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 241 of 276
Found at i:79539836 original size:12 final size:10
Alignment explanation
Indices: 79539799--79539829 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
79539789 CTCTTCTCTC
79539799 TATTATCTTGT
1 TATT-TCTTGT
79539810 TATTTCTTGT
1 TATTTCTTGT
79539820 TATTTCTTGT
1 TATTTCTTGT
79539830 GTTATTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.68
Consensus pattern (10 bp):
TATTTCTTGT
Found at i:79541391 original size:21 final size:22
Alignment explanation
Indices: 79541345--79541391 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
79541335 GATGAAGATG
*
79541345 TTTAATGACTTTTATTTATTAT
1 TTTAATGACTTTTACTTATTAT
*
79541367 TTTAATG-TTTTTACTT-TTAT
1 TTTAATGACTTTTACTTATTAT
79541387 CTTTA
1 -TTTA
79541392 TTTGTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 11 0.50
22 7 0.32
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTAATGACTTTTACTTATTAT
Found at i:79541444 original size:32 final size:34
Alignment explanation
Indices: 79541374--79541456 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 34
79541364 TATTTTAATG
*
79541374 TTTTTACTTTTATCTTTATTTGTTTTAAACTTAC
1 TTTTTACTTTTATCTTTATTTCTTTTAAACTTAC
79541408 TTTTTA-TTTTAT-TTTATTTCTCTTTAATAC-TA-
1 TTTTTACTTTTATCTTTATTTCT-TTTAA-ACTTAC
*
79541440 TTTTTAC-TTCATCTTTA
1 TTTTTACTTTTATCTTTA
79541457 GGTTTTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
32 18 0.42
33 17 0.40
34 8 0.19
ACGTcount: A:0.20, C:0.12, G:0.01, T:0.66
Consensus pattern (34 bp):
TTTTTACTTTTATCTTTATTTCTTTTAAACTTAC
Found at i:79550534 original size:27 final size:27
Alignment explanation
Indices: 79550504--79550562 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
79550494 GTACGTAGAC
79550504 CCCCTA-ATTGACAAAATGACTAAAATG
1 CCCCTACA-TGACAAAATGACTAAAATG
** * *
79550531 CCCCTACATGGTAAAATGACTGATATG
1 CCCCTACATGACAAAATGACTAAAATG
79550558 CCCCT
1 CCCCT
79550563 TATGTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (27 bp):
CCCCTACATGACAAAATGACTAAAATG
Found at i:79562103 original size:40 final size:40
Alignment explanation
Indices: 79562052--79562288 Score: 384
Period size: 40 Copynumber: 5.9 Consensus size: 40
79562042 ATAACCGCAA
* * * *
79562052 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
79562092 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
79562132 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
79562172 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
79562212 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
79562252 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
79562289 ATGCTCATGC
Statistics
Matches: 185, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:79583778 original size:253 final size:255
Alignment explanation
Indices: 79583330--79583840 Score: 938
Period size: 253 Copynumber: 2.0 Consensus size: 255
79583320 CCATCCGTAC
*
79583330 TATTTTTTGTGATTTTTCAAATTCACTTCACTGCTGCTGTCAGCATCTATTTTTAAGGTAGGCTT
1 TATTTTTAGTGATTTTTCAAATTCACTTCACTGCTGCTGTCAGCATCTATTTTTAAGGTAGGCTT
*
79583395 TACCTATTTCATGGTTTTCCATGGATCAACTAGAATTTTGTCATACATAGCACCAAAATGATCGT
66 TACCTATTTCATGGTTTTCCATGGATCAACTAGAATTTTGTCATACAAAGCACCAAAATGATCGT
*
79583460 GATTAACCATTCCAATGGCTAATCGTTACCAACCATTTCCATACCACTCAATGAACAATATACAA
131 GATTAACCATTCCAATGGCTAATCATTACCAACCATTTCCATACCACTCAATGAACAATATACAA
79583525 AATGATTATAATGGTATGCTC-AAA-ATATATATAAGCCATTTTCGCATGGCTATCCAAA
196 AATGATTATAATGGTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCTATCCAAA
79583583 TATTTTTAGTGATTTTTCAAATTCACTTCACTGCTGCTGTCAGCATCTATTTTTAAGGTAGGCTT
1 TATTTTTAGTGATTTTTCAAATTCACTTCACTGCTGCTGTCAGCATCTATTTTTAAGGTAGGCTT
*
79583648 TACCTATTTCATGGTTTTCCATGGATCAACTAGCCA-TTTGTCATACAAAGCACCAAAATGATCG
66 TACCTATTTCATGGTTTTCCATGGATCAACTAG-AATTTTGTCATACAAAGCACCAAAATGATCG
*
79583712 TGATTAACCATTCCAATGGCTAATCATTACCAAGCATTTCCATACCACTCAATGAACAATATACA
130 TGATTAACCATTCCAATGGCTAATCATTACCAACCATTTCCATACCACTCAATGAACAATATACA
*
79583777 AAATGATTATAATGGTATGCTCAAAATATATATATAAGCTATTTTCGCATGGCTATCCAAA
195 AAATGATTATAATGGTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCTATCCAAA
79583838 TAT
1 TAT
79583841 ATACATTACC
Statistics
Matches: 249, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
253 209 0.84
254 4 0.02
255 36 0.14
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (255 bp):
TATTTTTAGTGATTTTTCAAATTCACTTCACTGCTGCTGTCAGCATCTATTTTTAAGGTAGGCTT
TACCTATTTCATGGTTTTCCATGGATCAACTAGAATTTTGTCATACAAAGCACCAAAATGATCGT
GATTAACCATTCCAATGGCTAATCATTACCAACCATTTCCATACCACTCAATGAACAATATACAA
AATGATTATAATGGTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCTATCCAAA
Found at i:79584401 original size:40 final size:40
Alignment explanation
Indices: 79584334--79584510 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
79584324 ACCCAAGTAT
*
79584334 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
79584373 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
79584413 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
79584453 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
79584493 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
79584511 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:79586200 original size:30 final size:31
Alignment explanation
Indices: 79586164--79586225 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
79586154 TAAATAGGAT
79586164 AGTGTGACAGTGGA-AAAAGATTTCTCATTC
1 AGTGTGACAGTGGAGAAAAGATTTCTCATTC
* * *
79586194 AGTGTGATAGTGGAGAGAAGATTTCTTATTC
1 AGTGTGACAGTGGAGAAAAGATTTCTCATTC
79586225 A
1 A
79586226 TCTTCTCCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (31 bp):
AGTGTGACAGTGGAGAAAAGATTTCTCATTC
Found at i:79591050 original size:46 final size:46
Alignment explanation
Indices: 79590983--79591197 Score: 369
Period size: 46 Copynumber: 4.7 Consensus size: 46
79590973 TGTAACCCGC
79590983 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
79591029 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
*
79591075 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
* * *
79591121 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTG-CGTTCGCAT
*
79591167 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
79591198 TTCGGATGCT
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
Found at i:79608392 original size:41 final size:41
Alignment explanation
Indices: 79608335--79608484 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
79608325 TTGGGGTTTA
79608335 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
79608376 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
79608417 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
79608457 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
79608485 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:79611373 original size:42 final size:42
Alignment explanation
Indices: 79611314--79611395 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
79611304 CAGGTAGACA
* * * *
79611314 CACGGTCGTGTGTCTCAACTGTGTGTGACATACGGCCATATG
1 CACGGACGTGTGTCTCAACTGTCTGTGACACACGACCATATG
79611356 CACGGACGTGTGTCTCAACTGTCTGTGACACACGACCATA
1 CACGGACGTGTGTCTCAACTGTCTGTGACACACGACCATA
79611396 CGTGCAAGCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (42 bp):
CACGGACGTGTGTCTCAACTGTCTGTGACACACGACCATATG
Found at i:79612368 original size:42 final size:42
Alignment explanation
Indices: 79612322--79612407 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
79612312 GTAATGAGAG
79612322 ATTAACTGCAAAAGCTTTGAGCCTAATTGGACTGCCATTAGA
1 ATTAACTGCAAAAGCTTTGAGCCTAATTGGACTGCCATTAGA
* *
79612364 ATTAACTGCAAGAGCTTTGAGCCTAATTGGACTGCCATTGGA
1 ATTAACTGCAAAAGCTTTGAGCCTAATTGGACTGCCATTAGA
79612406 AT
1 AT
79612408 GTTTATTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
ATTAACTGCAAAAGCTTTGAGCCTAATTGGACTGCCATTAGA
Found at i:79621417 original size:21 final size:22
Alignment explanation
Indices: 79621393--79621433 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
79621383 CAAAACAACG
79621393 TAATTTT-ACCTTTTAACTTGA
1 TAATTTTGACCTTTTAACTTGA
*
79621414 TAATTTTGACTTTTTAACTT
1 TAATTTTGACCTTTTAACTT
79621434 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TAATTTTGACCTTTTAACTTGA
Found at i:79621666 original size:3 final size:3
Alignment explanation
Indices: 79621658--79621688 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
79621648 TTTTAAAAGC
79621658 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
79621689 GATATTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:79621833 original size:18 final size:18
Alignment explanation
Indices: 79621796--79621835 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
79621786 TTTTTTAGAT
*
79621796 TTTTTTTAAAAATTATAA
1 TTTTTTTAAAAATTAAAA
79621814 TTTTTTTAAAAA-TACAAA
1 TTTTTTTAAAAATTA-AAA
79621832 TTTT
1 TTTT
79621836 AGAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTTTAAAAATTAAAA
Found at i:79621861 original size:19 final size:19
Alignment explanation
Indices: 79621831--79621901 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
79621821 AAAAATACAA
79621831 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
*
79621851 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
*
79621870 ATTTTCAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
79621890 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
79621902 TTTGTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 3 0.07
19 26 0.58
20 16 0.36
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:79621863 original size:18 final size:19
Alignment explanation
