Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 179 of 276
Found at i:58995182 original size:56 final size:56
Alignment explanation
Indices: 58995140--58995272 Score: 257
Period size: 56 Copynumber: 2.4 Consensus size: 56
58995130 ACAGAATCAA
58995140 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
*
58995196 AATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
58995252 AATCAGAATCAGAATCAGAAT
1 AATCAGAATCAGAATCAGAAT
58995273 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (56 bp):
AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
Found at i:58995439 original size:27 final size:26
Alignment explanation
Indices: 58995391--58995450 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58995381 GCGAGGCTGC
*
58995391 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58995418 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58995444 CAGATAT
1 CAGATAT
58995451 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58995537 original size:27 final size:26
Alignment explanation
Indices: 58995489--58995540 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58995479 GCAAGGCTGC
* *
58995489 CAGATATTGTGATGAAGTCACCAGAA
1 CAGATATTGTAATGAAGCCACCAGAA
*
58995515 CAGATATATGTAATGAGGCCACCAGA
1 CAGATAT-TGTAATGAAGCCACCAGA
58995541 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTAATGAAGCCACCAGAA
Found at i:58995816 original size:27 final size:27
Alignment explanation
Indices: 58995786--58996063 Score: 360
Period size: 27 Copynumber: 10.3 Consensus size: 27
58995776 GGGGCAAAAT
* * * *
58995786 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58995813 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * * *
58995840 GATATTTTTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58995867 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58995894 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58995921 AGTAATTCTACCCTA-TGAGGGTATTTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
*
58995948 GGTAATTCAACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58995975 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58996002 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58996029 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58996056 GGTAATTC
1 GGTAATTC
58996064 AACAAACCAG
Statistics
Matches: 222, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 220 0.99
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:58996097 original size:27 final size:27
Alignment explanation
Indices: 58996047--58996143 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
58996037 TACCCTACAA
* **
58996047 GGGTATTTCGGTAATTCAACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
58996074 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
58996101 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
58996128 AGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
58996144 CGGTAAACTA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:58996105 original size:81 final size:79
Alignment explanation
Indices: 58995787--58996116 Score: 290
Period size: 81 Copynumber: 4.1 Consensus size: 79
58995777 GGGCAAAATG
* * * * * * * *
58995787 GTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGATATTTT-TAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTATAA
*
58995851 CTTACAAGGGTATTTTA
66 C---CAAGGGTATTTCA
* * * *
58995868 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTA-ATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTATAA
*
58995932 CCTATGAGGGTATTTCG
66 CC-A--AGGGTATTTCA
* * * * *
58995949 GTAATTCAACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTA-ATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTATAA
58996013 CCTACAGGGGTATTTCA
66 CC-A-A-GGGTATTTCA
* * * ** *
58996030 GTAATTCTACCCTACAAGGGTATTTCGGTAATTC-AACAAACCAGGGGTATTTTGGTGATTTTAT
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA-CAGGGGTATTTCGGT-ATTTTAT
*
58996094 AAACCAAGGGTATTTTA
64 -AACCAAGGGTATTTCA
58996111 GTAATT
1 GTAATT
58996117 TTACAAACCA
Statistics
Matches: 212, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 6 0.03
81 195 0.92
82 2 0.01
83 4 0.02
84 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (79 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTATAA
CCAAGGGTATTTCA
Found at i:58996151 original size:54 final size:54
Alignment explanation
Indices: 58996044--58996151 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
58996034 TTCTACCCTA
* * * **
58996044 CAAGGGTATTTCGGTAATTCAACAAACCAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTCAGTAATTCAACAAACCAGAGGTATTTTGGTAATTCGATAAAC
* ** *
58996098 CAAGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGTAATTCGGTAAAC
1 CAAGGGTATTTCAGTAATTCAACAAACCAGAGGTATTTTGGTAATTCGATAAAC
58996152 TAAAGTATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTCAACAAACCAGAGGTATTTTGGTAATTCGATAAAC
Found at i:58999027 original size:47 final size:47
Alignment explanation
Indices: 58998942--58999118 Score: 189
Period size: 47 Copynumber: 3.8 Consensus size: 47
58998932 AGGATTTTAT
* *
58998942 ATGTATATATGCGATAAGGCAG-ATGGCCAATGTGATGAATATGAGC
1 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAGC
* *
58998988 ATGTATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAAC
1 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAGC
* * * *
58999035 ATGCATATATGTGATAAGGCTGAATGGCTAATGTGA--AATATGTATGAG
1 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATG-A-G-C
* * * * *
58999083 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGA
58999119 AATATATATA
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
45 6 0.05
46 20 0.18
47 55 0.50
48 30 0.27
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (47 bp):
ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAGC
Found at i:58999147 original size:50 final size:48
Alignment explanation
Indices: 58999040--58999224 Score: 289
Period size: 48 Copynumber: 3.8 Consensus size: 48
58999030 TGAACATGCA
* * *
58999040 TATATGTGATAAGGCTGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
58999088 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
* *
58999138 TAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
58999186 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
58999225 GGCAATGTGC
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 80 0.63
49 4 0.03
50 43 0.34
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:58999421 original size:37 final size:37
Alignment explanation
Indices: 58999371--58999478 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
58999361 GGAAATATAT
58999371 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
58999408 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58999445 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
58999479 TCGTCTGAGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59001201 original size:46 final size:46
Alignment explanation
Indices: 59001148--59001316 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
59001138 GCATCCGAAG
* ** *
59001148 TCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATGTTTGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
* * * *
59001194 TCGTTGAGTTGAGTCCGTGTTC-GTGA--GATG-TAACTAGGCATCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAGC
* *
59001241 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
59001287 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
59001317 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 57 0.56
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
Found at i:59001297 original size:93 final size:93
Alignment explanation
Indices: 59001138--59001308 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
59001128 GGATGGTTGA
* * ***
59001138 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATGTTTGAACTCGTTGAGT
1 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
59001203 TGAGTCCGTGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59001231 GCATCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAAG-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59001295 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
59001309 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59008507 original size:12 final size:12
Alignment explanation
Indices: 59008490--59008516 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59008480 ATTCCGAAGT
59008490 ATATATATATAC
1 ATATATATATAC
59008502 ATATATATATAC
1 ATATATATATAC
59008514 ATA
1 ATA
59008517 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:59009027 original size:27 final size:27
Alignment explanation
Indices: 59008996--59009173 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59008986 TAAATTGTAC
59008996 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59009023 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59009049 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59009077 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59009105 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59009132 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59009159 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59009174 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59009110 original size:82 final size:81
Alignment explanation
Indices: 59008997--59009152 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59008987 AAATTGTACA
* *
59008997 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59009061 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59009078 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59009143 TGCGAGTTGA
