Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 44 of 93
Found at i:16816233 original size:13 final size:13
Alignment explanation
Indices: 16816183--16816234 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 13
16816173 AAAAAAAACT
16816183 AAAAAAA-CAAAA
1 AAAAAAACCAAAA
*
16816195 ACAAAAACTCAAAA
1 AAAAAAAC-CAAAA
16816209 AAAAAATCACCAAAA
1 AAAAAA--ACCAAAA
16816224 AAAAAAACCAA
1 AAAAAAACCAA
16816235 CTATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 10 0.29
15 11 0.32
16 2 0.06
ACGTcount: A:0.79, C:0.17, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAACCAAAA
Found at i:16821082 original size:12 final size:12
Alignment explanation
Indices: 16821065--16821108 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
16821055 ATAAGTTAAC
16821065 ATTCAGTTGAAA
1 ATTCAGTTGAAA
*
16821077 ATTCAGTTATCAAA
1 ATTCAG-T-TGAAA
16821091 CATTCAGTTGAAA
1 -ATTCAGTTGAAA
16821104 ATTCA
1 ATTCA
16821109 TAAATGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 11 0.41
13 5 0.19
14 5 0.19
15 6 0.22
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (12 bp):
ATTCAGTTGAAA
Found at i:16827514 original size:3 final size:3
Alignment explanation
Indices: 16827506--16827531 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16827496 AGGTCACCCC
16827506 CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CA
16827532 TCCAATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:16827698 original size:6 final size:6
Alignment explanation
Indices: 16827679--16827715 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16827669 AGCGTCTTAT
* *
16827679 GCAACA GCACCA GCAACA GCCACA GCAACA GCAACA G
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA G
16827716 TTTGCTGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.43, C:0.38, G:0.19, T:0.00
Consensus pattern (6 bp):
GCAACA
Found at i:16830416 original size:17 final size:17
Alignment explanation
Indices: 16830391--16830423 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16830381 GTGCTGGCAT
*
16830391 GGTATTTGATCTTTATG
1 GGTAATTGATCTTTATG
16830408 GGTAATTGATCTTTAT
1 GGTAATTGATCTTTAT
16830424 CGTGCTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.52
Consensus pattern (17 bp):
GGTAATTGATCTTTATG
Found at i:16831409 original size:6 final size:6
Alignment explanation
Indices: 16831400--16831426 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16831390 CCCTCAAAAT
16831400 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
16831427 CATGTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:16831664 original size:3 final size:3
Alignment explanation
Indices: 16831656--16831680 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16831646 ATTGCACATA
16831656 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
16831681 CTTTGTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16833757 original size:2 final size:2
Alignment explanation
Indices: 16833750--16833782 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16833740 AAAGAATGAA
*
16833750 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16833783 GCCCCAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16837842 original size:1 final size:1
Alignment explanation
Indices: 16837838--16837863 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
16837828 GATTTTTTTT
16837838 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
16837864 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:16841363 original size:19 final size:21
Alignment explanation
Indices: 16841339--16841377 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16841329 TTTAAATTAA