Indices: 79621831--79621900 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
79621821 AAAAATACAA
*
79621831 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAA-TTTTAAAAATT
79621851 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
* *
79621870 ATTTTCAATTTTTGAAAATT
1 ATTTTGAA-TTTTAAAAATT
79621890 ATTTTG-ATTTT
1 ATTTTGAATTTT
79621901 TTTTGTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 12 0.27
19 12 0.27
20 20 0.45
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:79621902 original size:20 final size:19
Alignment explanation
Indices: 79621839--79621901 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
79621829 AAATTTTAGA
*
79621839 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
* *
79621857 AATTTTAAAAATTATTTTCA
1 ATTTTTAAAAATTATTTT-G
*
79621877 ATTTTTGAAAATTATTTTG
1 ATTTTTAAAAATTATTTTG
79621896 ATTTTT
1 ATTTTT
79621902 TTTGTAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
20 16 0.43
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:79623841 original size:151 final size:152
Alignment explanation
Indices: 79623613--79623916 Score: 547
Period size: 151 Copynumber: 2.0 Consensus size: 152
79623603 TAAGAGTTGA
*
79623613 AGTTTTATTTTGCGTATTTTATCAAAAGAATTCTTTTCAAATGATAAAAAATTTGATTTGTTTTG
1 AGTTTTATTTTGCGGATTTTATCAAAAGAATTCTTTTCAAATGATAAAAAATTTGATTTGTTTTG
* *
79623678 AGATTTTAAATTTAAGTTTTGTGAGAATTTAGGTTTAAATCTTAAAAGATAAATATATGGAATTA
66 AGATTTTAAATTTAAGTTTTGTGAGAATTTAAGTTTAAATCTTAAAAGATAAACATATGGAATTA
79623743 ATTTTAATCAATTCTAAAACTT
131 ATTTTAATCAATTCTAAAACTT
* *
79623765 AGTTTTCTTTTGCGGATTTTATCAAAAGAATT-TTTTTAAATGATAAAAAATTTGATTTGTTTTG
1 AGTTTTATTTTGCGGATTTTATCAAAAGAATTCTTTTCAAATGATAAAAAATTTGATTTGTTTTG
*
79623829 AGATTTTAAATTTAAGTTTTGTGAGAATTTAAGTTTAAATCTTAAAAGATAAACATATGGGATTA
66 AGATTTTAAATTTAAGTTTTGTGAGAATTTAAGTTTAAATCTTAAAAGATAAACATATGGAATTA
79623894 ATTTTAATCAATTCTAAAACTT
131 ATTTTAATCAATTCTAAAACTT
79623916 A
1 A
79623917 CTTGAAAATA
Statistics
Matches: 146, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
151 116 0.79
152 30 0.21
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (152 bp):
AGTTTTATTTTGCGGATTTTATCAAAAGAATTCTTTTCAAATGATAAAAAATTTGATTTGTTTTG
AGATTTTAAATTTAAGTTTTGTGAGAATTTAAGTTTAAATCTTAAAAGATAAACATATGGAATTA
ATTTTAATCAATTCTAAAACTT
Found at i:79625516 original size:3 final size:3
Alignment explanation
Indices: 79625497--79625538 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
79625487 ACATGACATG
* * *
79625497 TTA TCA TTA TCA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79625539 AGTACTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:79628338 original size:92 final size:92
Alignment explanation
Indices: 79628181--79628364 Score: 280
Period size: 92 Copynumber: 2.0 Consensus size: 92
79628171 TTACACGTAA
* * * *
79628181 TTTACTTGAATGTAATATATAGCTGCTCTGAAATTTGACACATTTGTTTTATCTATTCTACTTCT
1 TTTACTTCAATGTAATACATAGCTGCTCTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
*
79628246 AAATG-GACTTACAATCATTTGCTCATT
66 AAATGAG-CTTACAACCATTTGCTCATT
*
79628273 TTTACTTCAATGTAATACATAGCTGCTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
1 TTTACTTCAATGTAATACATAGCTGCTCTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
* *
79628338 AAATGAGCTTCCAACCATTTTCTCATT
66 AAATGAGCTTACAACCATTTGCTCATT
79628365 CTAGAAAATC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 82 0.99
93 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (92 bp):
TTTACTTCAATGTAATACATAGCTGCTCTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
AAATGAGCTTACAACCATTTGCTCATT
Found at i:79638271 original size:79 final size:81
Alignment explanation
Indices: 79638162--79638344 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
79638152 TACTCGTTCA
* *
79638162 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
79638225 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
79638242 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
79638305 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
79638321 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
79638345 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:79638344 original size:40 final size:40
Alignment explanation
Indices: 79638141--79638344 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
79638131 CGGAATTTAA
** *
79638141 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
79638181 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
79638221 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
79638260 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
79638300 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
79638340 CCGGA
1 CCGGA
79638345 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:79644500 original size:30 final size:30
Alignment explanation
Indices: 79644466--79644523 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
79644456 TTTTCGAGCA
* *
79644466 TAGGGGTAAAATTGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
79644496 TAGGGGCAAAATGGTCATTTTTCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
79644524 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:79644935 original size:47 final size:46
Alignment explanation
Indices: 79644867--79645173 Score: 225
Period size: 47 Copynumber: 6.5 Consensus size: 46
79644857 CTTGCATGCT
*
79644867 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCC
* * * *
79644913 AGTATAAGACCATGTCTAGGACATGGCATCGG-CACAGAGACGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TGATGAGTGCC
*
79644961 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGT-GCC
* * * * * *
79645008 AGTGTAAGACGTGTCTGGGACACGTATCGGCTA-A-GA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGTGCC
* * * * *
79645052 AGTGTAAGACATGTCTGAGACATGCATCAG-CATGTAT-ATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA--CATGAT--GAGTGCC
* * * *
79645100 AGTATAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGA-TAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATGATGAGT-GCC
*
79645149 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
79645174 GCATTGGCAA
Statistics
Matches: 208, Mismatches: 32, Indels: 40
0.74 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 29 0.14
45 2 0.01
46 18 0.09
47 67 0.32
48 37 0.18
49 41 0.20
50 9 0.04
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCC
Found at i:79645029 original size:94 final size:91
Alignment explanation
Indices: 79644867--79645079 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 91
79644857 CTTGCATGCT
*
79644867 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTATAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTATAAGACCATGTCTAG
*
79644932 GACATGGCATCGGC-ACAGAGACGAGTGCC
66 GACA-CGCATCGGCTA-AGAG--GAGTGCC
* * *
79644961 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCCAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGT-GCCAGTATAAGACCATGTCT
* * ** *
79645024 GGGACACGTATCGGCTAAGAGTTGTGCT
64 AGGACACGCATCGGCTAAGAGGAGTGCC
*
79645052 AGTGTAAGACATGTCTGAGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
79645080 AGCATGTATA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
91 31 0.30
93 11 0.10
94 46 0.44
95 17 0.16
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTATAAGACCATGTCTAG
GACACGCATCGGCTAAGAGGAGTGCC
Found at i:79657995 original size:30 final size:30
Alignment explanation
Indices: 79657954--79658011 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
79657944 TTTTTGAGCA
* *
79657954 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGGAAAATGGTCATTTTACCAAAGTT
79657984 TAGGGGGAAAATGGTCATTTTACCAAAG
1 TAGGGGGAAAATGGTCATTTTACCAAAG
79658012 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGGAAAATGGTCATTTTACCAAAGTT
Found at i:79658407 original size:47 final size:47
Alignment explanation
Indices: 79658332--79658462 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 47
79658322 GATTTCTTGT
** * ** **
79658332 GTGCCAGCGTAAGAAATGTCTGGGACATGCATCGGCCACA-TTATGA
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAGAGACAA
* *
79658378 GTGCCAGTATAAGACCATGTCTGGAACATGGTATCGG-CACAGAGACAA
1 GTGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGACAA
*
79658426 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCC
79658463 TCAACGATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
46 18 0.26
47 30 0.43
48 21 0.30
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (47 bp):
GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAGAGACAA
Found at i:79658493 original size:94 final size:91
Alignment explanation
Indices: 79658332--79658548 Score: 215
Period size: 94 Copynumber: 2.4 Consensus size: 91
79658322 GATTTCTTGT
* * ** *
79658332 GTGCCAGCGTAAGAAATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAATATAAGACCATG
* *
79658397 TCTGGAACATGGTATCGGC-ACAGAGACAA
66 TCTGGAACA-CGCATCGGCTA-AGAG--AA
* * * *
79658426 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACGATGA-TAGCCAATGTAGGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAATATAAGACCA
* *
79658489 TGTCTGGGACACGCATCGGCTAAGAGTA
64 TGTCTGGAACACGCATCGGCTAAGAGAA
* * *
79658517 GTGCTAGTGTAAGACATTTCTAGGACATGCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCAT
79658549 AAGCACGTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
91 30 0.29
93 11 0.11
94 49 0.47
95 14 0.13
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAATATAAGACCATG
TCTGGAACACGCATCGGCTAAGAGAA
Found at i:79668044 original size:13 final size:13
Alignment explanation
Indices: 79668026--79668050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79668016 CCTTTTTGTC
79668026 CACACGGGCATGA
1 CACACGGGCATGA