65 TGCGAATTGA
59009153 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59009164 original size:82 final size:81
Alignment explanation
Indices: 59008993--59009173 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59008983 GATTAAATTG
* *
59008993 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59009058 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59009074 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59009138 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59009156 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59009174 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59012311 original size:13 final size:13
Alignment explanation
Indices: 59012293--59012317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59012283 GAATTGATAT
59012293 GTGTGAAAATTTC
1 GTGTGAAAATTTC
59012306 GTGTGAAAATTT
1 GTGTGAAAATTT
59012318 TATTGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:59013477 original size:44 final size:44
Alignment explanation
Indices: 59013429--59013593 Score: 155
Period size: 44 Copynumber: 3.8 Consensus size: 44
59013419 GGTTCCAATT
*
59013429 TGTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGGTT
1 TGTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGGTA
* * *
59013473 TGTGATTTATGTGTAAGACCATGT-TCGGGACATCGGCATC-GTA
1 TGTGATTTACGTGTAAGACCACGTCT-GGGACATTGGCATCGGTA
* * * *
59013516 TATAAATTT--GTGTAAGACTCTA--TCTGGGACAGTGGCATCGATA
1 TGT-GATTTACGTGTAAGAC-C-ACGTCTGGGACATTGGCATCGGTA
* *
59013559 TGTGA-TTACATGTAAGACCACGTCTGGGACGTTGG
1 TGTGATTTACGTGTAAGACCACGTCTGGGACATTGG
59013594 TGTTGTACAA
Statistics
Matches: 97, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
41 3 0.03
42 24 0.25
43 30 0.31
44 40 0.41
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGGTA
Found at i:59013763 original size:31 final size:31
Alignment explanation
Indices: 59013728--59013790 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
59013718 ATTATGAAAG
*
59013728 TAAGGTAAGTAAAGTACTTGTAATTAAGATA
1 TAAGGTAAGTAAAGTACTTGTAATGAAGATA
59013759 TAAGGTAAGTAAAGTACTTGTAATGAAGATA
1 TAAGGTAAGTAAAGTACTTGTAATGAAGATA
59013790 T
1 T
59013791 GAAATATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (31 bp):
TAAGGTAAGTAAAGTACTTGTAATGAAGATA
Found at i:59023192 original size:13 final size:13
Alignment explanation
Indices: 59023176--59023200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59023166 TTAAATTAGT
59023176 TAATTAGTTTAAA
1 TAATTAGTTTAAA
59023189 TAATTAGTTTAA
1 TAATTAGTTTAA
59023201 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:59038447 original size:27 final size:27
Alignment explanation
Indices: 59038291--59038446 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
59038281 ATTACCAAAG
* * *
59038291 TACCCCCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTATAGAATTACCGTTT
* *
59038318 TACCCTCGATTTTTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
59038345 TACCCTCGATTTTTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
59038372 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
59038399 TACCCTCG-TTTATAAAATTACTGTTC
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
59038425 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
59038447 TAAAATACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 22 0.19
27 94 0.81
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:59038464 original size:81 final size:81
Alignment explanation
Indices: 59038273--59038474 Score: 208
Period size: 81 Copynumber: 2.5 Consensus size: 81
59038263 AATACTTTAG
* * * * *
59038273 TTTACCAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTCTACCCTCGATTTTTAGAATT
1 TTTACAAAATTACCAAAATACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTATAAAATT
* *
59038338 ACCATTTTACCCTCGA
66 ACCATTCTACCCTCAA
** * *** * *
59038354 TTTTTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCG-TTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTATAAAATT
**
59038418 ACTGTTCTACCCTCAA
66 ACCATTCTACCCTCAA
* * *
59038434 TTTACAAAATTACTAAAATACCCCCTGATTTGTAAAATTAC
1 TTTACAAAATTACCAAAATACCCCC-GATTTATAGAATTAC
59038475 TAAAATACCC
Statistics
Matches: 94, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
80 38 0.40
81 56 0.60
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTATAAAATT
ACCATTCTACCCTCAA
Found at i:59038473 original size:28 final size:28
Alignment explanation
Indices: 59038439--59038527 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
59038429 CTCAATTTAC
*
59038439 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCACTGATTTGT
59038467 AAAATTACTAAAATACCCACTGATTTGT
1 AAAATTACTAAAATACCCACTGATTTGT
* *
59038495 AAAATTACTGAAATA-CCA-TCGACTTGT
1 AAAATTACTAAAATACCCACT-GATTTGT
59038522 AAAATT
1 AAAATT
59038528 TACCAAAGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.02
27 15 0.26
28 41 0.72
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAATTACTAAAATACCCACTGATTTGT
Found at i:59038575 original size:27 final size:27
Alignment explanation
Indices: 59038536--59038627 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
59038526 TTTACCAAAG
* * * *
59038536 TACCCTCGGTTTATAAAATTATTGTTT
1 TACCCTTGATTTACAAAATTACTGTTT
*
59038563 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGTTT
**
59038590 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTTGATTTACAAAATTACTGTTT
*
59038617 TACCCTCGATT
1 TACCCTTGATT
59038628 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGTTT
Found at i:59038762 original size:27 final size:27
Alignment explanation
Indices: 59038659--59038809 Score: 119
Period size: 27 Copynumber: 5.6 Consensus size: 27
59038649 TATAGGGTAG
*
59038659 AATTACCAAAACACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTCA-TTTGTAA
* * ** *
59038686 AATTATCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTCATTTGTAA
*
59038713 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCTC-ATTTGTAA
**
59038740 AATTACCAAAATACCCCTCATTTACAA
1 AATTACCAAAATACCCCTCATTTGTAA
* * * *
59038767 AATTA-GAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAATACCCCTCATTTGTAA
* *
59038794 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
59038810 TTGTAGGATG
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
26 4 0.04
27 86 0.90
28 6 0.06
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTCATTTGTAA
Found at i:59038770 original size:54 final size:54
Alignment explanation
Indices: 59038679--59038809 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
59038669 ACACCCCTAG
* * ** *** *
59038679 TTTGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTCATTTACAAAATTACAGAAATACCCTCAA
* **
59038733 TTTGTAAAATTACCAAAATACCCCTCATTTACAAAATTAGAGAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCCTCATTTACAAAATTACAGAAATACCCTCAA
* * *
59038787 TTTGTAGATTTACCAAAACACCC
1 TTTGTAAAATTACCAAAATACCC
59038810 TTGTAGGATG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTCATTTACAAAATTACAGAAATACCCTCAA
Found at i:59038873 original size:27 final size:27
Alignment explanation
Indices: 59038830--59038903 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
59038820 AAATGACTAA
*
59038830 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
59038857 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
59038884 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
59038904 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:59039639 original size:20 final size:20
Alignment explanation
Indices: 59039614--59039680 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
59039604 GATATGATAT
*
59039614 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
59039634 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
59039654 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
59039674 ACATGAT
1 ACATGAT
59039681 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:59039830 original size:25 final size:26
Alignment explanation
Indices: 59039730--59039866 Score: 192
Period size: 26 Copynumber: 5.3 Consensus size: 26
59039720 GAGGAAGTGC
*
59039730 AAAAGGGCTTATGCCCCAGTTTTTTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
59039756 AAAAAGGGCTTATGCCCCAGTTTATCG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
59039783 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
59039809 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
59039834 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
59039857 AAAAGAGGCT
1 AAAAG-GGCT
59039867 AGGCCTCTAG
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
23 5 0.05
24 8 0.08
25 31 0.30
26 34 0.33
27 24 0.24
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:59040058 original size:42 final size:42
Alignment explanation
Indices: 59039999--59040090 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
59039989 TAGTCTCCCC
* ** *
59039999 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
59040041 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
59040083 AAATGGGC
1 AAATGGGC
59040091 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:59042502 original size:53 final size:54
Alignment explanation
Indices: 59042415--59042519 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 54
59042405 GCTGATTTAC
* *
59042415 AGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTTT
1 AGAATTACCATTCTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTTT
*
59042469 AGAATTACCATT-TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTT
1 AGAATTACCATTCTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTT
59042520 CTAAAATTGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 37 0.77
54 11 0.23
