
18929446 CAGTAACAGTAACGGTATTCAACACACAAAGTG-CTGAATCTATAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTC-GAATCGATAA
* * *
18929491 CAGTAACGGTAACAGTATTCGACACACAAAATGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGATAA
18929536 CAGTAACA
1 CAGTAACA
18929544 ATAGTCGGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGATAA
Found at i:18931156 original size:20 final size:19
Alignment explanation
Indices: 18931129--18931170 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18931119 ATATAAAACC
18931129 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
18931148 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
18931168 ATA
1 ATA
18931171 TAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:18931168 original size:5 final size:5
Alignment explanation
Indices: 18931158--18931188 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
18931148 ATAATCAATT
18931158 ATATA ATATA ATATA ATATA ATAT- ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
18931189 CTAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:18934540 original size:43 final size:43
Alignment explanation
Indices: 18934479--18934832 Score: 381
Period size: 43 Copynumber: 8.3 Consensus size: 43
18934469 TGACTTGTAG
** * *
18934479 TAGCGGCGTTTGTAG-AGAAAGCGTTGATAAAGGTCACGATCTA
1 TAGCGGCGTTTGTAGTA-AAAGCGCCGCTAAAGGTCACGTTCTA
* * *
18934522 TAGCGGCGTTTGTAG-AGAAAGCGCCACTAAAGGTCATGTTTTA
1 TAGCGGCGTTTGTAGTA-AAAGCGCCGCTAAAGGTCACGTTCTA
* * *
18934565 TAGCGACGTTTATAGTAAAAGTGCCGCTAAAGGTCACGTTCTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
* * *
18934608 TAACGGCATTTGTAG-AAAAGCGCCGCTAAAGGTCATGTTCTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
* * *
18934650 TAGCCGCGTTTGTAGTAAAAACGTCGCTAAAGGTCACGTTCTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
* * * * **
18934693 CAGCGGTGTTAGTAGTAAAAGCGCCACTAAAGGTCATATTCTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
* * *
18934736 TAGCGGCATTTGTAGTAAAAGCACCGCTAAAGGTCACGATCTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
* * * * * *
18934779 TAACGGCCTTTGTAGTAGAAGCGTCGCTAAAGGTCATGTTTTA
1 TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
*
18934822 TAGTGGCGTTT
1 TAGCGGCGTTT
18934833 TTTCAAATAA
Statistics
Matches: 255, Mismatches: 54, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
42 37 0.15
43 217 0.85
44 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCACGTTCTA
Found at i:18934769 original size:171 final size:172
Alignment explanation
Indices: 18934479--18934824 Score: 473
Period size: 171 Copynumber: 2.0 Consensus size: 172
18934469 TGACTTGTAG
* * * * *
18934479 TAGCGGCGTTTGTAGAGAAAGCGTTGATAAAGGTCACGATCTATAGCGGCGTTTGTAGAGAAAGC
1 TAGCCGCGTTTGTAGAGAAAACGTCGATAAAGGTCACGATCTACAGCGGCGTTAGTAGAGAAAGC
* * * ** *
18934544 GCCACTAAAGGTCATGTTTTATAGCGACGTTTATAGTAAAAGTGCCGCTAAAGGTCACGTTCTAT
66 GCCACTAAAGGTCATATTCTATAGCGACATTTATAGTAAAAGCACCGCTAAAGGTCACGATCTAT
18934609 AACGGCATTTGTAG-AAAAGCGCCGCTAAAGGTCATGTTCTA
131 AACGGCATTTGTAGTAAAAGCGCCGCTAAAGGTCATGTTCTA
* * *
18934650 TAGCCGCGTTTGTAGTA-AAAACGTCGCTAAAGGTCACGTTCTACAGCGGTGTTAGTAGTA-AAA
1 TAGCCGCGTTTGTAG-AGAAAACGTCGATAAAGGTCACGATCTACAGCGGCGTTAGTAG-AGAAA
* *
18934713 GCGCCACTAAAGGTCATATTCTATAGCGGCATTTGTAGTAAAAGCACCGCTAAAGGTCACGATCT
64 GCGCCACTAAAGGTCATATTCTATAGCGACATTTATAGTAAAAGCACCGCTAAAGGTCACGATCT
* * * *
18934778 ATAACGGCCTTTGTAGTAGAAGCGTCGCTAAAGGTCATGTTTTA
129 ATAACGGCATTTGTAGTAAAAGCGCCGCTAAAGGTCATGTTCTA
18934822 TAG
1 TAG
18934825 TGGCGTTTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
171 123 0.81
172 29 0.19
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (172 bp):
TAGCCGCGTTTGTAGAGAAAACGTCGATAAAGGTCACGATCTACAGCGGCGTTAGTAGAGAAAGC
GCCACTAAAGGTCATATTCTATAGCGACATTTATAGTAAAAGCACCGCTAAAGGTCACGATCTAT
AACGGCATTTGTAGTAAAAGCGCCGCTAAAGGTCATGTTCTA
Found at i:18943629 original size:33 final size:35
Alignment explanation
Indices: 18943592--18943663 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 35
18943582 TAATATAAAT
* * * *
18943592 ATAAGTAGTTCCTTAAC-AAGCTTTTAAGCA-AAC