79668039 CACACGGGCATG
1 CACACGGGCATG
79668051 TGTCTAGGCC
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:0.28, C:0.32, G:0.32, T:0.08
Consensus pattern (13 bp):
CACACGGGCATGA
Found at i:79669441 original size:129 final size:129
Alignment explanation
Indices: 79669211--79669471 Score: 432
Period size: 129 Copynumber: 2.0 Consensus size: 129
79669201 ATCCACTAGA
* *
79669211 CTTAACCTAAAAAACATTACTCTTAGACCAATCATTTGTTTTTTTACTTAGAGCATCTGCTATGA
1 CTTAACCTAAAAAACATTACTCTTAGACCAACCATTTGTTTTTTTACTTAGAGCATCTGCCATGA
* *
79669276 CATTAGCTTTTCTAGAGTGATATTCAGTTACACAATCATAATCCTGTAACAATTCTATCCACCT
66 CATTAGCTTTTCCAGAGTGATATTCAGTTACACAATCATAATCCTGTAACAATTCTATCCACAT
* * *
79669340 CTTAACCTAAAAAACATTGCTCTTAGATCGACCATTTGTTTTTTTACTTAGAGCATCTGCCATGA
1 CTTAACCTAAAAAACATTACTCTTAGACCAACCATTTGTTTTTTTACTTAGAGCATCTGCCATGA
* * *
79669405 CATTGGCTTTTCCGGAGTGATATTCAGTTACACAATCATAATCCTTTAACAATTCTATCCACAT
66 CATTAGCTTTTCCAGAGTGATATTCAGTTACACAATCATAATCCTGTAACAATTCTATCCACAT
79669469 CTT
1 CTT
79669472 TTGCCCTAGG
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (129 bp):
CTTAACCTAAAAAACATTACTCTTAGACCAACCATTTGTTTTTTTACTTAGAGCATCTGCCATGA
CATTAGCTTTTCCAGAGTGATATTCAGTTACACAATCATAATCCTGTAACAATTCTATCCACAT
Found at i:79683786 original size:39 final size:40
Alignment explanation
Indices: 79683712--79683787 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 40
79683702 TGATAACTTA
* * *
79683712 ATATATATATATGTTATAATAAATAAATAACATGAAATGT
1 ATATATATATATATAATAATAAATAAATAAAATGAAATGT
79683752 ATATATAT-TATATAATAATAAATAAATAAAATGAAA
1 ATATATATATATATAATAATAAATAAATAAAATGAAA
79683788 CATAAATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (40 bp):
ATATATATATATATAATAATAAATAAATAAAATGAAATGT
Found at i:79689139 original size:4 final size:4
Alignment explanation
Indices: 79689130--79689167 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
79689120 ATCATTATAA
79689130 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
79689168 TATAATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:79694810 original size:55 final size:55
Alignment explanation
Indices: 79694665--79694822 Score: 192
Period size: 55 Copynumber: 2.9 Consensus size: 55
79694655 AGTTGTACAT
* ** * * * *
79694665 GGGTAGGCTA-CACGGGTGTGCGCCATGGTCGTGTTAAAAAGACAGTGTCGTCCAT
1 GGGTAGGC-AGCACGGGTGTGTGCCATGACCGTGTTGATAAGTCAGTGTCGTCCAC
* * * *
79694720 GGGCAAGTAGCACGGGTGTGTGCCGTGACCGTGTTGATAAGTCAGTGTCGTCCAC
1 GGGTAGGCAGCACGGGTGTGTGCCATGACCGTGTTGATAAGTCAGTGTCGTCCAC
*
79694775 GTGTAGGCAGCACGGGTGTGTGCCATGACCGTGTTGATAAGTCAGTGT
1 GGGTAGGCAGCACGGGTGTGTGCCATGACCGTGTTGATAAGTCAGTGT
79694823 TTCCTACGAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 1 0.01
55 85 0.99
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (55 bp):
GGGTAGGCAGCACGGGTGTGTGCCATGACCGTGTTGATAAGTCAGTGTCGTCCAC
Found at i:79697107 original size:12 final size:13
Alignment explanation
Indices: 79697090--79697127 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
79697080 TTCCTGGAAT
79697090 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
79697102 ATTAAGAACACATA
1 ATTAAGAACA-AGA
79697116 ATTAAGAACAAG
1 ATTAAGAACAAG
79697128 TGAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:79697494 original size:13 final size:13
Alignment explanation
Indices: 79697478--79697502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79697468 ACAATAGGGA
79697478 CACGCCCGTGTGT
1 CACGCCCGTGTGT
79697491 CACGCCCGTGTG
1 CACGCCCGTGTG
79697503 CGATTGCTCC
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:0.08, C:0.40, G:0.32, T:0.20
Consensus pattern (13 bp):
CACGCCCGTGTGT
Found at i:79704337 original size:47 final size:44
Alignment explanation
Indices: 79704219--79704339 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 44
79704209 ATATGAGTGT
*
79704219 GAGCTAGTGTAAGACATGTCTGGGACAAGCATCGACCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACAAGCATCG--CACATTAAGA
* * *
79704265 GAGCCAGTGTAAGACCATGTATGGGACATGACATCG-ACATTGAGAAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAAG-CATCGCACATT---AAGA
79704313 GAGCTAGTGTAAGACATGTCTGGGACA
1 GAGCTAGTGTAAGACATGTCTGGGACA
79704340 GATGATAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 5 0.08
46 13 0.20
47 25 0.39
48 21 0.33
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACAAGCATCGCACATTAAGA
Found at i:79704435 original size:47 final size:47
Alignment explanation
Indices: 79704339--79704471 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 47
79704329 TGTCTGGGAC
**
79704339 AGATGATAGTCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACG
1 AGATGATAGTCAGTGTAAGACATGTCTGGGACATGGCATCGAATACG
* **
79704385 AGATGATAGTCACTGTAAGATCATGTCTGGGACATGGCATC-AATTTG
1 AGATGATAGTCAGTGTAAGA-CATGTCTGGGACATGGCATCGAATACG
*
79704432 AGAT-ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 AGATGAT-AGTCAGTGTAAGA-CATGTCTGGGACATGGCAT
79704472 TGGCACCTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 21 0.28
47 50 0.66
48 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (47 bp):
AGATGATAGTCAGTGTAAGACATGTCTGGGACATGGCATCGAATACG
Found at i:79704457 original size:126 final size:126
Alignment explanation
Indices: 79704224--79704465 Score: 312
Period size: 126 Copynumber: 1.9 Consensus size: 126
79704214 AGTGTGAGCT
* *
79704224 AGTGTAAGACATGTCTGGGACAAGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTATGG
1 AGTGTAAGACATGTCTGGGACAAGCATCGACCACATGATGAGAGCCACTGTAAGACCATGTATGG
*
79704289 GACATGACATCGACATTGAGAAGAGAGCTAGTGTAAGACATGTCTGGGACAGATGATAGTC
66 GACATGACATCGACATTGAGAAGAGAGCCAGTGTAAGACATGTCTGGGACAGATGATAGTC
* * * * * * *
79704350 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCACTGTAAGATCATGTCTG
1 AGTGTAAGACATGTCTGGGACAAGCATCGACCAC-ATGATGAGAGCCACTGTAAGACCATGTATG
* *
79704414 GGACATGGCATC-A-ATTTGAGATA-TGAGCCAGTGTAAGACCATGTCTGGGACA
65 GGACATGACATCGACA-TTGAGA-AGAGAGCCAGTGTAAGA-CATGTCTGGGACA
79704466 TGGCATTGGC
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
124 1 0.01
125 20 0.20
126 78 0.78
127 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (126 bp):
AGTGTAAGACATGTCTGGGACAAGCATCGACCACATGATGAGAGCCACTGTAAGACCATGTATGG
GACATGACATCGACATTGAGAAGAGAGCCAGTGTAAGACATGTCTGGGACAGATGATAGTC
Found at i:79705939 original size:22 final size:24
Alignment explanation
Indices: 79705890--79705939 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
79705880 ATTTTTCTCA
* *
79705890 CCCTTTTCAACATGTACCTATAAT
1 CCCTTTTCAACATATACCTATAAG
*
79705914 CCCTTTTCCACATATA-C-ATAAG
1 CCCTTTTCAACATATACCTATAAG
79705936 CCCT
1 CCCT
79705940 CAAAAGGCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTTTTCAACATATACCTATAAG
Found at i:79710779 original size:68 final size:68
Alignment explanation
Indices: 79710103--79710773 Score: 898
Period size: 68 Copynumber: 9.9 Consensus size: 68
79710093 CTGATCTTCT
*
79710103 TCCGCTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710168 AGG
66 AGA
* * *
79710171 TTCGCTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710236 AGG
66 AGA
** * * *
79710239 TTTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCTAATGCCATTTCAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
79710303 GAGA
65 GAGA
* * * *
79710307 TCCGCTGAAACTTCAAGGAGATCTGTTGTGACTTTTAGCCGCTCCCATGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710372 AGG
66 AGA
* * *
79710375 TTCGCTGAAACTTCAAGGAGATTTGCTGTGGCTTTTAACCGCTCCAACGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710440 AAA
66 AGA
* * * *
79710443 TCCGCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCCATGCCATTTCAAGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710508 AGG
66 AGA
** * *
79710511 TTTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCCATGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79710576 AAA
66 AGA
* *
79710579 TCCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
*
79710643 GAAA
65 GAGA
* *** *
79710647 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGTTACTCCAACGCCATTTTAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
*
79710711 GAAA
65 GAGA
* * * * *
79710715 TCCACTGAAATTTCAAGGAGATCTGCTATGGCTTTTAGGCGCTCCAACACCATTTCAGG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGG
79710774 GAAAAGTGAT
Statistics
Matches: 541, Mismatches: 59, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
67 6 0.01
68 527 0.97
69 8 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
AGA
Found at i:79725248 original size:68 final size:68
Alignment explanation
Indices: 79724572--79725242 Score: 916
Period size: 68 Copynumber: 9.9 Consensus size: 68
79724562 CTGATCTTCT
*
79724572 TCCGCTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79724637 AGG
66 AGA
* * *
79724640 TTCGCTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79724705 AGG
66 AGA
** * * *
79724708 TTTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCTAATGCCATTTCAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
79724772 GAGA
65 GAGA
* * * *
79724776 TCCGCTGAAACTTCAAGGAGATCTGTTGTGACTTTTAGCCGCTCCCATGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79724841 AGG
66 AGA
* * *
79724844 TTCGCTGAAACTTCAAGGAGATTTGCTGTGGCTTTTAACCGCTCCAACGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79724909 AAA
66 AGA
* * * *
79724912 TCCGCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCCATGCCATTTCAAGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79724977 AGG
66 AGA
** * *
79724980 TTTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCCATGCCATTTCAGGAAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
*
79725045 AAA
66 AGA
* *