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
AGAATTACCATTCTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTTT
Found at i:59042527 original size:27 final size:27
Alignment explanation
Indices: 59042408--59042519 Score: 163
Period size: 27 Copynumber: 4.2 Consensus size: 27
59042398 AAGTACCGCT
* *
59042408 GATTTACAGAATTACCGTTCTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
*
59042435 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
* *
59042462 GATTTTTAGAATTACC-ATTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
59042488 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
*
59042515 AATTT
1 GATTT
59042520 CTAAAATTGC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
26 24 0.32
27 52 0.68
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
GATTTATAGAATTACCGTTTTACCCTC
Found at i:59042538 original size:27 final size:28
Alignment explanation
Indices: 59042508--59042892 Score: 165
Period size: 27 Copynumber: 14.2 Consensus size: 28
59042498 ATTACCGTTT
* * *
59042508 TACCCTC-AATTTCTAAAATTGCTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
*
59042535 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
*
59042562 TACCCCCTGATTTGTAAAATTACTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* * *
59042590 TACCCTC-GACTTGTAAAAATTACCAAAG
1 TACCCTCTGATTTGT-AAAATTACTAAAA
* * ***
59042618 TACCCTC-GGTTTATAAAATTACTATTT
1 TACCCTCTGATTTGTAAAATTACTAAAA
* * * * ****
59042645 TACCCT-TCATTTATAGAATTATTGTTT
1 TACCCTCTGATTTGTAAAATTACTAAAA
* ** *****
59042672 TACCCT-TTATTTACAAAATTACCGTTT
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
59042699 TACCCTC-GA-TTGTGAAATTACTGAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
** * *
59042725 TACCC-CT-ATAGGGTAGAATTACAAAAA
1 TACCCTCTGAT-TTGTAAAATTACTAAAA
* *
59042752 CACCC-CT-AGTTTGTAAAATTACCAAAA
1 TACCCTCTGA-TTTGTAAAATTACTAAAA
* * * *
59042779 TA-CCACTGGTTTGTGAAATTACTGAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
59042806 TACCCTC-AATTTGTAAAATTACCAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
**
59042833 TACCCT-TGATTTACAAAATTAC-AGAAA
1 TACCCTCTGATTTGTAAAATTACTA-AAA
* * * *
59042860 TACCAT-TGATTTGTAGATTTACCAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
*
59042887 CACCCT
1 TACCCT
59042893 TGTAGGATGA
Statistics
Matches: 277, Mismatches: 66, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
25 2 0.01
26 19 0.07
27 202 0.73
28 54 0.19
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (28 bp):
TACCCTCTGATTTGTAAAATTACTAAAA
Found at i:59042577 original size:28 final size:27
Alignment explanation
Indices: 59042516--59042641 Score: 135
Period size: 28 Copynumber: 4.6 Consensus size: 27
59042506 TTTACCCTCA
* * *
59042516 ATTTCTAAAATTGCTAAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCCCG
*
59042543 GTTTGTAAAATTACTAAAATACCCCCTG
1 ATTTGTAAAATTACTAAAATACCCCC-G
*
59042571 ATTTGTAAAATTACTAAAATACCCTCG
1 ATTTGTAAAATTACTAAAATACCCCCG
* * * *
59042598 ACTTGTAAAAATTACCAAAGTACCCTCG
1 ATTTGT-AAAATTACTAAAATACCCCCG
* *
59042626 GTTTATAAAATTACTA
1 ATTTGTAAAATTACTA
59042642 TTTTACCCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 37 0.44
28 47 0.56
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCCCG
Found at i:59042650 original size:55 final size:55
Alignment explanation
Indices: 59042516--59042641 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
59042506 TTTACCCTCA
* * ** *
59042516 ATTTCTAAAATTGCTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTG
1 ATTTATAAAATTACTAAAATACCCTC-GACTTGTAAAATTACCAAAATACCCCCTG
* * *
59042571 ATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAAATTACCAAAGTACCCTC-G
1 ATTTATAAAATTACTAAAATACCCTCGACTTGT-AAAATTACCAAAATACCCCCTG
*
59042626 GTTTATAAAATTACTA
1 ATTTATAAAATTACTA
59042642 TTTTACCCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
55 42 0.70
56 18 0.30
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (55 bp):
ATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCCTG
Found at i:59042864 original size:81 final size:80
Alignment explanation
Indices: 59042522--59042863 Score: 212
Period size: 81 Copynumber: 4.2 Consensus size: 80
59042512 CTCAATTTCT
* * * *
59042522 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTAAAATTACTA
1 AAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTGAAATA--CCCTCATTTGTAAAATTACTA
*
59042587 AAATACCCTCGACTTGTA-
63 AAATACCCTTGACTT-TAC
* * ** * * * *
59042605 AAAATTACCAAAGTACCCTCGGTTTATAAAATTACT-ATTTTACCCTTCATTTATAGAATTATTG
1 AAAATTACCAAAATACCCT-GGTTTGTAAAATTACTGA-AATACCC-TCATTTGTAAAATTACTA
*** *
59042669 TTTTACCCTTTA-TTTAC
63 AAATACCCTTGACTTTAC
**** * * * ** * *
59042686 AAAATTACCGTTTTACCCTCGATTGTGAAATTACTGAAATACCC-CTATAGGGTAGAATTACAAA
1 AAAATTACCAAAATACCCTGGTTTGTAAAATTACTGAAATACCCTC-AT-TTGTAAAATTACTAA
* * * **
59042750 AACACCCCT-AGTTTGT
64 AATACCCTTGACTTTAC
* *
59042766 AAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACC-CTGGTTTGTAAAATTACTGAAATACCCTC-ATTTGTAAAATTACTAA
59042831 AATACCCTTGA-TTTAC
64 AATACCCTTGACTTTAC
59042847 AAAATTA-CAGAAATACC
1 AAAATTACCA-AAATACC
59042864 ATTGATTTGT
Statistics
Matches: 193, Mismatches: 54, Indels: 26
0.71 0.20 0.10
Matches are distributed among these distances:
78 1 0.01
79 3 0.02
80 50 0.26
81 81 0.42
82 29 0.15
83 29 0.15
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGGTTTGTAAAATTACTGAAATACCCTCATTTGTAAAATTACTAAAA
TACCCTTGACTTTAC
Found at i:59043715 original size:20 final size:20
Alignment explanation
Indices: 59043690--59043756 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
59043680 GATATGATAT
*
59043690 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
59043710 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
59043730 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
*
59043750 ATATGAT
1 ACATGAT
59043757 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:59043754 original size:11 final size:11
Alignment explanation
Indices: 59043699--59043756 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
59043689 TACATGATTG
59043699 ATATGATATGC
1 ATATGATATGC
*
59043710 ACATGATATG-
1 ATATGATATGC
*
59043720 -TATGAAATGC
1 ATATGATATGC
*
59043730 ACATGATATG-
1 ATATGATATGC
*
59043740 -TATGAAATGC
1 ATATGATATGC
59043750 ATATGAT
1 ATATGAT
59043757 GTATTCATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
9 14 0.40
11 21 0.60
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (11 bp):
ATATGATATGC
Found at i:59043838 original size:26 final size:26
Alignment explanation
Indices: 59043806--59043928 Score: 144
Period size: 26 Copynumber: 4.8 Consensus size: 26
59043796 GAGGAAGTGC
*
59043806 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * * *
59043832 CAAAGGGATTATGCCCGAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
59043858 AAAAGGGCTTATGCCCCAGTTTCTTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
59043884 AAAAGGGCTT-TGCCCCAATTTA-CG
1 AAAAGGGCTTATGCCCCAGTTTATCG
59043908 AAAAAGGGCTT-TGCCCCAGTT
1 -AAAAGGGCTTATGCCCCAGTT
59043929 ATTAAAAGAG
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
24 1 0.01
25 29 0.36
26 51 0.63
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:59043889 original size:52 final size:51
Alignment explanation
Indices: 59043806--59043936 Score: 171
Period size: 52 Copynumber: 2.6 Consensus size: 51
59043796 GAGGAAGTGC
* * *
59043806 AAAAGGGCTTATGCCCCAGTTTATTGCAAAGGGATTATGCCCGAGTTTACCG-
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATT-TGCCCCAATTTA-CGA
* *
59043858 AAAAGGGCTTATGCCCCAGTTTCTTGAAAAGGGCTTTGCCCCAATTTACGA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACGA
59043909 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
59043937 AGGCTAGGCC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
48 5 0.07
49 4 0.06
50 10 0.14
51 20 0.28
52 33 0.46
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACGA
Found at i:59044132 original size:42 final size:42
Alignment explanation
Indices: 59044073--59044164 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
59044063 TAGTCTCCCC
* ** *
59044073 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
59044115 AAATGGGCTTGCATACATCCATTGACATTACTTGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
59044157 AAATGGGC
1 AAATGGGC
59044165 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:59059171 original size:27 final size:27
Alignment explanation
Indices: 59059141--59059194 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
59059131 TGAATACATA
59059141 TAGATCAAGAAAAGAGGAATTCAGATT
1 TAGATCAAGAAAAGAGGAATTCAGATT
59059168 TAGATCAAGAAAAGAGGAATTCAGATT
1 TAGATCAAGAAAAGAGGAATTCAGATT
59059195 AAAGCACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGATCAAGAAAAGAGGAATTCAGATT
Found at i:59061374 original size:39 final size:38
Alignment explanation
Indices: 59061326--59061417 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
59061316 TAAGGTTTCA
* *
59061326 TAGACTATGACATAACTAAAATCCCTTATTAAAGATGTT
1 TAGATTATGACATAACTAAAA-CCCATATTAAAGATGTT
* * * *
59061365 TAGATTATGACTTAATTAAAACTCATATTAATGATGTT
1 TAGATTATGACATAACTAAAACCCATATTAAAGATGTT
*
59061403 TAAATTATGACATAA
1 TAGATTATGACATAA
59061418 TCAATGACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 27 0.60
39 18 0.40
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (38 bp):
TAGATTATGACATAACTAAAACCCATATTAAAGATGTT
Found at i:59068345 original size:15 final size:14
Alignment explanation
Indices: 59068327--59068356 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
59068317 TTTCTTTTTC
59068327 TTCTCTCATTCTTAT
1 TTCTCTCATT-TTAT
59068342 TTCTCTCATTTTAT