1 ATAAGTAATTCATTAACAAAACTTTCAAGCATAAC
18943625 ATAAGTAATTCATTAACAAAACTTTCAAGCATAAC
1 ATAAGTAATTCATTAACAAAACTTTCAAGCATAAC
18943660 ATAA
1 ATAA
18943664 CAGGAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 15 0.45
34 11 0.33
35 7 0.21
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (35 bp):
ATAAGTAATTCATTAACAAAACTTTCAAGCATAAC
Found at i:18946401 original size:17 final size:18
Alignment explanation
Indices: 18946369--18946402 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18946359 TCAACTTAAA
18946369 AAATAAAGACAAATACAG
1 AAATAAAGACAAATACAG
*
18946387 AAATAAA-ATAAATACA
1 AAATAAAGACAAATACA
18946403 TAAGTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAAGACAAATACAG
Found at i:18946614 original size:15 final size:14
Alignment explanation
Indices: 18946596--18946639 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
18946586 CAAATAGATG
*
18946596 AATAGATAATAATAT
1 AATA-ATAATAATAA
18946611 AATAATAGATAATAA
1 AATAATA-ATAATAA
*
18946626 AATACTAATAATAA
1 AATAATAATAATAA
18946640 TGAAGGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:18946617 original size:18 final size:18
Alignment explanation
Indices: 18946596--18946640 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
18946586 CAAATAGATG
*
18946596 AATAGATAATAATATAAT
1 AATAGATAATAAAATAAT
*
18946614 AATAGATAATAAAATACT
1 AATAGATAATAAAATAAT
18946632 AATA-ATAAT
1 AATAGATAAT
18946641 GAAGGCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AATAGATAATAAAATAAT
Found at i:18949228 original size:12 final size:12
Alignment explanation
Indices: 18949213--18949244 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18949203 CCCGGCTAAG
18949213 TATTAATTTTTA
1 TATTAATTTTTA
18949225 TATTAA-TTTTA
1 TATTAATTTTTA
18949236 TA-TAATTTT
1 TATTAATTTT
18949245 GAAATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 10 0.53
12 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:18949405 original size:30 final size:30
Alignment explanation
Indices: 18949371--18949427 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
18949361 TAACAACCAG
18949371 ATGCCTCTAAAATAATAACAAAATTAACAA
1 ATGCCTCTAAAATAATAACAAAATTAACAA
*
18949401 ATGCCTTTAAAATAATAACAAAATTAA
1 ATGCCTCTAAAATAATAACAAAATTAA
18949428 TAAGAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAACAAAATTAACAA
Found at i:18951966 original size:4 final size:4
Alignment explanation
Indices: 18951957--18951983 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18951947 GGCTTCAACC
18951957 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
18951984 AAGGCATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:18956587 original size:2 final size:2
Alignment explanation
Indices: 18956580--18956607 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18956570 AATAATGGGC
18956580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18956608 TTCATTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18968348 original size:16 final size:17
Alignment explanation
Indices: 18968327--18968366 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18968317 CTCCCCCTAA
**
18968327 AATTTTTATT-TTTATT
1 AATTTTTATTATAAATT
18968343 AATTTTTATTATAAATT
1 AATTTTTATTATAAATT
18968360 AATTTTT
1 AATTTTT
18968367 TAAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTTATTATAAATT
Found at i:18980532 original size:14 final size:14
Alignment explanation
Indices: 18980513--18980549 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18980503 TGAAATATCC
18980513 AAATAATAACAAGA
1 AAATAATAACAAGA
* *
18980527 AAATAATAGCAATA
1 AAATAATAACAAGA
18980541 AAATAATAA
1 AAATAATAA
18980550 AATAACAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAATAACAAGA
Found at i:18982345 original size:21 final size:21
Alignment explanation
Indices: 18982321--18982361 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18982311 CTGCTCTGCT
18982321 CTGCCTCCCTCGT-TGCTGCCG
1 CTGCCTCCCTC-TCTGCTGCCG
18982342 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCTCTGCTGCC
18982362 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.00, C:0.51, G:0.20, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCTCTGCTGCCG
Found at i:18987929 original size:18 final size:18
Alignment explanation
Indices: 18987902--18987936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18987892 ATATTTATGT
* *
18987902 ATTATTTAAGTTTTGTAA
1 ATTATGTAAGTTATGTAA
18987920 ATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
18987937 TTATGTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:18988083 original size:9 final size:9
Alignment explanation
Indices: 18988069--18988170 Score: 63
Period size: 9 Copynumber: 11.4 Consensus size: 9
18988059 TGTGTTAATT
18988069 TTATGTAAA
1 TTATGTAAA
*
18988078 TTATGTAAG
1 TTATGTAAA
18988087 TTATG-AAA
1 TTATGTAAA
*
18988095 TTTGATCTTTAAA
1 -TT-A--TGTAAA
*
18988108 TTATGTAAG
1 TTATGTAAA
*
18988117 TCATGT--A
1 TTATGTAAA
18988124 TTATGTAAGA
1 TTATGTAA-A
18988134 -TATGT--A
1 TTATGTAAA
*
18988140 TTATGTAAG
1 TTATGTAAA
18988149 TTATGTAAA
1 TTATGTAAA
*
18988158 TTATGTAAG
1 TTATGTAAA
18988167 TTAT
1 TTAT
18988171 AAAATTCGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
6 1 0.01
7 10 0.14
8 2 0.03
9 49 0.69
10 2 0.03
11 1 0.01
12 3 0.04
13 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (9 bp):
TTATGTAAA
Found at i:18988173 original size:16 final size:16
Alignment explanation
Indices: 18988074--18988200 Score: 86
Period size: 16 Copynumber: 8.1 Consensus size: 16
18988064 TAATTTTATG
18988074 TAAATTATGTAAGTTA
1 TAAATTATGTAAGTTA
**
18988090 TGAAATT-TG-ATCTT-
1 T-AAATTATGTAAGTTA
*
18988104 TAAATTATGTAAGTCA
1 TAAATTATGTAAGTTA
** *
18988120 TGTATTATGTAAGATA
1 TAAATTATGTAAGTTA
**
18988136 TGTATTATGTAAGTTA
1 TAAATTATGTAAGTTA
18988152 TGTAAATTATGTAAGTTA
1 --TAAATTATGTAAGTTA
* *
18988170 TAAAATT-CG-AACTT-
1 T-AAATTATGTAAGTTA
18988184 TAAATTATGTAAGTTA
1 TAAATTATGTAAGTTA
18988200 T
1 T
18988201 GTATTATTAG
Statistics
Matches: 85, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
13 10 0.12
14 5 0.06
15 13 0.15
16 33 0.39
17 10 0.12
18 14 0.16
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (16 bp):
TAAATTATGTAAGTTA
Found at i:18988473 original size:40 final size:41
Alignment explanation
Indices: 18988429--18988515 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
18988419 TTAAATACAT
18988429 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * *
18988469 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
18988510 ATAAAA
1 TTAAAA
18988516 ATTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:18989123 original size:99 final size:99
Alignment explanation
Indices: 18988870--18989339 Score: 802
Period size: 99 Copynumber: 4.8 Consensus size: 99
18988860 AATTAAAGTG
18988870 AAATAAAAT-AGAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
1 AAATAAAATGA-AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
18988934 ATAAAATAAAATATTGAAATTATTTTTCGTGATTC
65 ATAAAATAAAATATTGAAATTATTTTTCGTGATTC
* *
18988969 AAA-AAAATGAAATATTTAAAATGAAACTTTAAATACAATTTAATTTAATTAGGTAATATTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
18989033 TAAAATAAAATATTGAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTGAAATTATTTTTCGTGATTC
*
18989067 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
*
18989132 TAAAATAAAACATTGAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTGAAATTATTTTTCGTGATTC
* *
18989166 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACGATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
*
18989231 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTGAAATTATTTTTCGTGATTC
* * * *
18989265 AAAAAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAT-TTGAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT-AAA
18989329 ATAAAATAAAA
65 ATAAAATAAAA
18989340 GATAATAAAA
Statistics
Matches: 353, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
98 96 0.27
99 257 0.73
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (99 bp):
AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
TAAAATAAAATATTGAAATTATTTTTCGTGATTC
Found at i:18992334 original size:12 final size:12
Alignment explanation