79725048 TCCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
*
79725112 GAAA
65 GAGA
* *** *
79725116 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGTTACTCCAACGCCATTTTAGGGAA-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAA
*
79725180 GAAA
65 GAGA
* * *
79725184 TCCACTGAAATTTCAAGGAGATCTGCTATGGCTTTTAGCCGCTCCAACGCCATTTCAGG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGG
79725243 GAAAAGTGAT
Statistics
Matches: 542, Mismatches: 58, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
67 6 0.01
68 528 0.97
69 8 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAG
AGA
Found at i:79740309 original size:29 final size:29
Alignment explanation
Indices: 79740267--79740322 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
79740257 CACGGCCATG
*
79740267 ACACATGGGCGTGTGG-TCTACCCGTGTTC
1 ACACACGGGCGTGTGGATC-ACCCGTGTTC
*
79740296 ACACACGGGTGTGTGGATCACCCGTGT
1 ACACACGGGCGTGTGGATCACCCGTGT
79740323 AGAAGTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (29 bp):
ACACACGGGCGTGTGGATCACCCGTGTTC
Found at i:79748835 original size:40 final size:40
Alignment explanation
Indices: 79748749--79749016 Score: 376
Period size: 40 Copynumber: 6.7 Consensus size: 40
79748739 TCCAAACACA
* * *
79748749 AATGCCTTCGGGACTTAGCCCGGATATAAC-ACTAGTACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
* * *
79748788 AATGCCTTCAGAACTTGGCCCTGATATAACAACCAGCACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
* *
79748828 AATGCCTTCAGGACTTGGCCCAGATATAACAACCAGCACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
*
79748868 AATTCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
* * *
79748908 AATGCCTTCGGGACTTAACCCAGATATAACAACCAGCACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
* *
79748948 AATGCCTTCAGAACTTAACCCGGATATAACAACCAGCACG
1 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
* * *
79748988 AAAGCCTTCGGGACTTAACCCGGATATAA
1 AATGCCTTCAGGACTTAGCCCGGATATAA
79749017 TCCTCAATTA
Statistics
Matches: 207, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 26 0.13
40 181 0.87
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (40 bp):
AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
Found at i:79751553 original size:19 final size:20
Alignment explanation
Indices: 79751529--79751568 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
79751519 ATCTGAACAC
*
79751529 CTTTTTCCAAGGTGAAACTT
1 CTTTTTCCAAGGCGAAACTT
79751549 CTTTTTCCAAGGCGAAACTT
1 CTTTTTCCAAGGCGAAACTT
79751569 TAAGAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
CTTTTTCCAAGGCGAAACTT
Found at i:79751682 original size:14 final size:14
Alignment explanation
Indices: 79751659--79751689 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79751649 GCTTTCAGAC
*
79751659 TTTCATGGATTACT
1 TTTCACGGATTACT
79751673 TTTCACGGATTACT
1 TTTCACGGATTACT
79751687 TTT
1 TTT
79751690 ACTTTCTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTCACGGATTACT
Found at i:79756943 original size:66 final size:66
Alignment explanation
Indices: 79756837--79756969 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
79756827 CTTATCATTA
*
79756837 TTAAGCATTTTCTCAACTAAATCATGGCCATATCACAAAATTATTTACACAAAATAGGTGTATTG
1 TTAAGCATTTTCTCAACCAAATCATGGCCATATCACAAAATTATTTACACAAAATAGGTGTATTG
79756902 C
66 C
79756903 TTAAGCATTTTCTCAACCAAATCATGGCCATATCACAAAATTATTTACACAAAATAGGTGTATTG
1 TTAAGCATTTTCTCAACCAAATCATGGCCATATCACAAAATTATTTACACAAAATAGGTGTATTG
79756968 C
66 C
79756969 T
1 T
79756970 ATACATGTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (66 bp):
TTAAGCATTTTCTCAACCAAATCATGGCCATATCACAAAATTATTTACACAAAATAGGTGTATTG
C
Found at i:79757571 original size:30 final size:30
Alignment explanation
Indices: 79757537--79757596 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
79757527 CCTTAATACG
79757537 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
79757567 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
79757597 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:79768652 original size:40 final size:40
Alignment explanation
Indices: 79768567--79768874 Score: 465
Period size: 40 Copynumber: 7.7 Consensus size: 40
79768557 TCCAAACACA
* * *
79768567 AATGCCTTCGGGACTTAGCCCAGATATAAC-ACCAGTACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
* * ** *
79768606 AGTGCCTTCGGAACTTGGCCCGGATATAACAACCAGTACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
* *
79768646 AATGCCTTCAGGACTTAGCCCGGATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
* * *
79768686 AATGCCTTCGAGACTTAACCTGTATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
79768726 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
*
79768766 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACA
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
*
79768806 AATGCCTTTGGGACTTAACCCGGATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
*
79768846 AAAGCCTTCGGGACTTAACCCGGATATAA
1 AATGCCTTCGGGACTTAACCCGGATATAA
79768875 TCCTCAATTA
Statistics
Matches: 246, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 26 0.11
40 220 0.89
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
Found at i:79775452 original size:94 final size:94
Alignment explanation
Indices: 79775291--79775478 Score: 304
Period size: 94 Copynumber: 2.0 Consensus size: 94
79775281 AGTCGCCATG
* * * *
79775291 CTCCATAAGAAGTAAGCATCGGTGGTGCTAATGACACCAGTGTTCTCTCTTCTCCCAGTCAAGGT
1 CTCCATAAGAAGTAAGCATCGATGGTGCTAACGACACCAGTGCTCTCTCTCCTCCCAGTCAAGGT
79775356 ATGAGCCAAGATAGCATGGATGTAGCGTA
66 ATGAGCCAAGATAGCATGGATGTAGCGTA
** *
79775385 CTCCATAAGAAGTAAGCATCGATGGTGCTAACGATGCCGGTGCTCTCTCTCCTCCCAGTCAAGGT
1 CTCCATAAGAAGTAAGCATCGATGGTGCTAACGACACCAGTGCTCTCTCTCCTCCCAGTCAAGGT
*
79775450 ATGAGCCAAGATAGTATGGATGTAGCGTA
66 ATGAGCCAAGATAGCATGGATGTAGCGTA
79775479 GTGCTGGAGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (94 bp):
CTCCATAAGAAGTAAGCATCGATGGTGCTAACGACACCAGTGCTCTCTCTCCTCCCAGTCAAGGT
ATGAGCCAAGATAGCATGGATGTAGCGTA
Found at i:79776661 original size:24 final size:23
Alignment explanation
Indices: 79776634--79776703 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
79776624 GATGAAAGGG
79776634 GAAAAGAAAGGGAAGGGAAAAGA
1 GAAAAGAAAGGGAAGGGAAAAGA
* **
79776657 -AGAAAGAATGGGGAAGAAAGAAAGA
1 GA-AAAGAA-AGGGAAGGGA-AAAGA
* *
79776682 GAAAAGAAAAGGAAGGGGAAAG
1 GAAAAGAAAGGGAAGGGAAAAG
79776704 GGGTCGGCCG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 12 0.34
25 11 0.31
26 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (23 bp):
GAAAAGAAAGGGAAGGGAAAAGA
Found at i:79780310 original size:46 final size:46
Alignment explanation
Indices: 79780233--79780389 Score: 244
Period size: 46 Copynumber: 3.4 Consensus size: 46
79780223 GGCGAATTCA
* * * *
79780233 GACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCG
79780279 GACTCAACTCAACGAGTTCGGACG-TCTGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACGTTC-GCATCCATAAGTGAACTCG
* *
79780325 GACTCAACTCAACGAGTTCGTATGTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCG
79780371 GACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGTTC
79780390 AAATGCCTAA
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
45 2 0.02
46 99 0.96
47 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCG
Found at i:79785525 original size:46 final size:46
Alignment explanation
Indices: 79785402--79785527 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
79785392 TGTAACCCGC
* * *
79785402 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
79785448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
79785494 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
79785528 AGATGCCTAG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:79791542 original size:23 final size:23
Alignment explanation
Indices: 79791516--79791573 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
79791506 TCCATATTCA
*
79791516 AAACATACCAAATCATGC-TTCTC
1 AAACATACCAAATCAT-CATCCTC
* *
79791539 AAACATATCAATTCATCATCCTC
1 AAACATACCAAATCATCATCCTC
79791562 AAATCATACCAA
1 AAA-CATACCAA
79791574 CATATACCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 21 0.72
24 7 0.24
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (23 bp):
AAACATACCAAATCATCATCCTC
Found at i:79800194 original size:17 final size:17
Alignment explanation
Indices: 79800172--79800206 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
79800162 TTAGTCTATT
79800172 CTAAGGAAACTCATGAG
1 CTAAGGAAACTCATGAG
79800189 CTAAGGAAACTCATGAG
1 CTAAGGAAACTCATGAG
79800206 C
1 C
79800207 CATCAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (17 bp):
CTAAGGAAACTCATGAG
Found at i:79801021 original size:91 final size:90
Alignment explanation
Indices: 79800863--79801067 Score: 281
Period size: 91 Copynumber: 2.3 Consensus size: 90
79800853 GACACTCCAG
* * *
79800863 TTTGTGGTTAAACCACCAGTGTTT-TAGGTTAATACGTTGTTAGTAGCTGTGAATACACAACGAG
1 TTTGTGGATAAATCACCAGTGTTTGTAGGTTAATACGTTGCTAGTAGCTGTGAATACACAACGAG
79800927 TTTGCAGATAAAAGCCGCCAATAAA
66 TTTGCAGATAAAAGCCGCCAATAAA
* *
79800952 TTTGTGGATAAATCACCACTGTTTGTAGGTTAATACGCTT-CTAGTAGGTCGTGAATACACAAC-
1 TTTGTGGATAAATCACCAGTGTTTGTAGGTTAATACG-TTGCTAGTAGCT-GTGAATACACAACG
* * *
79801015 ATGTTTGCAGATAAAAGCTGCTAGTAAA
64 A-GTTTGCAGATAAAAGCCGCCAATAAA
*
79801043 TTTGAGGATAAATCACCAGTGTTTG
1 TTTGTGGATAAATCACCAGTGTTTG
79801068 CAAAAAAACT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
89 21 0.21
90 20 0.20
91 61 0.60
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (90 bp):
TTTGTGGATAAATCACCAGTGTTTGTAGGTTAATACGTTGCTAGTAGCTGTGAATACACAACGAG
TTTGCAGATAAAAGCCGCCAATAAA