1 TTCTCTCATTTTAT
59068356 T
1 T
59068357 CGTTTCCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTCTCATTTTAT
Found at i:59072758 original size:20 final size:20
Alignment explanation
Indices: 59072735--59072773 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59072725 TTTTGTTCAG
* *
59072735 TTTATGATGATTTTTAAGTT
1 TTTATGATCATTGTTAAGTT
59072755 TTTATGATCATTGTTAAGT
1 TTTATGATCATTGTTAAGT
59072774 GTTCTAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (20 bp):
TTTATGATCATTGTTAAGTT
Found at i:59079130 original size:40 final size:40
Alignment explanation
Indices: 59079071--59079258 Score: 297
Period size: 40 Copynumber: 4.7 Consensus size: 40
59079061 GAGCATTGGA
** *
59079071 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
*
59079111 ATATATCCGGGCTATGACCCGAAGGCAATTATA-AGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATACA-AGTTG
*
59079151 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
59079191 ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
* *
59079231 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
59079259 ATGTGTTTGC
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
Found at i:59089284 original size:40 final size:39
Alignment explanation
Indices: 59089201--59089384 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
59089191 TTGAATGATG
* * * *
59089201 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59089240 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
59089280 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
59089319 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
59089360 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
59089385 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 46 0.37
40 71 0.56
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59089336 original size:79 final size:80
Alignment explanation
Indices: 59089201--59089384 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
59089191 TTGAATGATG
* * *
59089201 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
59089265 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * *
59089279 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
59089342 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
59089359 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
59089385 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 68 0.75
80 22 0.24
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:59089415 original size:79 final size:79
Alignment explanation
Indices: 59089239--59089417 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
59089229 AAGTGACCAT
* * *
59089239 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGGCTAA-ATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
**
59089303 TGTGCGAGTTACTAA
65 TGAACGAGTTACTAA
* * * *
59089318 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGGCTAAATTCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
59089382 TTGAACGAG-TAGCTAT
64 TTGAACGAGTTA-CTAA
*
59089398 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAATTCCGAAGG
59089418 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.67
80 25 0.30
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATCCGGGCTAAATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTT
GAACGAGTTACTAA
Found at i:59093810 original size:26 final size:26
Alignment explanation
Indices: 59093773--59093824 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
59093763 TATCCGACCC
59093773 ATGATCTCGAACTAGCCGCCATCGTA
1 ATGATCTCGAACTAGCCGCCATCGTA
* *
59093799 ATGATCTTGAACTAGCTGCCATCGTA
1 ATGATCTCGAACTAGCCGCCATCGTA
59093825 TTTGCTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (26 bp):
ATGATCTCGAACTAGCCGCCATCGTA
Found at i:59094521 original size:153 final size:153
Alignment explanation
Indices: 59094238--59094540 Score: 444
Period size: 153 Copynumber: 2.0 Consensus size: 153
59094228 TGAGGTTCAG
* * *
59094238 AAGTTGTTTGTGTGTTCCAAGGAATTCGGAACTCATTTCGATGATTCTGAACGAAGCCCATTGTA
1 AAGTCGTTTGTGTGTTCCAAGGAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATAGTA
* * *
59094303 GCCGAATGTCAATTCACCCGGGGAGTACGAAAATGTACAACGATTTGAAACGTCAGTTTTGGTGG
66 GCCGAATGTCAATCCACCCGGGGAGTACGAAAATGTACAACGATCTGAAACGTCAATTTTGGTGG
* *
59094368 CATGGTATGAAACGAGACATCTA
131 CAGGGCATGAAACGAGACATCTA
* * * * * *
59094391 AAGTCGTTTGTGTGTTCCAAGGAATTCAGAACTTATTTCGATGATTTTGAATGAGGCTCATAGTG
1 AAGTCGTTTGTGTGTTCCAAGGAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATAGTA
* * *
59094456 GCCGAATGTCTATCCACCCGGGTAGTACTAAAATGTACAACGATCTGAAACGTCAATTTTGGTGG
66 GCCGAATGTCAATCCACCCGGGGAGTACGAAAATGTACAACGATCTGAAACGTCAATTTTGGTGG
*
59094521 CCGGGCATGAAACGAGACAT
131 CAGGGCATGAAACGAGACAT
59094541 TTCTGAATTT
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 132 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (153 bp):
AAGTCGTTTGTGTGTTCCAAGGAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATAGTA
GCCGAATGTCAATCCACCCGGGGAGTACGAAAATGTACAACGATCTGAAACGTCAATTTTGGTGG
CAGGGCATGAAACGAGACATCTA
Found at i:59095792 original size:28 final size:28
Alignment explanation
Indices: 59095742--59095795 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
59095732 GAATTCTACT
***
59095742 TATAAAATAGTCCTGGTGGACTTCCACA
1 TATAAAATAGTCCTGGCAAACTTCCACA
*
59095770 TATAAAATAGTCTTGGCAAACTTCCA
1 TATAAAATAGTCCTGGCAAACTTCCA
59095796 TATCTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (28 bp):
TATAAAATAGTCCTGGCAAACTTCCACA
Found at i:59103269 original size:20 final size:20
Alignment explanation
Indices: 59103244--59103289 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59103234 ATTGGGCCTT
59103244 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
59103264 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
59103283 GCCCATA
1 GCCCATA
59103290 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:59103298 original size:19 final size:20
Alignment explanation
Indices: 59103256--59103299 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
59103246 CCATATTAAC
** *
59103256 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
59103276 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
59103295 ACAGT
1 ACAGT
59103300 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:59110140 original size:5 final size:5
Alignment explanation
Indices: 59110126--59110197 Score: 54
Period size: 5 Copynumber: 14.4 Consensus size: 5
59110116 TGTAAAGATT
* * * * * * * *
59110126 ATATC TTATC ATATC ATAAC ATATT GTAGC ATATC ATATC ATATT GTAAC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
* *
59110176 ATAGC ATATC ATATT ATATC AT
1 ATATC ATATC ATATC ATATC AT
59110198 GTCCTGCCCT
Statistics
Matches: 48, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:59110158 original size:20 final size:20
Alignment explanation
Indices: 59110135--59110190 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
59110125 TATATCTTAT
* *
59110135 CATATCATAACATATTGTAG
1 CATATCATATCATATTGTAA
59110155 CATATCATATCATATTGTAA
1 CATATCATATCATATTGTAA
*
59110175 CATAGCATATCATATT
1 CATATCATATCATATT
59110191 ATATCATGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (20 bp):
CATATCATATCATATTGTAA
Found at i:59110441 original size:7 final size:7
Alignment explanation
Indices: 59110429--59110478 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
59110419 GCATATTATA
59110429 ATCATAT
1 ATCATAT
59110436 ATCATAT
1 ATCATAT
59110443 ATCATACAT
1 ATCAT--AT
*
59110452 AT-TTAT
1 ATCATAT
59110458 ATCATAT
1 ATCATAT
59110465 ATCATAT
1 ATCATAT
59110472 ATCATAT
1 ATCATAT
59110479 GGCATGCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 4 0.11
7 29 0.76
8 1 0.03
9 4 0.11
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (7 bp):
ATCATAT
Found at i:59110452 original size:29 final size:29
Alignment explanation
Indices: 59110420--59110477 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
59110410 AAAACACATG
59110420 CATA-TTATAATCATATATCATATATCATA
1 CATATTTAT-ATCATATATCATATATCATA
59110449 CATATTTATATCATATATCATATATCATA
1 CATATTTATATCATATATCATATATCATA
59110478 TGGCATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (29 bp):
CATATTTATATCATATATCATATATCATA
Found at i:59112712 original size:14 final size:15
Alignment explanation
Indices: 59112637--59113450 Score: 424
Period size: 19 Copynumber: 45.5 Consensus size: 15
59112627 AATCTTCAAT
59112637 GATATG-CAATCTTA
1 GATATGACAATCTTA
59112651 GATATGAGATGCAATCTTA
1 GATAT--GA--CAATCTTA