Indices: 18992317--18992341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18992307 CAAGTTAAAT
18992317 TAAGTCACCAAA
1 TAAGTCACCAAA
18992329 TAAGTCACCAAA
1 TAAGTCACCAAA
18992341 T
1 T
18992342 GTGCAAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAGTCACCAAA
Found at i:18993694 original size:76 final size:76
Alignment explanation
Indices: 18993531--18993709 Score: 252
Period size: 76 Copynumber: 2.3 Consensus size: 76
18993521 GTGATCTTTA
*
18993531 GCGGCGTTTTTCGAAAAGCGCCGCTAAAGATCGATCTTCTAAACAAAGGGCGACGTCGTTTTGGT
1 GCGGCGTTTTTC-AAAAACGCCGCTAAAGATCGATCTTCTAAACAAAGGGCGACGTCGTTTTGGT
18993596 CAACTATTTTTT
65 CAACTATTTTTT
* * * * *
18993608 GCGACATTTTTCAAAAATGCCGCTAAAGATCGATCTTCTAAACAAAGGGCGATGTCGTTTTGTTC
1 GCGGCGTTTTTCAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAGGGCGACGTCGTTTTGGTC
*
18993673 ACCT-TTTTTT
66 AACTATTTTTT
* *
18993683 GCGGCGCTTTTTAAAAAACGTCGCTAA
1 GCGGCG-TTTTTCAAAAACGCCGCTAA
18993710 TGCTTGATCT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
75 10 0.11
76 69 0.78
77 10 0.11
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (76 bp):
GCGGCGTTTTTCAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAGGGCGACGTCGTTTTGGTC
AACTATTTTTT
Found at i:18994945 original size:14 final size:15
Alignment explanation
Indices: 18994912--18994946 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18994902 TTTTAAGGAA
18994912 AAAAATAAATATTGT
1 AAAAATAAATATTGT
* *
18994927 AAAAATAAATGTTTT
1 AAAAATAAATATTGT
18994942 AAAAA
1 AAAAA
18994947 GCTTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAAATAAATATTGT
Found at i:18997090 original size:5 final size:5
Alignment explanation
Indices: 18997080--18997110 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
18997070 TGTTTGGAGT
*
18997080 GAAGA GAAGA GAAGA GAAGG GAAGA GAAGA G
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA G
18997111 CGAGTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:18998368 original size:37 final size:37
Alignment explanation
Indices: 18998318--18998391 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
18998308 CTTGGGGCTA
18998318 TGTCAGGAGAAATTCAATTTTCAAATCAACTAATAAT
1 TGTCAGGAGAAATTCAATTTTCAAATCAACTAATAAT
18998355 TGTCAGGAGAAATTCAATTTTCAAATCAACTAATAAT
1 TGTCAGGAGAAATTCAATTTTCAAATCAACTAATAAT
18998392 GATTGTTCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (37 bp):
TGTCAGGAGAAATTCAATTTTCAAATCAACTAATAAT
Found at i:18999086 original size:18 final size:19
Alignment explanation
Indices: 18999047--18999086 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18999037 ATATAGAAAA
*
18999047 AAATATATATTTTATGTTT
1 AAATATATATTTGATGTTT
*
18999066 AAATATTTATTTGAT-TTT
1 AAATATATATTTGATGTTT
18999084 AAA
1 AAA
18999087 AAGATTGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATATATATTTGATGTTT
Found at i:19004281 original size:20 final size:20
Alignment explanation
Indices: 19004252--19004296 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19004242 TGTCAGTCTT
* * *
19004252 ATGAATAGTGGAGTTAAGTC
1 ATGAACAGTGGAGTCAAATC
19004272 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
19004292 ATGAA
1 ATGAA
19004297 GAATGATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:19014513 original size:20 final size:20
Alignment explanation
Indices: 19014488--19014580 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 20
19014478 ATGATATTAT
19014488 TTTAATATTTTAATATTAAA
1 TTTAATATTTTAATATTAAA
* *
19014508 TTTAAT-TTAATACTTATCTTAATA
1 TTTAATATT--T--TAATATTAA-A
* *
19014532 TTTTATTAATTTAATATTAAA
1 -TTTAATATTTTAATATTAAA
* * *
19014553 GTGAATATCTTAATATTAAA
1 TTTAATATTTTAATATTAAA
19014573 TTTAATAT
1 TTTAATAT
19014581 AATTTTTCTA
Statistics
Matches: 53, Mismatches: 13, Indels: 14
0.66 0.16 0.17
Matches are distributed among these distances:
19 2 0.04
20 27 0.51
21 2 0.04
22 7 0.13
23 7 0.13
24 2 0.04
25 5 0.09
26 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTAATATTTTAATATTAAA
Found at i:19014636 original size:16 final size:16
Alignment explanation