Found at i:79810812 original size:40 final size:39
Alignment explanation
Indices: 79810781--79810990 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
79810771 GGACTAAGAT
* *
79810781 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
79810821 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
79810861 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
79810901 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
79810941 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
79810980 CCGAAGGCATT
1 CCGAAGGCATT
79810991 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:79810944 original size:120 final size:120
Alignment explanation
Indices: 79810728--79810990 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
79810718 TTGAATGCTG
* *
79810728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
79810792 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
79810848 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
79810911 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
79810967 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
79810991 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:79811010 original size:79 final size:80
Alignment explanation
Indices: 79810781--79811025 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
79810771 GGACTAAGAT
* * * * * * * ** *
79810781 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
79810844 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
79810861 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
79810926 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
79810941 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
79811005 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
79811019 CCGAAGG
1 CCGAAGG
79811026 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:79816314 original size:44 final size:43
Alignment explanation
Indices: 79816265--79816874 Score: 239
Period size: 44 Copynumber: 14.2 Consensus size: 43
79816255 ATCTACTCTG
* * *
79816265 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* ** ** * * *
79816309 CTGTAACTTCAGGGAGATTGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * *
79816352 CTGTAATCTCAGGGAGATAAGATCTTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* * ** * * *
79816396 CTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* ***
79816439 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTTTTCAATCTGCTCCA
* ** **
79816483 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTT-GGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGATCC----TTTTTTCAATCTGCTCCA
* * ** * * * *
79816529 CTGTAATCTTAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
79816570 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * * * *
79816609 TTGTAATCTCAAGGAGATAGGATTACTATCTTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* ** *
79816653 CTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTT-GGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TT-TTTCAATCTGCTCCA
* ** * * * *
79816699 CTGTAATCTCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
79816740 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * ** * *
79816779 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* * * *
79816823 CTGTAATCTCAGGGAGATAAGATCTGCTTCTTT-AACCAGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC--CTTTTTTCAATCTGCTCCA
79816867 CTGTAACC
1 CTGTAACC
79816875 AATGAAGGCA
Statistics
Matches: 421, Mismatches: 120, Indels: 50
0.71 0.20 0.08
Matches are distributed among these distances:
39 50 0.12
40 4 0.01
41 56 0.13
42 6 0.01
43 66 0.16
44 168 0.40
45 6 0.01
46 62 0.15
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
Found at i:79816369 original size:87 final size:87
Alignment explanation
Indices: 79816253--79816501 Score: 374
Period size: 87 Copynumber: 2.9 Consensus size: 87
79816243 AGACCTGATG
* * * *
79816253 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
*
79816318 CAGGGAGATTGGATAGTGTTTT
66 CAGGGAGATAGGATAGTGTTTT
*
79816340 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
79816405 CAGGGAGATAGGATAGTGTTTT
66 CAGGGAGATAGGATAGTGTTTT
*** * * *
79816427 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACC
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAACT
79816491 TCAGGGAGATA
65 TCAGGGAGATA
79816502 AGATCCGAAA
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 1 0.01
87 147 0.99
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (87 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATAGTGTTTT
Found at i:79816573 original size:87 final size:86
Alignment explanation
Indices: 79816439--79816764 Score: 292
Period size: 87 Copynumber: 3.8 Consensus size: 86
79816429 ATCTGCTCCG
* * *
79816439 CTGTAATCTCAGGGAGATAAGATCTCTGGCT-TCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGA-C-CT-GATGT-GATCTGCTCCACTGTAACCTCAGAGAGATAA
79816503 GATCCGAAATTCTTTGGTCTATTCCA
62 GATCCGAAATTCTTTGGTCT-TTCCA
* * * *
79816529 CTGTAATCTTAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGATC
** *
79816594 CTTTAA-TC---CG-C--TCCA
66 C-GAAATTCTTTGGTCTTTCCA
* * * * * * * *
79816609 TTGTAATCTCAAGGAGATAGGATTACT-ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGA--CCTGA--TGTGATCTGCTCCACTGTAACCTCAGAGAGATAA
*
79816673 GATCTGAAATTCTTTGGTCTGTTCCA
62 GATCCGAAATTCTTTGGTCT-TTCCA
* * *
79816699 CTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGATC
79816764 C
66 C
79816765 TTTAATCCGC
Statistics
Matches: 183, Mismatches: 38, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
80 22 0.12
81 1 0.01
82 4 0.02
83 34 0.19
84 1 0.01
86 1 0.01
87 67 0.37
88 7 0.04
89 2 0.01
90 44 0.24
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (86 bp):
CTGTAATCTCAGGGAGATAAGACCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGATC
CGAAATTCTTTGGTCTTTCCA
Found at i:79816670 original size:83 final size:83
Alignment explanation
Indices: 79816570--79816846 Score: 287
Period size: 83 Copynumber: 3.3 Consensus size: 83
79816560 ATCTTCTCTA
79816570 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
79816635 TATCTTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
* ** * * * *
79816653 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGAT
1 CTGTAACT-TCAGAGAGATAAGATC-------CTTTAATCCGCTCCATTGTAATCTCAAGGAGAT
* * * * **
79816717 AAGA--CCTGA--TGTGATCTTCTCTA
58 AGGATTACT-ATCTTTGATCTGCTCCG
79816740 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
79816805 TATCCTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
*
79816823 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
79816847 TGCTTCTTTA
Statistics
Matches: 151, Mismatches: 28, Indels: 30
0.72 0.13 0.14
Matches are distributed among these distances:
80 30 0.20
81 1 0.01
82 4 0.03
83 51 0.34
87 31 0.21
88 3 0.02
89 1 0.01
90 30 0.20
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (83 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
TATCTTTGATCTGCTCCG
Found at i:79816705 original size:46 final size:46
Alignment explanation
Indices: 79816637--79816725 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
79816627 AGGATTACTA
* *
79816637 TCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAAAT
* *
79816683 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
79816726 TGTGATCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (46 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAAAT
Found at i:79816847 original size:170 final size:170
Alignment explanation
Indices: 79816473--79816848 Score: 698
Period size: 170 Copynumber: 2.2 Consensus size: 170
79816463 TCTGGCTTCA
* * *
79816473 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
*
79816538 TAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
*
79816603 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
*
79816643 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
79816708 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
79816773 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
79816813 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
79816849 CTTCTTTAAC
Statistics
Matches: 200, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 200 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (170 bp):
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
Found at i:79818017 original size:21 final size:21
Alignment explanation
Indices: 79817991--79818037 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
79817981 GGTATAGCAG
79817991 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
79818012 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
79818033 GATCA
1 GATCA
79818038 ATATTTAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:79819058 original size:7 final size:8
Alignment explanation
Indices: 79819033--79819062 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
79819023 CTATTTTGAC
79819033 TTTGATTTT
1 TTTGA-TTT
79819042 TTTGATTT
1 TTTGATTT
79819050 TTTGATTT
1 TTTGATTT
79819058 TTTGA
1 TTTGA
79819063 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:79821646 original size:19 final size:20
Alignment explanation
Indices: 79821617--79821665 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
79821607 CACTTCGTGA
* *
79821617 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
79821636 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
79821656 AAATG-AATGC
1 AAATGTAATGC
79821666 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:79825525 original size:20 final size:21
Alignment explanation
Indices: 79825481--79825526 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