59112670 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112688 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112707 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112724 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112742 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112761 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112778 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112796 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112815 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112832 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112850 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112869 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112886 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112904 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112923 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112940 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59112958 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59112977 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59112994 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113012 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113031 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113048 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113066 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113085 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113102 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113120 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113139 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113156 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113174 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113193 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113210 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113228 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113247 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113264 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113282 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113301 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113318 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113336 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113355 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113372 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113390 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
59113409 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59113426 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
59113444 GATATGA
1 GATATGA
59113451 TATGCAATCT
Statistics
Matches: 724, Mismatches: 0, Indels: 148
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.01
15 14 0.02
16 1 0.00
17 198 0.27
18 213 0.29
19 279 0.39
20 14 0.02
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:59112725 original size:54 final size:54
Alignment explanation
Indices: 59112635--59113464 Score: 1633
Period size: 54 Copynumber: 15.3 Consensus size: 54
59112625 ATAATCTTCA
*
59112635 ATGATATGCAATCTTAGATATGAGATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATAT--GATACAATCTTAGATATGATTGCAATCTTAGAT
59112691 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59112745 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59112799 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59112853 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59112907 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59112961 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113015 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113069 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113123 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113177 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113231 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113285 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113339 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113393 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
59113447 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
59113465 AGATATGATT
Statistics
Matches: 773, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
54 752 0.97
56 21 0.03
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
Found at i:59116525 original size:40 final size:40
Alignment explanation
Indices: 59116479--59116662 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
59116469 GCTCCTCGTT
* *
59116479 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* *
59116519 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
*
59116559 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
* * *
59116598 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-AATTCGCA
*
59116639 C-AA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59116663 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 47 0.38
40 66 0.53
41 7 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:59116623 original size:79 final size:80
Alignment explanation
Indices: 59116479--59116662 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
59116469 GCTCCTCGTT
* **
59116479 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
59116544 AT-TTAGTAAC-TCGCA
65 ATATT-GTAACTTAGCA
**
59116559 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
*
59116622 GATATTGTCACTTAGCA
64 GATATTGTAACTTAGCA
*
59116639 C-AA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCG-GGCTTAGCCCGGA
59116663 CATCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 12 0.13
79 58 0.64
80 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATTGTAACTTAGCA
Found at i:59117964 original size:11 final size:11
Alignment explanation
Indices: 59117948--59117972 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59117938 CCTCACTAGG
59117948 CCAACATGTTT
1 CCAACATGTTT
59117959 CCAACATGTTT
1 CCAACATGTTT
59117970 CCA
1 CCA
59117973 CCCATAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (11 bp):
CCAACATGTTT
Found at i:59122259 original size:24 final size:24
Alignment explanation
Indices: 59122231--59122284 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
59122221 CTATTTCAAA
59122231 AAAAAGGAAAA-AAAAAGAAAAAGAG
1 AAAAA-GAAAATAAAAAGAAAAA-AG
*
59122256 AAAAATAAAATAAAAAGAAAAAAG
1 AAAAAGAAAATAAAAAGAAAAAAG
59122280 AAAAA
1 AAAAA
59122285 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAATAAAAAGAAAAAAG
Found at i:59122260 original size:19 final size:18
Alignment explanation
Indices: 59122238--59122284 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
59122228 AAAAAAAAGG
59122238 AAAAAAAAAGAAAAAGAGA
1 AAAAAAAAAGAAAAAGA-A
* *
59122257 AAAATAAAATAAAAAGAA
1 AAAAAAAAAGAAAAAGAA
59122275 AAAAGAAAAA
1 AAAA-AAAAA
59122285 ATGGAGAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAGAA
Found at i:59122286 original size:25 final size:24
Alignment explanation
Indices: 59122238--59122284 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
59122228 AAAAAAAAGG
59122238 AAAAAAAAAGAAAAAGAGAAAAAT
1 AAAAAAAAAGAAAAAGAGAAAAAT
59122262 AAAATAAAAAGAAAAA-AGAAAAA
1 AAAA-AAAAAGAAAAAGAGAAAAA
59122285 ATGGAGAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAGAGAAAAAT
Found at i:59123771 original size:46 final size:46
Alignment explanation
Indices: 59123721--59123893 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
59123711 TGGTTGAGCA
* *
59123721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
59123767 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
59123814 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
59123860 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59123894 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:59123877 original size:93 final size:93
Alignment explanation
Indices: 59123718--59123888 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
59123708 GGATGGTTGA
* * *
59123718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59123783 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
59123811 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59123876 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59123889 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59125632 original size:44 final size:44
Alignment explanation
Indices: 59125575--59125917 Score: 328
Period size: 44 Copynumber: 7.8 Consensus size: 44
59125565 GATCCAAGAT
* * *
59125575 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
*
59125619 GATTTGGCATCTCTGTATTGGT-AGAGAGCAGATCGAAAATAACA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGATAACA
* * **
59125663 GATTTGGCATCTCTGTATTGGT-AGGGAGCAAATCGAAGACATAATT
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAG--ATAACA
* * * * *
59125709 GATTTGGCTTTCACATGT-TT-ACATTGA-AGCAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATTGTCA--GAGAGCAGATCGAAGATAACA
* *
59125750 GATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* * *
59125794 GATTTGGCATCTCTGTATTGGCAGAGAGCATATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* * *
59125838 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* *
59125882 GATTTGGCGTCTCTGTATTGGT-AGGGAGCAGATCGA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGA
59125918 GGACATAGCT
Statistics
Matches: 252, Mismatches: 31, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
39 5 0.02
40 17 0.07
41 10 0.04
44 182 0.72
45 5 0.02
46 13 0.05
47 16 0.06
48 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
Found at i:59125957 original size:219 final size:219
Alignment explanation
Indices: 59125575--59126007 Score: 641
Period size: 219 Copynumber: 2.0 Consensus size: 219
59125565 GATCCAAGAT
* * * * *
59125575 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGG
* *
59125640 TAGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTATTGGTAGGGAGCAAATCGAAGACAT
66 CAGAGAGCAGATCGAAAACAACAGATTTGGCATCTCTGTATTGGTAGGGAGCAAATCGAAGACAT
* ***
59125705 AATTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTA
131 AACTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCCAAGATGATCAAGCGTCTCTGTATTA
*
59125770 TCAGAGAGCAGATCGAAGATAACA
196 GCAGAGAGCAGATCGAAGATAACA
*
59125794 GATTTGGCATCTCTGTATTGGCAGAGAGCATATCAAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGG
* * * * *
59125859 CAGAGAGCAGATCGAAGACAGCAGATTTGGCGTCTCTGTATTGGTAGGGAGCAGATCGAGGACAT
66 CAGAGAGCAGATCGAAAACAACAGATTTGGCATCTCTGTATTGGTAGGGAGCAAATCGAAGACAT
* ** * *
59125924 AGCTGATTTGGCTTTCACATGTTTATGTTGAAGCAAATCTAAGATGATCAAGCGTCTCTGTATTG
131 AACTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCCAAGATGATCAAGCGTCTCTGTATTA
* *
59125989 GCAGGGAGCAGATTGAAGA
196 GCAGAGAGCAGATCGAAGA
59126008 CATAGCTGAT