Indices: 19014603--19014637 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19014593 ATTTAATAAG
* *
19014603 ATTTAATATTATATTA
1 ATTTAATATTAAAGTA
19014619 ATTTAATATTAAAGTA
1 ATTTAATATTAAAGTA
19014635 ATT
1 ATT
19014638 AAGTTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTAATATTAAAGTA
Found at i:19023594 original size:19 final size:19
Alignment explanation
Indices: 19023567--19023605 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
19023557 AAAATAATCT
19023567 TAAAAAATC-AAAATTTTA
1 TAAAAAATCTAAAATTTTA
19023585 TAAAATAATCTTAAAATTTTA
1 TAAAA-AATC-TAAAATTTTA
19023606 AATTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
21 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATCTAAAATTTTA
Found at i:19034375 original size:17 final size:17
Alignment explanation
Indices: 19034355--19034394 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
19034345 TCAAAAATTG
19034355 GGCAATTTTCCCTTTTA
1 GGCAATTTTCCCTTTTA
19034372 GGCAATTTTCCCTTTTA
1 GGCAATTTTCCCTTTTA
*
19034389 GTCAAT
1 GGCAAT
19034395 CCATGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (17 bp):
GGCAATTTTCCCTTTTA
Found at i:19041870 original size:3 final size:3
Alignment explanation
Indices: 19041855--19041884 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
19041845 TAAGATATGA
*
19041855 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19041885 AAAAAGTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:19042587 original size:22 final size:24
Alignment explanation
Indices: 19042562--19042622 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
19042552 AATTAAATTC
19042562 TATATTTTTATAATTGTAA-AA-A
1 TATATTTTTATAATTGTAATAATA
* * * *
19042584 TATAATTTTATCATTTTAATAATT
1 TATATTTTTATAATTGTAATAATA
19042608 TATATTTTTATAATT
1 TATATTTTTATAATT
19042623 TTTAAATGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 16 0.52
23 2 0.06
24 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATATTTTTATAATTGTAATAATA
Found at i:19042620 original size:15 final size:16
Alignment explanation
Indices: 19042584--19042623 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
19042574 ATTGTAAAAA
19042584 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
19042601 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
19042616 TATAATTT
1 TATAATTT
19042624 TTAAATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:19044172 original size:21 final size:21
Alignment explanation
Indices: 19044128--19044173 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
19044118 ATTCTTTTTG
*
19044128 AAAAAGAACAAAATGAATTAT
1 AAAAAGAACAAAATGAATCAT
*
19044149 AAAAA-AATAAAATGAATCACT
1 AAAAAGAACAAAATGAATCA-T
19044170 AAAA
1 AAAA
19044174 CTAAAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAAAGAACAAAATGAATCAT
Found at i:19045856 original size:17 final size:17
Alignment explanation
Indices: 19045834--19045869 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19045824 AAGAGTAGAT
19045834 TTTTAGTCTAAATATTA
1 TTTTAGTCTAAATATTA
* *
19045851 TTTTAGTTTAAATTTTA
1 TTTTAGTCTAAATATTA
19045868 TT
1 TT
19045870 ATTTATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTCTAAATATTA
Found at i:19046061 original size:15 final size:16
Alignment explanation
Indices: 19046041--19046082 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
19046031 TTAATTATTT
19046041 TAAAAATTATA-AAAA
1 TAAAAATTATATAAAA
*
19046056 TAAAAATTA-ATATAA
1 TAAAAATTATATAAAA
19046071 TAAAAA-TATATA
1 TAAAAATTATATA
19046083 TTAACTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATTATATAAAA
Found at i:19046085 original size:21 final size:22
Alignment explanation
Indices: 19046049--19046103 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
19046039 TTTAAAAATT
* *
19046049 ATAAAAATAAAAATTAA-TATA
1 ATAAAAATATATATTAACTATA
* *
19046070 ATAAAAATATATATTAACTTTT
1 ATAAAAATATATATTAACTATA
19046092 AT-AAAATATATA
1 ATAAAAATATATA
19046104 ACATAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAATATATATTAACTATA
Found at i:19046491 original size:16 final size:16
Alignment explanation
Indices: 19046470--19046509 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