79825471 TTTTCTTATA
*
79825481 TAATTTTAAAAGAGATAGTAT
1 TAATTTTAAAAGAGATAGAAT
* *
79825502 TAATTTTAAAA-ATATTGAAT
1 TAATTTTAAAAGAGATAGAAT
79825522 TAATT
1 TAATT
79825527 ATCATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
TAATTTTAAAAGAGATAGAAT
Found at i:79825673 original size:21 final size:21
Alignment explanation
Indices: 79825649--79825693 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
79825639 TAGTTGGAGT
* *
79825649 TTAAGATTTAGGGGTTATGGG
1 TTAAGAATTAGGGGTTAGGGG
79825670 TTAAGAATTAGGGGTTAGGGG
1 TTAAGAATTAGGGGTTAGGGG
79825691 TTA
1 TTA
79825694 GGGGATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.36
Consensus pattern (21 bp):
TTAAGAATTAGGGGTTAGGGG
Found at i:79825687 original size:7 final size:7
Alignment explanation
Indices: 79825656--79825721 Score: 60
Period size: 7 Copynumber: 9.4 Consensus size: 7
79825646 AGTTTAAGAT
79825656 TTAGGGG
1 TTAGGGG
*
79825663 TTATGGG
1 TTAGGGG
* **
79825670 TTAAGAA
1 TTAGGGG
79825677 TTAGGGG
1 TTAGGGG
79825684 TTAGGGG
1 TTAGGGG
79825691 TTAGGGG
1 TTAGGGG
* * *
79825698 ATAAGGA
1 TTAGGGG
79825705 TTAGGGG
1 TTAGGGG
*
79825712 TTAAGGG
1 TTAGGGG
79825719 TTA
1 TTA
79825722 AAAGTTTATG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:79825687 original size:28 final size:28
Alignment explanation
Indices: 79825656--79825721 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
79825646 AGTTTAAGAT
* *
79825656 TTAGGGGTTATGGGTTAAGAATTAGGGG
1 TTAGGGGTTAGGGGATAAGAATTAGGGG
*
79825684 TTAGGGGTTAGGGGATAAGGATTAGGGG
1 TTAGGGGTTAGGGGATAAGAATTAGGGG
*
79825712 TTAAGGGTTA
1 TTAGGGGTTA
79825722 AAAGTTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (28 bp):
TTAGGGGTTAGGGGATAAGAATTAGGGG
Found at i:79826927 original size:21 final size:21
Alignment explanation
Indices: 79826901--79826942 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
79826891 GATAGCTTTT
*
79826901 AGCGGCATGTTTCTAAAGCGC
1 AGCGGCACGTTTCTAAAGCGC
*
79826922 AGCGGCGCGTTTCTAAAGCGC
1 AGCGGCACGTTTCTAAAGCGC
79826943 CGCAAACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.21
Consensus pattern (21 bp):
AGCGGCACGTTTCTAAAGCGC
Found at i:79833582 original size:6 final size:6
Alignment explanation
Indices: 79833573--79833611 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
79833563 AATTAAAAGT
* * *
79833573 AAAATC AAAATA AAAATC AATATT AAAATC AAAATC AAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAA
79833612 GCTAGATAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATC
Found at i:79833589 original size:24 final size:24
Alignment explanation
Indices: 79833562--79833607 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
79833552 AAAAGAGAAC
*
79833562 AAATTAAAAGTAAAATCAAAATAA
1 AAATCAAAAGTAAAATCAAAATAA
* *
79833586 AAATCAATATTAAAATCAAAAT
1 AAATCAAAAGTAAAATCAAAAT
79833608 CAAAGCTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATCAAAAGTAAAATCAAAATAA
Found at i:79847782 original size:5 final size:5
Alignment explanation
Indices: 79847772--79847819 Score: 82
Period size: 5 Copynumber: 10.0 Consensus size: 5
79847762 AATAATTAAG
79847772 TATAT TATA- T-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
79847820 AAAAGAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 37 0.90
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:79848647 original size:40 final size:40
Alignment explanation
Indices: 79848600--79848680 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
79848590 AATTATGTGA
* ** *
79848600 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* * *
79848640 TACTGAATAATGTTACGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
79848680 T
1 T
79848681 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:79848945 original size:45 final size:45
Alignment explanation
Indices: 79848892--79848998 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
79848882 CGACTACTAT
* *
79848892 TACTGTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* * *
79848937 TATTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
*
79848982 TACCGTTACTGATTACT
1 TACTGTTACTG-TTACT
79848999 AATTAGGTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:79855032 original size:26 final size:24
Alignment explanation
Indices: 79855003--79855063 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
79854993 ATATTAAAGA
79855003 TTTTATTTATTAAAATATATATATAT
1 TTTTATTTATT-AAATATAT-TATAT
* * *
79855029 TTTTAATAATTAAGTATATTATAT
1 TTTTATTTATTAAATATATTATAT
*
79855053 TATTATATTAT
1 TTTTAT-TTAT
79855064 ATTATTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.32
25 10 0.36
26 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTATTTATTAAATATATTATAT
Found at i:79855061 original size:13 final size:13
Alignment explanation
Indices: 79855043--79855073 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
79855033 AATAATTAAG
79855043 TATATTATATTAT
1 TATATTATATTAT
79855056 TATATTATATTAT
1 TATATTATATTAT
79855069 TATAT
1 TATAT
79855074 ATAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:79855754 original size:23 final size:23
Alignment explanation
Indices: 79855714--79855772 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
79855704 AAAAGTTATC
* *
79855714 TACAAATTAAATC-TCTAAA-AT
1 TACAAATCATATCTTCTAAAGAT
79855735 TACAGAATCATATCTTCTAAAGAT
1 TACA-AATCATATCTTCTAAAGAT
*
79855759 TACATATCATATCT
1 TACAAATCATATCT
79855773 AGGATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 15 0.47
24 6 0.19
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (23 bp):
TACAAATCATATCTTCTAAAGAT
Found at i:79864318 original size:23 final size:23
Alignment explanation
Indices: 79864236--79864322 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
79864226 CCTAATCAGT
*
79864236 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
79864258 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
79864278 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
79864301 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
79864323 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:79864718 original size:15 final size:15
Alignment explanation
Indices: 79864693--79864750 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
79864683 TCATATATAT
79864693 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
79864709 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
79864724 AATAATTTCAATCAA
1 TATAAATTCAATCAA
79864739 TATAAATTCAAT
1 TATAAATTCAAT
79864751 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:79866032 original size:5 final size:5
Alignment explanation
Indices: 79866019--79866065 Score: 85
Period size: 5 Copynumber: 9.2 Consensus size: 5
79866009 TTCTTTAGTT
79866019 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
79866066 TAAAACATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:79866101 original size:8 final size:8
Alignment explanation
Indices: 79866088--79866116 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
79866078 TATCTTTATT
79866088 ATATAATA
1 ATATAATA
79866096 ATATAATA
1 ATATAATA
79866104 ATATAATA
1 ATATAATA
79866112 ATATA
1 ATATA
79866117 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:79870362 original size:40 final size:40
Alignment explanation
Indices: 79870286--79870397 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
79870276 GAAACTATTT
* * ** * *
79870286 GGGCCTTAGCCCACTCAGTTGTAGAATCAGATATATAATA
1 GGGCCTTAGCCCAATCAGATACAGAATCAAAAATATAATA
* *
79870326 GGGCCTTAGCCCAATCAGATACAGAGTCAAAAATATATTA
1 GGGCCTTAGCCCAATCAGATACAGAATCAAAAATATAATA
* * *
79870366 GGGCCTCAGCCTAATCAGACACAGAATGCAAA
1 GGGCCTTAGCCCAATCAGATACAGAAT-CAAA
79870398 TTAGAATATC
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 55 0.93
41 4 0.07
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
GGGCCTTAGCCCAATCAGATACAGAATCAAAAATATAATA
Found at i:79878084 original size:40 final size:40
Alignment explanation
Indices: 79878029--79878147 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 40
79878019 TGATCTACAT
*
79878029 TCTGTATTTGATTGGGCTGAGGCCCTAATATATTTTTGAC
1 TCTGTATTTGATTGGGCTAAGGCCCTAATATATTTTTGAC
* *
79878069 TCTGTATTTGATTGGGCTAAGGCCCTATTATATATATTTGAT
1 TCTGTATTTGATTGGGCTAAGGCCCTA--ATATATTTTTGAC
* * *
79878111 TCTGTAATCGAGTGGGCTAAGGCCC-AA-ACTATTTTTG
1 TCTGTATTTGATTGGGCTAAGGCCCTAATA-TATTTTTG
79878148 TAATGGGCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 8 0.12
40 26 0.38
41 1 0.01
42 33 0.48
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (40 bp):
TCTGTATTTGATTGGGCTAAGGCCCTAATATATTTTTGAC
Found at i:79878115 original size:42 final size:40
Alignment explanation
Indices: 79878027--79878135 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 40
79878017 TCTGATCTAC
* *
79878027 ATTCTGTATTTGATTGGGCTGAGGCCCTAATATATTTTTG
1 ATTCTGTATTTGATTGGGCTAAGGCCCTAATATATATTTG
*
79878067 ACTCTGTATTTGATTGGGCTAAGGCCCTATTATATATATTTG
1 ATTCTGTATTTGATTGGGCTAAGGCCCTA--ATATATATTTG
* * *
79878109 ATTCTGTAATCGAGTGGGCTAAGGCCC
1 ATTCTGTATTTGATTGGGCTAAGGCCC
79878136 AAACTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 27 0.45
42 33 0.55
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (40 bp):
ATTCTGTATTTGATTGGGCTAAGGCCCTAATATATATTTG
Found at i:79889957 original size:28 final size:28
Alignment explanation
Indices: 79889917--79889973 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
79889907 AGACATAGAC
79889917 AGACCGGTGCGGCAGAGGGCTCAACGCT
1 AGACCGGTGCGGCAGAGGGCTCAACGCT
79889945 AGACCGGTGCGGCAGAGGGCTCAACGCT
1 AGACCGGTGCGGCAGAGGGCTCAACGCT
79889973 A
1 A
79889974 ACTACATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.39, T:0.11