Statistics
Matches: 189, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
219 189 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (219 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAAACAACAGATTTGGCATCTCTGTATTGGTAGGGAGCAAATCGAAGACAT
AACTGATTTGGCTTTCACATGTTTACATTGAAGCAAATCCAAGATGATCAAGCGTCTCTGTATTA
GCAGAGAGCAGATCGAAGATAACA
Found at i:59125995 original size:87 final size:87
Alignment explanation
Indices: 59125882--59126246 Score: 559
Period size: 87 Copynumber: 4.2 Consensus size: 87
59125872 GAAGACAGCA
* * *
59125882 GATTTGGCGTCTCTGTATTGGTAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACATGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
59125947 TATGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
*** * *
59125969 GATCAAGCGTCTCTGTATTGGCAGGGAGCAGATTGAAGACATAGCTGATTTTGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
* *
59126034 TACATTGAAGCAAACCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
59126056 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAGGACATAGCTAATTTGGTTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
59126121 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
59126143 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGCGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
59126208 TACGCTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
*
59126230 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
59126247 CTGTCAGAGA
Statistics
Matches: 248, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 248 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (87 bp):
GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:59126410 original size:78 final size:78
Alignment explanation
Indices: 59126273--59126645 Score: 518
Period size: 78 Copynumber: 4.8 Consensus size: 78
59126263 CGAAGAAACA
** * * * * ** *
59126273 GATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACACAGCAGATCT-GATCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTGA
*
59126337 AGCAGATCCAATAT
65 AGCAGATCCAAGAT
* *
59126351 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGAAATAATAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGATTGGACCTTCATTGAA
59126416 GCAGATCCAAGAT
66 GCAGATCCAAGAT
59126429 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGATTGGACCTTCATTGAA
59126494 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* ** * *
59126507 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-AATCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTGA
59126571 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* **
59126585 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCT-GACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCAT
59126646 GTGTTTACAT
Statistics
Matches: 270, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
77 1 0.00
78 268 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGATTGGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:59126785 original size:44 final size:45
Alignment explanation
Indices: 59126585--59126858 Score: 270
Period size: 45 Copynumber: 6.1 Consensus size: 45
59126575 GATCCAAGAT
* *
59126585 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
59126632 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGATA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
59126677 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATC-AGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA-AGATAACA
* * *
59126722 GATTTGGCATCTCTATATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
59126766 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
59126811 GATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
59126856 GAT
1 GAT
59126859 ATCGCCTTCC
Statistics
Matches: 186, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 45 0.24
45 109 0.59
46 5 0.03
47 21 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:59126794 original size:89 final size:90
Alignment explanation
Indices: 59126585--59126858 Score: 281
Period size: 89 Copynumber: 3.0 Consensus size: 90
59126575 GATCCAAGAT
* * * * * *
59126585 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAG--ATAACAGATTTGGCATCTC-TAT-
* * * *
59126649 TTTACATC--GAAGCAGATCCAAGAT-GATA
62 ATTAGA-CGGGAAGCAGATCAAAGATAG-CA
59126677 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATC-AGAGATAACAGATTTGGCATCTCTATATT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGA-AGATAACAGATTTGGCATCTCTATATT
* **
59126741 AGACGGGGAGCAGATTGAAGA-AGCA
65 AGACGGGAAGCAGATCAAAGATAGCA
* * * * *
59126766 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTATATTA
59126831 GACGGGAAGCAGATCAAAGATAGCA
66 GACGGGAAGCAGATCAAAGATAGCA
59126856 GAT
1 GAT
59126859 ATCGCCTTCC
Statistics
Matches: 155, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
88 1 0.01
89 80 0.52
90 35 0.23
91 3 0.02
92 36 0.23
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTATATTA
GACGGGAAGCAGATCAAAGATAGCA
Found at i:59127222 original size:17 final size:19
Alignment explanation
Indices: 59127200--59127279 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
59127190 TATGGAAATA
59127200 TAATCTT-CA-ATGATATG
1 TAATCTTACATATGATATG
*
59127217 TAATCTTAGATATGATATG
1 TAATCTTACATATGATATG
* *
59127236 CAATCTTAGATATGATA--
1 TAATCTTACATATGATATG
* *
59127253 CAATCTTAGATATGATATG
1 TAATCTTACATATGATATG
*
59127272 CAATCTTA
1 TAATCTTA
59127280 AAGATATGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 24 0.42
18 1 0.02
19 32 0.56
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (19 bp):
TAATCTTACATATGATATG
Found at i:59127233 original size:19 final size:19
Alignment explanation
Indices: 59127209--59127289 Score: 121
Period size: 19 Copynumber: 4.3 Consensus size: 19
59127199 ATAATCTTCA
*
59127209 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
59127228 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
59127247 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
59127264 ATGATATGCAATCTTAAAGAT
1 ATGATATGCAATCTT--AGAT
59127285 ATGAT
1 ATGAT
59127290 CTTGTAATCT
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
17 17 0.30
19 31 0.54
21 9 0.16
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:59127241 original size:36 final size:36
Alignment explanation
Indices: 59127201--59127289 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 36
59127191 ATGGAAATAT
59127201 AATCTTCAATGATATG-T-AATCTTAGATATGATATGC
1 AATCTT-AA-GATATGATAAATCTTAGATATGATATGC
59127237 AATCTT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTAAGATATGATA-AATCTTAGATATGATATGC
59127273 AATCTTAAAGATATGAT
1 AATCTT-AAGATATGAT
59127290 CTTGTAATCT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
33 6 0.12
34 2 0.04
36 31 0.65
38 9 0.19
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (36 bp):
AATCTTAAGATATGATAAATCTTAGATATGATATGC
Found at i:59127247 original size:14 final size:15
Alignment explanation
Indices: 59127230--59127267 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
59127220 TCTTAGATAT
59127230 GATATG-CAATCTTA
1 GATATGACAATCTTA
59127244 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
59127261 GATATGA
1 GATATGA
59127268 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:59136341 original size:4 final size:4
Alignment explanation
Indices: 59136324--59136364 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
59136314 TCTCTGTAAC
*
59136324 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
59136365 TTTAACTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:59137322 original size:65 final size:65
Alignment explanation
Indices: 59137218--59137348 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
59137208 ACTGAGTATT
59137218 CAATATCCCGTCGTTTCAAATCTGCATACGATTTCTGTCTATCAAAAGCAATTTTCAATCTTTCC
1 CAATATCCCGTCGTTTCAAATCTGCATACGATTTCTGTCTATCAAAAGCAATTTTCAATCTTTCC
*
59137283 CAATATCCCGTCGTTTCAAATCTGCATACGATTTCTGTCTATCAAAAGCAGTTTTCAATCTTTCC
1 CAATATCCCGTCGTTTCAAATCTGCATACGATTTCTGTCTATCAAAAGCAATTTTCAATCTTTCC
59137348 C
1 C
59137349 TAATTTTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (65 bp):
CAATATCCCGTCGTTTCAAATCTGCATACGATTTCTGTCTATCAAAAGCAATTTTCAATCTTTCC
Found at i:59142633 original size:47 final size:47
Alignment explanation
Indices: 59142524--59142634 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
59142514 CCGGGATAAG
* *
59142524 CACATAGTGCTTCATCGGAACAAATCCGGAGCTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
59142571 CACAAAGTACTTCATCGGAACAAATTCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
59142618 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
59142635 ACTCAATGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:59143904 original size:29 final size:29
Alignment explanation
Indices: 59143868--59143924 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
59143858 TTAAAAAATT
*
59143868 ATTAACCGACC-TTCGACCGAATTAATTTA
1 ATTAACCGACCATT-AACCGAATTAATTTA
59143897 ATTAACCGACCGATTAACCGAATTAATT
1 ATTAACCGACC-ATTAACCGAATTAATT
59143925 CAGTTTTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 12 0.48
31 2 0.08
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (29 bp):
ATTAACCGACCATTAACCGAATTAATTTA
Found at i:59145069 original size:18 final size:18
Alignment explanation
Indices: 59145012--59145063 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
59145002 CTAAAATTTT
59145012 ATTTTAATATTTTTATAC
1 ATTTTAATATTTTTATAC
59145030 ATTTTAAT-TTTATTATAC
1 ATTTTAATATTT-TTATAC
*
59145048 ATTTTGATATTTTTAT
1 ATTTTAATATTTTTAT
59145064 TAATTTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 25 0.81