19046460 TTTTCCTTTT
*
19046470 TTCACTCCCTCCCT-CC
1 TTCACTCCCT-CATGCC
19046486 TTCACTCCCTCATGCC
1 TTCACTCCCTCATGCC
19046502 TTCACTCC
1 TTCACTCC
19046510 ACAAAACGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.10, C:0.55, G:0.03, T:0.33
Consensus pattern (16 bp):
TTCACTCCCTCATGCC
Found at i:19060254 original size:13 final size:14
Alignment explanation
Indices: 19060237--19060269 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19060227 GCCCAATACC
*
19060237 TAAAATAAAATAAA
1 TAAAATAAAAGAAA
19060251 -AAAATAAAAGAAA
1 TAAAATAAAAGAAA
19060264 TAAAAT
1 TAAAAT
19060270 CTAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:19060300 original size:13 final size:13
Alignment explanation
Indices: 19060282--19060384 Score: 51
Period size: 13 Copynumber: 9.2 Consensus size: 13
19060272 AAATATCTTT
19060282 ACTCCACTAAACC
1 ACTCCACTAAACC
19060295 ACT-C-C--AACC
1 ACTCCACTAAACC
19060304 ACT---CTAA-CC
1 ACTCCACTAAACC
*
19060313 ACTCCACTAAATC
1 ACTCCACTAAACC
19060326 ACT-C-C--AACC
1 ACTCCACTAAACC
*
19060335 ACTCCACTAAATC
1 ACTCCACTAAACC
19060348 AC-CC-C--AACC
1 ACTCCACTAAACC
*
19060357 A-TCCTACTAAACT
1 ACTCC-ACTAAACC
19060370 ACTCCACTAAACC
1 ACTCCACTAAACC
19060383 AC
1 AC
19060385 CCAACCACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 32
0.64 0.06 0.30
Matches are distributed among these distances:
8 1 0.01
9 24 0.35
10 2 0.03
11 5 0.07
12 8 0.12
13 25 0.37
14 3 0.04
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:19060328 original size:22 final size:22
Alignment explanation
Indices: 19060303--19060375 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
19060293 CCACTCCAAC
*
19060303 CACTCTAACCACTCCACTAAAT
1 CACTCCAACCACTCCACTAAAT
19060325 CACTCCAACCACTCCACTAAAT
1 CACTCCAACCACTCCACTAAAT
*
19060347 CACCCCAACCA-TCCTACTAAA-
1 CACTCCAACCACTCC-ACTAAAT
19060368 CTACTCCA
1 C-ACTCCA
19060376 CTAAACCACC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 4 0.09
22 42 0.91
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
CACTCCAACCACTCCACTAAAT
Found at i:19060802 original size:3 final size:3
Alignment explanation
Indices: 19060791--19060873 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
19060781 TTTTATTTTT
* *
19060791 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
19060834 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
19060874 ATATACCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19060848 original size:21 final size:18
Alignment explanation
Indices: 19060795--19060877 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
19060785 ATTTTTTTAT
* *
19060795 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
19060814 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
19060832 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
19060853 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
19060870 TTATATAT
1 TT-TATAT
19060878 ACCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:19063731 original size:19 final size:19
Alignment explanation
Indices: 19063709--19063755 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
19063699 CTTCCTTTCT
19063709 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
19063728 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
19063747 TTTGCATTA
1 TTTGCATTA
19063756 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:19067438 original size:53 final size:52
Alignment explanation
Indices: 19067335--19067438 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
19067325 GTCCAAATAA
* * * *
19067335 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCATTCGTTTTGAGTTG
1 ATTTCCTTCTTATTGCATTGCTATCTTTGATTAAATCATCCATTTCGAGTTG
* *
19067387 ATTTCCTTCTTATTGCATTTG-TAATCTTTGATTAATTTATCCATTTCGAGTT
1 ATTTCCTTCTTATTGCA-TTGCT-ATCTTTGATTAAATCATCCATTTCGAGTT
19067439 ATGCTCCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 17 0.39
53 27 0.61
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.54
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCTATCTTTGATTAAATCATCCATTTCGAGTTG
Done.