Consensus pattern (28 bp):
AGACCGGTGCGGCAGAGGGCTCAACGCT
Found at i:79893891 original size:44 final size:43
Alignment explanation
Indices: 79893800--79893891 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
79893790 TCAAATTCAA
* * *
79893800 TTTAATTATTTTATTTTTTATTTTAGGTAAATAAGATTAATTT
1 TTTAATTATTTTATTTTTCATTTTAGATAAATAAAATTAATTT
* *
79893843 TTTAATTGTTTTATTTTTCATTTT-GAATCAAATAAAATTATTTT
1 TTTAATTATTTTATTTTTCATTTTAG-AT-AAATAAAATTAATTT
79893887 TTTAA
1 TTTAA
79893892 AAGTTTTGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 23 0.55
44 18 0.43
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (43 bp):
TTTAATTATTTTATTTTTCATTTTAGATAAATAAAATTAATTT
Found at i:79894371 original size:5 final size:5
Alignment explanation
Indices: 79894361--79894392 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
79894351 TGTAAACACC
79894361 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
79894393 AGGCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:79894782 original size:13 final size:13
Alignment explanation
Indices: 79894766--79894803 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
79894756 GGCCAATCCA
*
79894766 ACCCAACCCATTT
1 ACCCAACCCAATT
*
79894779 ACCCAACCTAATT
1 ACCCAACCCAATT
79894792 ACCCAACCCAAT
1 ACCCAACCCAAT
79894804 ACAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:79894985 original size:9 final size:9
Alignment explanation
Indices: 79894973--79895015 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
79894963 TTCAAATCTC
79894973 TCAAAACCT
1 TCAAAACCT
*
79894982 TCAAAATCT
1 TCAAAACCT
*
79894991 TCAAAATCT
1 TCAAAACCT
*
79895000 CCCAAAACCT
1 -TCAAAACCT
79895010 TCAAAA
1 TCAAAA
79895016 GTATCATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (9 bp):
TCAAAACCT
Found at i:79894999 original size:28 final size:26
Alignment explanation
Indices: 79894958--79895015 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 26
79894948 CTCCTAATTG
*
79894958 AAAATTTCAAATCTCTCAAAACCTTC
1 AAAATTTCAAATCTCCCAAAACCTTC
79894984 AAAATCTTCAAAATCTCCCAAAACCTTC
1 AAAAT-TTC-AAATCTCCCAAAACCTTC
79895012 AAAA
1 AAAA
79895016 GTATCATAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.17
27 3 0.10
28 21 0.72
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATTTCAAATCTCCCAAAACCTTC
Found at i:79898702 original size:17 final size:17
Alignment explanation
Indices: 79898682--79898779 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
79898672 ATTTCAAGAC
79898682 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* **
79898699 TTATGTAGTGATTCATAGA
1 TTATGTAATG-TTTTTA-A
*
79898718 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* * **
79898736 TTATGTAGTGATTCAAA
1 TTATGTAATGTTTTTAA
79898753 GTCTTATGTAATGTTTTTAA
1 ---TTATGTAATGTTTTTAA
79898773 TTATGTA
1 TTATGTA
79898780 GTGATTCAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 28 0.47
18 5 0.08
19 5 0.08
20 21 0.36
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:79898719 original size:37 final size:36
Alignment explanation
Indices: 79898674--79898788 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 36
79898664 ATGTGTTAAT
79898674 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
1 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
*
79898710 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
1 TTCA-AGACTTATGTAATGTTTTTAATTATGTAGTGA
*
79898747 TTCAAAGTCTTATGTAATGTTTTTAATTATGTAGTGA
1 TTC-AAGACTTATGTAATGTTTTTAATTATGTAGTGA
79898784 TTCAA
1 TTCAA
79898789 TTCGGGTAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 6 0.08
37 67 0.91
38 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (36 bp):
TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
Found at i:79898812 original size:9 final size:9
Alignment explanation
Indices: 79898787--79898834 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
79898777 GTAGTGATTC
*
79898787 AATTCGGGT
1 AATTCGGTT
79898796 AA-TCGGTT
1 AATTCGGTT
79898804 AATTCGGTT
1 AATTCGGTT
*
79898813 AATTCGGGT
1 AATTCGGTT
*
79898822 AATTCGATT
1 AATTCGGTT
79898831 AATT
1 AATT
79898835 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:79900230 original size:13 final size:13
Alignment explanation
Indices: 79900214--79900239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79900204 GCAAAAAAAA
79900214 AAAAGGAAAAAGG
1 AAAAGGAAAAAGG
79900227 AAAAGGAAAAAGG
1 AAAAGGAAAAAGG
79900240 TCAAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAAAGGAAAAAGG
Found at i:79904681 original size:13 final size:14
Alignment explanation
Indices: 79904657--79904694 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
79904647 TAGATACAGT
*
79904657 AAAATATTTTTTAA
1 AAAATAATTTTTAA
79904671 AAAATAATTTTTAA
1 AAAATAATTTTTAA
79904685 AAAATAATTT
1 AAAATAATTT
79904695 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:79904702 original size:19 final size:18
Alignment explanation
Indices: 79904661--79904713 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
79904651 TACAGTAAAA
79904661 TATTTTTT-AAAA-AA-T
1 TATTTTTTAAAAATAATT
* *
79904676 AATTTTTAAAAAATAATT
1 TATTTTTTAAAAATAATT
79904694 TATTTTTTAAAAATAATT
1 TATTTTTTAAAAATAATT
79904712 TA
1 TA
79904714 ATTTAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 6 0.19
16 4 0.13
17 2 0.06
18 19 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTTTAAAAATAATT
Found at i:79904717 original size:19 final size:19
Alignment explanation
Indices: 79904675--79904717 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
79904665 TTTTAAAAAA
79904675 TAATTTTTAAAAAATAATT
1 TAATTTTTAAAAAATAATT
*
79904694 T-ATTTTTTAAAAATAATT
1 TAATTTTTAAAAAATAATT
79904712 TAATTT
1 TAATTT
79904718 AATATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTTTTAAAAAATAATT
Found at i:79907141 original size:21 final size:20
Alignment explanation
Indices: 79907117--79907155 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
79907107 GTTAAAAATA
79907117 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
79907138 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
79907156 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:79909773 original size:92 final size:92
Alignment explanation
Indices: 79909616--79909798 Score: 303
Period size: 92 Copynumber: 2.0 Consensus size: 92
79909606 CCCATATTAA
*
79909616 GTTTCGTTCTTTAGACTCAGTTAAAATCGTGGAAAAGCCTTCAACATATAGTAAGAATAAATAAG
1 GTTTCGTTCTTTAGACTCAGTTAAAATCGTGGAAAAGACTTCAACATATAGTAAGAATAAATAAG
* *
79909681 GGTTGAGAGGTCGTAGACCCCTTAAAG
66 GGTTAAGAGATCGTAGACCCCTTAAAG
* * *
79909708 GTTTCGTTCTTTAGCCTCAGTTAAAATCGTGGAAAAGATTTCAGCATATAGTAAGAATAAATAAG
1 GTTTCGTTCTTTAGACTCAGTTAAAATCGTGGAAAAGACTTCAACATATAGTAAGAATAAATAAG
*
79909773 GGTTAAGCGATCGTAGACCCCTTAAA
66 GGTTAAGAGATCGTAGACCCCTTAAA
79909799 AGGCACAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (92 bp):
GTTTCGTTCTTTAGACTCAGTTAAAATCGTGGAAAAGACTTCAACATATAGTAAGAATAAATAAG
GGTTAAGAGATCGTAGACCCCTTAAAG
Found at i:79913967 original size:34 final size:35
Alignment explanation
Indices: 79913926--79913995 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
79913916 TAAAATAAAA
*
79913926 ATAATA-TTTTTTATATAAAAGTTTAAAATTATGG
1 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
79913960 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
1 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
79913995 A
1 A
79913996 CAGACTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 6 0.18
35 28 0.82
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (35 bp):
ATAATATTTTTTTATATAAAAATTTAAAATTATGG
Found at i:79916906 original size:27 final size:28
Alignment explanation
Indices: 79916874--79916929 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
79916864 AAAATGATAA
* *
79916874 TTCAAGTACTAAAATGAGAAAAA-AAGT
1 TTCAAGTACCAAAATGAAAAAAAGAAGT
*
79916901 TTCAAGTACCAAAATTAAAAAAAGAAGT
1 TTCAAGTACCAAAATGAAAAAAAGAAGT
79916929 T
1 T
79916930 ATAGTTCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (28 bp):
TTCAAGTACCAAAATGAAAAAAAGAAGT
Found at i:79921435 original size:28 final size:27
Alignment explanation
Indices: 79921391--79921443 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
79921381 GAAATACATA
* *
79921391 AAAAATTTCAAAAAAAATTAATAAATTT
1 AAAAATATCAAAAAAAAATAA-AAATTT
79921419 AAAAATAT-AAAATAAAAATAAAAAT
1 AAAAATATCAAAA-AAAAATAAAAAT
79921444 AAATTTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (27 bp):
AAAAATATCAAAAAAAAATAAAAATTT
Found at i:79921442 original size:12 final size:13
Alignment explanation
Indices: 79921418--79921446 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
79921408 TTAATAAATT
79921418 TAAAAATATAAAA
1 TAAAAATATAAAA
79921431 TAAAAATA-AAAA
1 TAAAAATATAAAA
79921443 TAAA
1 TAAA
79921447 TTTAACCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAAATATAAAA
Found at i:79922094 original size:14 final size:15
Alignment explanation
Indices: 79922075--79922111 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
79922065 TTAAAGAAAA
79922075 ATAATATATTA-ATT
1 ATAATATATTACATT
79922089 ATAATAATATTACATT
1 ATAAT-ATATTACATT
79922105 A-AATATA
1 ATAATATA
79922112 AATATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 9 0.43
16 4 0.19
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATATATTACATT
Found at i:79926631 original size:135 final size:135
Alignment explanation
Indices: 79926514--79927028 Score: 735
Period size: 135 Copynumber: 3.8 Consensus size: 135
79926504 TGTCGATCCA
* * * * * * * * * *
79926514 TGGAGATAAGATTCACCGAAATTTGGTCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTAT
1 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
* * **
79926579 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGTTTAATCGCCG
66 ATTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCCG
79926644 GTACG
131 GTACG
* * * *
79926649 TGGAGATAAGATTCTCCAAAATTCAATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
1 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
* * * * *
79926714 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGACAAGGTTGATGATTGGAATCTGCTCCATCGTCG
66 ATTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCCG
79926779 GTACG
131 GTACG
*
79926784 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCGGGTAT
1 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
* * * *
79926849 GTTTAACCTGCTCCACTCCTGCTTAGTGAAGAT-AAGATTGGTGATTGGAATCTGCTCCATCGCC
66 ATTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAAG-CTGATGATTGGAATCTGCTCCATCGCC
79926913 GGTACG
130 GGTACG
79926919 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
1 TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
* * *
79926984 GTTTAACCTGCTCCACTCCTGCTTAGTGAAGATAAGGCTGATGAT
66 ATTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGAT
79927029 ATCTGTCTTT
Statistics
Matches: 345, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
134 2 0.01
135 341 0.99
136 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (135 bp):
TGGAGATAAGATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
ATTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCCG
GTACG
Found at i:79926866 original size:45 final size:45
Alignment explanation
Indices: 79926811--79927019 Score: 156
Period size: 45 Copynumber: 4.6 Consensus size: 45
79926801 AAAACTCGAT
* *
79926811 CTGCTTCACTCTTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
* * ** *
79926856 CTGCTCCACTCCTGCTTAGTGAAGATAAGAT-TGGTGAT-TGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGGT-ATGTTTAAC
* * * **** *** ** *
79926900 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCTCCAAAACTCGAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TCGGGTATGTTTAAC
*
79926946 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
*
79926991 CTGCTCCACTCCTGCTTAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
79927020 GCTGATGATA
Statistics
Matches: 122, Mismatches: 34, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
43 3 0.02
44 28 0.23
45 64 0.52
46 24 0.20
47 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
Found at i:79938667 original size:2 final size:2
Alignment explanation
Indices: 79938651--79938686 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
79938641 TATGAATAAA
*
79938651 AT AT A- AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79938687 AAAGAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:79944006 original size:20 final size:21
Alignment explanation
Indices: 79943965--79944006 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
79943955 TTTTTTATGT
*
79943965 TAATCATTTTATGTATTTTAA
1 TAATCATTTTATATATTTTAA
79943986 TAAT-ATTTTATAT-TTTATAA
1 TAATCATTTTATATATTT-TAA
79944006 T
1 T
79944007 TTAAAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATCATTTTATATATTTTAA
Found at i:79971927 original size:105 final size:104
Alignment explanation
Indices: 79971766--79972095 Score: 437
Period size: 105 Copynumber: 3.2 Consensus size: 104
79971756 TTAACTGATC
* * * *
79971766 TAAGATTGCAACCTATTTATCTTTGAGTTAGTTGATTTAAGATCACAACTTCTAAACAGCTCGAT
1 TAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAAC-TCTAAACAGCTCGAT
* * *
79971831 GACCTACGTTTACAATTGATTTTATAAAGGCTAGCTGATT
65 GACCTACGTTTACAGTTGATTTTATAAAGGTTAGCTAATT
**
79971871 TAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCGTAACTCCTAAACAGCTCGAT
1 TAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACT-CTAAACAGCTCGAT
* * *
79971936 GACCTACGTTTATAGCTGATTATATAAAGGTTAGCTAATT
65 GACCTACGTTTACAGTTGATTTTATAAAGGTTAGCTAATT
* * * *
79971976 TAAGATTGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCCCAACTCTAAACAGCTCGATA
1 TAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCTAAACAGCTCGATG
* * * *
79972041 ACTTAC-TTTCACTGTTGATTTTATAAATGTTAACTAATT
66 ACCTACGTTT-ACAGTTGATTTTATAAAGGTTAGCTAATT
*
79972080 TAAGATCACAACCTAT
1 TAAGATCGCAACCTAT
79972096 CTAGTGCTGG
Statistics
Matches: 197, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
103 3 0.02
104 57 0.29
105 137 0.70
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (104 bp):
TAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCTAAACAGCTCGATG
ACCTACGTTTACAGTTGATTTTATAAAGGTTAGCTAATT
Found at i:79973947 original size:111 final size:111
Alignment explanation
Indices: 79973753--79973975 Score: 428
Period size: 111 Copynumber: 2.0 Consensus size: 111
79973743 TAGCATAAGG
79973753 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
1 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
*
79973818 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCCTGCAAT
66 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCCTACAAT
*
79973864 GGGTTCGCATCACACTTAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
1 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
79973929 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCCTACAAT
66 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCCTACAAT
79973975 G
1 G
79973976 TAAGAGCCAA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (111 bp):
GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCCTACAAT
Found at i:79974877 original size:18 final size:20
Alignment explanation
Indices: 79974835--79974877 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
79974825 ATTTACCAAC
*
79974835 GAAAGTAGAAATAAAATTTA
1 GAAAGTAGAAAGAAAATTTA
*
79974855 GAAAGT-GAAAGAAATTTTA
1 GAAAGTAGAAAGAAAATTTA
79974874 -AAAG
1 GAAAG
79974878 ATTACCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (20 bp):
GAAAGTAGAAAGAAAATTTA
Found at i:79980390 original size:15 final size:14
Alignment explanation
Indices: 79980370--79980408 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
79980360 GAATAGGTAC
79980370 ATAATAGGATAATA
1 ATAATAGGATAATA
*
79980384 TATAATAAGATAATA
1 -ATAATAGGATAATA
79980399 ATAATGAGGA
1 ATAAT-AGGA
79980409 CAAAAGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.28
Consensus pattern (14 bp):
ATAATAGGATAATA
Found at i:79980438 original size:20 final size:21
Alignment explanation
Indices: 79980415--79980454 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79980405 AGGACAAAAG
79980415 TAAAATAA-AAATGAAATAAA
1 TAAAATAATAAATGAAATAAA
*
79980435 TAAAATAATAATTGAAATAA
1 TAAAATAATAAATGAAATAA
79980455 CAAAGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATAATAAATGAAATAAA
Found at i:79980560 original size:3 final size:3
Alignment explanation
Indices: 79980547--79980731 Score: 92
Period size: 3 Copynumber: 62.7 Consensus size: 3
79980537 GTTTTAAAAA
* * * * **
79980547 AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AAT ACT AAT AAT TCT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * **
79980594 AAT AAT AAT AAC GGT AGT GAT AA- AAT AAT AAT AAT AGT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
79980641 AAT AAT AAT AAC AAT ACT AAT AAA AAT AAT AGT AAC AAC AAT AAC AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
79980689 AAT AAA AAT ACT AA- AAA AAT AAT AA- ATAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
79980732 ATATAAAACT
Statistics
Matches: 134, Mismatches: 41, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
2 7 0.05
3 125 0.93
4 2 0.01
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:79982138 original size:44 final size:44
Alignment explanation
Indices: 79982087--79982209 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
79982077 TAATTTCAAG
* * **
79982087 CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTTAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGTGACTTTAAC
* *
79982131 CTGCTCCACTGCAACTTCAAGGAGATAA-GACTAGAGACTTTAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGA-TTGTGACTTTAAC
* *
79982175 CTGCTCCACTGCAACATCAAGGAGATAAGGTTTGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGT
79982210 TTTGATCTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.03
44 64 0.96
45 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGTGACTTTAAC
Found at i:79982493 original size:132 final size:131
Alignment explanation
Indices: 79982327--79982605 Score: 362
Period size: 132 Copynumber: 2.1 Consensus size: 131
79982317 ACTATAATTC
*
79982327 TAGGGAGATAAGA-CTTGTATATTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGC
1 TAGGGAGATAAGATC-TGAATATTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGC
* * * * * * *
79982391 TTAAATCTGCTTCCTTGCTACCTCGGGAAGATAAGATTCATCGTCTTTGATCTACCCCACTACTG
65 CTAAATCTGCTTCCCTACTACCACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTA
79982456 CT
130 CT
* * * ** * *
79982458 TAGGGAGATAAGATCTGCAATCTTCAGCCTTCTCCACTGCTGCTTAAGGAGATAAGGCTAGTGGC
1 TAGGGAGATAAGATCTG-AATATTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGC
***
79982523 CTAAATCTGCTTCCCTACTACCACGGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTA
65 CTAAATCTGCTTCCCTACTACCACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTA
*
79982588 TT
130 CT
79982590 TAGGGAGATAAGATCT
1 TAGGGAGATAAGATCT
79982606 ATGAATTCAC
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 15 0.12
132 112 0.88
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
TAGGGAGATAAGATCTGAATATTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGCC
TAAATCTGCTTCCCTACTACCACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTAC
T
Done.