19 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAATATTTTTATAC
Found at i:59145152 original size:30 final size:29
Alignment explanation
Indices: 59145087--59145159 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 29
59145077 AACTGGATCT
59145087 TATATAATATTCTTTACTCACATGTATTTACC
1 TATATAAT-TTCTTTACTCACA--TATTTACC
*
59145119 TATATAATTTCTTTTGACTCACA-ATTTATC
1 TATATAATTTC-TTT-ACTCACATATTTACC
59145149 TATACTAATTT
1 TATA-TAATTT
59145160 GAGCTGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 10 0.27
31 9 0.24
32 11 0.30
33 7 0.19
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (29 bp):
TATATAATTTCTTTACTCACATATTTACC
Found at i:59145472 original size:17 final size:17
Alignment explanation
Indices: 59145435--59145481 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
59145425 TTGAGATTGC
59145435 AAAATTAAATTAAGCAAAT
1 AAAA-TAAATT-AGCAAAT
*
59145454 AAAATAAATTAGTAAAT
1 AAAATAAATTAGCAAAT
*
59145471 AAAATATATTA
1 AAAATAAATTA
59145482 AAGCTTAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 16 0.62
18 6 0.23
19 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAATAAATTAGCAAAT
Found at i:59146110 original size:7 final size:7
Alignment explanation
Indices: 59146098--59146152 Score: 83
Period size: 7 Copynumber: 7.9 Consensus size: 7
59146088 GGTTTTAATG
59146098 GGAAAGT
1 GGAAAGT
59146105 GGAAAGT
1 GGAAAGT
59146112 GGAAAGT
1 GGAAAGT
59146119 GGAAAGT
1 GGAAAGT
*
59146126 GGAAAGG
1 GGAAAGT
*
59146133 GGAAAGG
1 GGAAAGT
*
59146140 GGAAAGG
1 GGAAAGT
59146147 GGAAAG
1 GGAAAG
59146153 GGCTTGGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.49, T:0.07
Consensus pattern (7 bp):
GGAAAGT
Found at i:59148526 original size:27 final size:27
Alignment explanation
Indices: 59148475--59148527 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
59148465 TATATGTATT
*
59148475 AAAATATATACGTAATAATAGAAATAA
1 AAAATATATACGTAATAATAAAAATAA
* * *
59148502 AAAATATATATGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
59148528 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATATATACGTAATAATAAAAATAA
Found at i:59148900 original size:11 final size:11
Alignment explanation
Indices: 59148886--59148957 Score: 83
Period size: 11 Copynumber: 6.4 Consensus size: 11
59148876 TATAATAAAA
59148886 AATATATATAT
1 AATATATATAT
59148897 AATATATATA-
1 AATATATATAT
59148907 ATATATATATAT
1 A-ATATATATAT
*
59148919 AATATATACAT
1 AATATATATAT
*
59148930 AATATAGTATTAA
1 AATATA-TA-TAT
*
59148943 AAAATATATAT
1 AATATATATAT
59148954 AATA
1 AATA
59148958 CATACACATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 39 0.76
12 5 0.10
13 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:59148903 original size:13 final size:13
Alignment explanation
Indices: 59148861--59148926 Score: 68
Period size: 12 Copynumber: 5.4 Consensus size: 13
59148851 GATATTAAAA
*
59148861 ATATATACATAA-
1 ATATATATATAAT
* *
59148873 AAATATA-ATAAA
1 ATATATATATAAT
*
59148885 AAATATATAT-AT
1 ATATATATATAAT
59148897 A-ATATATATAAT
1 ATATATATATAAT
59148909 ATATATATATAAT
1 ATATATATATAAT
59148922 ATATA
1 ATATA
59148927 CATAATATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
11 12 0.25
12 18 0.38
13 18 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:59148914 original size:24 final size:24
Alignment explanation
Indices: 59148860--59148957 Score: 103
Period size: 24 Copynumber: 4.2 Consensus size: 24
59148850 TGATATTAAA
*
59148860 AATATATACATA-AAAATATA-AT
1 AATATATATATATAAAATATATAT
* * *
59148882 AAAAAATATATATATAATATATAT
1 AATATATATATATAAAATATATAT
* *
59148906 AATATATATATATAATATATACAT
1 AATATATATATATAAAATATATAT
*
59148930 AATATAGTAT-TAAAAAATATATAT
1 AATATA-TATATATAAAATATATAT
59148954 AATA
1 AATA
59148958 CATACACATT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
22 9 0.15
23 7 0.11
24 42 0.69
25 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (24 bp):
AATATATATATATAAAATATATAT
Found at i:59148954 original size:2 final size:2
Alignment explanation
Indices: 59148887--59148935 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
59148877 ATAATAAAAA
59148887 AT AT AT AT AT A- AT AT AT AT A- AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
59148926 AC AT A- AT AT A
1 AT AT AT AT AT A
59148936 GTATTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:59149061 original size:23 final size:23
Alignment explanation
Indices: 59149016--59149061 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
59149006 AATACTTCAT
* *
59149016 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
59149039 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
59149062 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:59149141 original size:12 final size:11
Alignment explanation
Indices: 59149124--59149215 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 11
59149114 TATAAGTGTA
*
59149124 ATAATAGTAATT
1 ATAATAATAA-T
*
59149136 ATAATACTAAT
1 ATAATAATAAT
59149147 ACTAATAATAAAT
1 A-TAATAAT-AAT
*
59149160 ATAATAATAGT
1 ATAATAATAAT
*
59149171 AGTAAAAATAAAT
1 A-TAATAAT-AAT
*
59149184 ACAATAATAAT
1 ATAATAATAAT
*
59149195 CATAAAAATAAT
1 -ATAATAATAAT
59149207 ATAAATAAT
1 AT-AATAAT
59149216 GTGTACATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
11 10 0.16
12 47 0.73
13 7 0.11
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:59149180 original size:24 final size:23
Alignment explanation
Indices: 59149135--59149215 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
59149125 TAATAGTAAT
* *
59149135 TATAATACTAATACTAATAATAAA
1 TATAATAATAATA-TAAAAATAAA
*
59149159 TATAATAATAGTAGTAAAAATAAA
1 TATAATAATAATA-TAAAAATAAA
*
59149183 TACAATAATAATCATAAAAAT-AA
1 TATAATAATAAT-ATAAAAATAAA
59149206 TATAAATAAT
1 TAT-AATAAT
59149216 GTGTACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 4 0.08
24 43 0.90
25 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (23 bp):
TATAATAATAATATAAAAATAAA
Found at i:59150040 original size:20 final size:20
Alignment explanation
Indices: 59150010--59150047 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59150000 AAGAGATTCG
59150010 AAAAGAAGAAAA-AAAAATA
1 AAAAGAAGAAAAGAAAAATA
59150029 AAAAGAAAGAAAAGAAAAA
1 AAAAG-AAGAAAAGAAAAA
59150048 GCATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAGAAGAAAAGAAAAATA
Found at i:59152163 original size:10 final size:10
Alignment explanation
Indices: 59152148--59152207 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
59152138 TAATTTTAGG
59152148 ATTTAT-TTT
1 ATTTATCTTT
59152157 CATTTATCTTT
1 -ATTTATCTTT
59152168 ATTTATCTTT
1 ATTTATCTTT
*
59152178 AATTATCTTT
1 ATTTATCTTT
59152188 ATTTAT-TTGT
1 ATTTATCTT-T
59152198 ATTTATCTTT
1 ATTTATCTTT
59152208 TAAAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:59152954 original size:17 final size:18
Alignment explanation
Indices: 59152922--59152955 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59152912 TTTTCCTCAT
*
59152922 TTTAATTTCTGCAATTTA
1 TTTAAATTCTGCAATTTA
59152940 TTTAAATTC-GCAATTT
1 TTTAAATTCTGCAATTT
59152956 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAAATTCTGCAATTTA
Found at i:59153708 original size:21 final size:20
Alignment explanation
Indices: 59153678--59153716 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
59153668 ATTTACCCTT
59153678 TTTTTAATTATAATTTTTAA
1 TTTTTAATTATAATTTTTAA
*
59153698 TTTTTATATTATTATTTTT
1 TTTTTA-ATTATAATTTTT
59153717 TGAATTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTAATTATAATTTTTAA
Found at i:59154318 original size:21 final size:21
Alignment explanation
Indices: 59154292--59154332 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59154282 TAACGGGAGC
59154292 GCTGATGTGG-CAAGTTAACTA
1 GCTGATGTGGCCAA-TTAACTA
59154313 GCTGATGTGGCCAATTAACT
1 GCTGATGTGGCCAATTAACT
59154333 TGCAACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCCAATTAACTA
Found at i:59154563 original size:101 final size:98
Alignment explanation
Indices: 59154392--59154589 Score: 342
Period size: 101 Copynumber: 2.0 Consensus size: 98
59154382 TAAAAAGAAG
* *
59154392 AAAAAAATGAATGGGAAATAAGAAGAGGAGAAGAAGGGAAAATGGAAGTTGCTCAATCTCTTGTT
1 AAAAAAATGAATGGAAAAGAAGAAGAGGAGAAGAAGGGAAAATGGAAGTTGCTCAATCTCTTGTT
59154457 CAATCTCTGAAAGCTAAGGGAGGGCTAAAGTGA
66 CAATCTCTGAAAGCTAAGGGAGGGCTAAAGTGA
59154490 AAAAAAATGAATGGAAAAGAAGAAGAGGAGAAGAAGAAGGGAAAATGGAAGTTGCTCAATCTCTT
1 AAAAAAATGAATGGAAAAGAAGAAGA-G-G-AGAAGAAGGGAAAATGGAAGTTGCTCAATCTCTT
*
59154555 GTTTAATCTCTGAAAGCTAAGGGAGGGCTAAAGTG
63 GTTCAATCTCTGAAAGCTAAGGGAGGGCTAAAGTG
59154590 GTGGAAACAG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
98 24 0.26
99 1 0.01
100 1 0.01
101 68 0.72
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.19
Consensus pattern (98 bp):
AAAAAAATGAATGGAAAAGAAGAAGAGGAGAAGAAGGGAAAATGGAAGTTGCTCAATCTCTTGTT
CAATCTCTGAAAGCTAAGGGAGGGCTAAAGTGA
Found at i:59164769 original size:3 final size:3
Alignment explanation
Indices: 59164761--59164800 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
59164751 AAATTTTTAG
* *
59164761 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59164801 TATATATATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:59171254 original size:28 final size:27
Alignment explanation
Indices: 59171204--59171256 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
59171194 CTATTCAGAA
* *
59171204 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGCCATAGCCCAT
59171231 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTGGGCCATAGCCC
59171257 TATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGCCATAGCCCAT
Found at i:59171259 original size:62 final size:60
Alignment explanation
Indices: 59171180--59171325 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 60
59171170 TTCAAGCTTT
* * *
59171180 ACTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTA-
1 ACTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAG
*
59171241 ATCTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAG
1 A-CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAG
59171303 ACTGGGCCGTAGCCCTATTACAA
1 ACTGGGCC-TAGCCCTATTACAA
59171326 GTCAAGATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
61 39 0.52
62 32 0.43
63 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (60 bp):
ACTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAG
Found at i:59176401 original size:60 final size:60
Alignment explanation
Indices: 59176335--59176454 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
59176325 AATCATTATG
59176335 CCTAATCATTTTATAAAATACTAGATTATGTTACACCCAAATTGTAATAAAATGAAAAAA
1 CCTAATCATTTTATAAAATACTAGATTATGTTACACCCAAATTGTAATAAAATGAAAAAA
59176395 CCTAATCATTTTATAAAATACTAGATTATGTTACACCCAAATTGTAATAAAATGAAAAAA
1 CCTAATCATTTTATAAAATACTAGATTATGTTACACCCAAATTGTAATAAAATGAAAAAA
59176455 AATATAAACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (60 bp):
CCTAATCATTTTATAAAATACTAGATTATGTTACACCCAAATTGTAATAAAATGAAAAAA
Found at i:59182900 original size:33 final size:33
Alignment explanation
Indices: 59182858--59182922 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
59182848 ACTTTACCCT
59182858 TCCATTTCTTTCTCACGTCTAGACCTTTCTTCA
1 TCCATTTCTTTCTCACGTCTAGACCTTTCTTCA
* * * *
59182891 TCCATTTCTTTTTCACGTGTGGAGCTTTCTTC
1 TCCATTTCTTTCTCACGTCTAGACCTTTCTTC
59182923 TTTTCTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.11, T:0.48
Consensus pattern (33 bp):
TCCATTTCTTTCTCACGTCTAGACCTTTCTTCA
Found at i:59184769 original size:27 final size:28
Alignment explanation
Indices: 59184685--59184782 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
59184675 CATGAGATTG
* * * *
59184685 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
59184714 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59184742 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59184769 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59184783 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59184793 original size:27 final size:27
Alignment explanation
Indices: 59184713--59184795 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
59184703 TAAATTGTAC
* *
59184713 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59184741 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59184768 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59184795 A
1 A
59184796 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59184796 original size:29 final size:27
Alignment explanation
Indices: 59184685--59184796 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
59184675 CATGAGATTG
** * *
59184685 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
59184714 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
59184742 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
59184769 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
59184797 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:59192869 original size:27 final size:28
Alignment explanation
Indices: 59192785--59192882 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
59192775 CATGAGATTG
* * * *
59192785 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
59192814 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59192842 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59192869 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59192883 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59192893 original size:27 final size:27
Alignment explanation
Indices: 59192813--59192895 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
59192803 TAAATTGTAC
* *
59192813 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59192841 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59192868 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59192895 A
1 A
59192896 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59192896 original size:29 final size:27
Alignment explanation
Indices: 59192785--59192896 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
59192775 CATGAGATTG
** * *
59192785 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
59192814 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
59192842 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
59192869 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
59192897 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:59197856 original size:32 final size:32
Alignment explanation
Indices: 59197819--59197880 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
59197809 AGAATATTGC
59197819 TTATAA-ATCTCAAATGACTACATGTAAAATAT
1 TTATAACATCTC-AATGACTACATGTAAAATAT
* *
59197851 TTATAACGTTTCAATGACTACATGTAAAAT
1 TTATAACATCTCAATGACTACATGTAAAAT
59197881 GTTATAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (32 bp):
TTATAACATCTCAATGACTACATGTAAAATAT
Found at i:59198669 original size:26 final size:25
Alignment explanation
Indices: 59198636--59198687 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
59198626 TAAGATTTTT
* *
59198636 ATTAAATT-ATATATCATTTTATTAA
1 ATTAAATTAATA-ATAATTATATTAA
59198661 ATTATAATTAATAATAATTATATTAA
1 ATTA-AATTAATAATAATTATATTAA
59198687 A
1 A
59198688 ATATGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 16 0.70
27 3 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTAAATTAATAATAATTATATTAA
Found at i:59198715 original size:58 final size:57
Alignment explanation
Indices: 59198637--59198747 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
59198627 AAGATTTTTA
59198637 TTAAATTATATATCATTTTATTAAATTATAATTAATAATAAT-TATATTAAAATATGG
1 TTAAATTATATATCATTTTATTAAATTATAATTAATAATAATCT-TATTAAAATATGG
* * * ** *
59198694 TTAAATTATTTATTATATTTATTATATTATTTTTGATAATAATCTTATTAAAAT
1 TTAAATTATATATCAT-TTTATTAAATTATAATTAATAATAATCTTATTAAAAT
59198748 TTAATAAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 14 0.30
58 31 0.67
59 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
TTAAATTATATATCATTTTATTAAATTATAATTAATAATAATCTTATTAAAATATGG
Found at i:59198931 original size:16 final size:16
Alignment explanation
Indices: 59198909--59198980 Score: 92
Period size: 16 Copynumber: 4.5 Consensus size: 16
59198899 TGAATTATTG
*
59198909 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
59198925 GTTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
59198941 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
59198957 ATTACAGCAT-TATTCC
1 ATTACAGC-TCTATTCC
*
59198973 ATAACAGC
1 ATTACAGC
59198981 CAACCAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
16 48 0.98
17 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:59210747 original size:68 final size:68
Alignment explanation
Indices: 59210638--59210773 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
59210628 TTTAACCTCC
* *
59210638 AAGATAGCCGAATGCCCTAGACAAATTCCTTCCTCTTTCCCTTTTGTTTTGGCTTTGCAAGAAGG
1 AAGATAGCCGAATGCCCTAGACAAATGCCTTCCTCTTTCCCTTTTGTTTCGGCTTTGCAAGAAGG
59210703 TAA
66 TAA
*
59210706 AAGATAGCCGAATGCCCTAGACAAATGCCTTCCTGTTTCCCTTTTGTTTCGGCTTTGCAAGAAGG
1 AAGATAGCCGAATGCCCTAGACAAATGCCTTCCTCTTTCCCTTTTGTTTCGGCTTTGCAAGAAGG
59210771 TAA
66 TAA
59210774 GCAAGATGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (68 bp):
AAGATAGCCGAATGCCCTAGACAAATGCCTTCCTCTTTCCCTTTTGTTTCGGCTTTGCAAGAAGG
TAA
Found at i:59211691 original size:18 final size:18
Alignment explanation
Indices: 59211668--59211704 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59211658 TTCCATTAGG
59211668 TTAATTTAGGGTAATTAA
1 TTAATTTAGGGTAATTAA
**
59211686 TTAATTTAGTTTAATTAA
1 TTAATTTAGGGTAATTAA
59211704 T
1 T
59211705 CTTTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATTTAGGGTAATTAA
Found at i:59213754 original size:43 final size:43
Alignment explanation
Indices: 59213702--59213799 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
59213692 TGGCAAGTTT
* * * *
59213702 GTCTTGAGACATAAAGTGTCAAGTTTCAAGACATGGTTACATC
1 GTCTCGAGACATAAAGGGTCAAATCTCAAGACATGGTTACATC
* * * *
59213745 GTCTCGAGACAT-AAGGGTTAAATCTCGAGACATGGTTCCATT
1 GTCTCGAGACATAAAGGGTCAAATCTCAAGACATGGTTACATC
*
59213787 ATCTCGAGACATA
1 GTCTCGAGACATA
59213800 GAACTTCAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 34 0.76
43 11 0.24
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
GTCTCGAGACATAAAGGGTCAAATCTCAAGACATGGTTACATC
Found at i:59213756 original size:21 final size:20
Alignment explanation
Indices: 59213730--59213798 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
59213720 TCAAGTTTCA
*
59213730 AGACATGGTTACATCGTCTCG
1 AGACATGGTTACAT-ATCTCG
59213751 AGACATAAGGGTTA-A-ATCTCG
1 AGACAT---GGTTACATATCTCG
*
59213772 AGACATGGTTCCATTATCTCG
1 AGACATGGTTACA-TATCTCG
59213793 AGACAT
1 AGACAT
59213799 AGAACTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.10
19 1 0.03
21 29 0.73
23 1 0.03
24 5 0.12
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
AGACATGGTTACATATCTCG
Found at i:59214500 original size:27 final size:27
Alignment explanation
Indices: 59214470--59214525 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
59214460 AAAAATAAGC
*
59214470 AAGGACAAATGCACAAAGACTAGTTAT
1 AAGGACAAATCCACAAAGACTAGTTAT
* * * *
59214497 AAGGTCGAATCCACAAAGAGTCGTTAT
1 AAGGACAAATCCACAAAGACTAGTTAT
59214524 AA
1 AA
59214526 TATTTCTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (27 bp):
AAGGACAAATCCACAAAGACTAGTTAT
Done.