16841339 AATTAAAA-T-ATAAAAATTT
1 AATTAAAAGTAATAAAAATTT
16841358 AATTAAAAGTAATAAAAATT
1 AATTAAAAGTAATAAAAATT
16841378 AAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AATTAAAAGTAATAAAAATTT
Found at i:16863074 original size:27 final size:27
Alignment explanation
Indices: 16863024--16863116 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
16863014 CGTACAAGAG
* * *
16863024 CCTAGGGGTGTTTTGAGCGCAGAAGCA
1 CCTAGGGGTGTTCTAAACGCAGAAGCA
* * *
16863051 CTTAGGGGTGTTCTAAACGTAGAAGCG
1 CCTAGGGGTGTTCTAAACGCAGAAGCA
* * **
16863078 CCTA-GGGTGTTCTAAGCGCAAAAGTG
1 CCTAGGGGTGTTCTAAACGCAGAAGCA
*
16863104 CCTAGAGGTGTTC
1 CCTAGGGGTGTTC
16863117 CAAGGAAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 22 0.42
27 31 0.58
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (27 bp):
CCTAGGGGTGTTCTAAACGCAGAAGCA
Found at i:16863114 original size:53 final size:54
Alignment explanation
Indices: 16863003--16863119 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 54
16862993 ACTACATTAG
* * * * * *
16863003 GGTGTTCCAAGCGTACAAGAGCCTAGGGGTGTTTTGAGCGCAGAAGCACTTAGG
1 GGTGTTCCAAACGTACAAGAGCCTAGGGGTGTTCTAAGCGCAAAAGCACCTAGA
* * * **
16863057 GGTGTTCTAAACGTAGAAGCGCCTA-GGGTGTTCTAAGCGCAAAAGTGCCTAGA
1 GGTGTTCCAAACGTACAAGAGCCTAGGGGTGTTCTAAGCGCAAAAGCACCTAGA
16863110 GGTGTTCCAA
1 GGTGTTCCAA
16863120 GGAAAATTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
53 30 0.59
54 21 0.41
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (54 bp):
GGTGTTCCAAACGTACAAGAGCCTAGGGGTGTTCTAAGCGCAAAAGCACCTAGA
Found at i:16863194 original size:27 final size:27
Alignment explanation
Indices: 16863159--16863335 Score: 113
Period size: 27 Copynumber: 6.5 Consensus size: 27
16863149 AGAAAAGCCT
**
16863159 AGGGATGTTCCAAGCGCGGAAGTGCCCA
1 AGGG-TGTTCCAAGCGCGGAAGCACCCA
*
16863187 AGGGTGTTCCAAGCGCGAAAGCACCCA
1 AGGGTGTTCCAAGCGCGGAAGCACCCA
* * * * *
16863214 GGGGTGTTCTAAGCGCAGAAGC-GCCT
1 AGGGTGTTCCAAGCGCGGAAGCACCCA
* * * * *
16863240 AGAGGTGTTCCGAGCACAGAAGCGCCTA
1 AG-GGTGTTCCAAGCGCGGAAGCACCCA
* * * * *
16863268 GGGGCGTTCTAAGCGTGGAAGCACCTA
1 AGGGTGTTCCAAGCGCGGAAGCACCCA
* * * * *
16863295 GGGGCGTTTCAAGTGCAGAAGCACCCA
1 AGGGTGTTCCAAGCGCGGAAGCACCCA
*
16863322 TGGGTGTTCCAAGC
1 AGGGTGTTCCAAGC
16863336 ATAGAAGCGC
Statistics
Matches: 113, Mismatches: 34, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
26 3 0.03
27 104 0.92
28 6 0.05
ACGTcount: A:0.24, C:0.25, G:0.34, T:0.16
Consensus pattern (27 bp):
AGGGTGTTCCAAGCGCGGAAGCACCCA
Found at i:16863222 original size:54 final size:54
Alignment explanation
Indices: 16863135--16863350 Score: 159
Period size: 54 Copynumber: 4.0 Consensus size: 54
16863125 ATTACATCAA
* * * * *
16863135 GGTGTTCCAAGCGTAGAA-AAGCCTAGGGATGTTCCAAGCGCGGAAGTGCCCAAG
1 GGTGTTCCAAGCGCAGAAGCA-CCCAGGGGTGTTCCAAGCGCGGAAGCGCCCAAG
* * *
16863189 GGTGTTCCAAGCGC-GAAAGCACCCAGGGGTGTTCTAAGCGCAGAAGCG-CCTAG
1 GGTGTTCCAAGCGCAG-AAGCACCCAGGGGTGTTCCAAGCGCGGAAGCGCCCAAG
* * * * * * * * * *
16863242 AGGTGTTCCGAGCACAGAAGCGCCTAGGGGCGTTCTAAGCGTGGAAGCACCTAGG
1 -GGTGTTCCAAGCGCAGAAGCACCCAGGGGTGTTCCAAGCGCGGAAGCGCCCAAG
* * * * ***
16863297 GGCGTTTCAAGTGCAGAAGCACCCATGGGTGTTCCAAGCATAGAAGCGCCCAAG
1 GGTGTTCCAAGCGCAGAAGCACCCAGGGGTGTTCCAAGCGCGGAAGCGCCCAAG
16863351 AAGCGTTACA
Statistics
Matches: 123, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
53 5 0.04
54 114 0.93
55 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.33, T:0.16
Consensus pattern (54 bp):
GGTGTTCCAAGCGCAGAAGCACCCAGGGGTGTTCCAAGCGCGGAAGCGCCCAAG
Found at i:16863250 original size:81 final size:79
Alignment explanation
Indices: 16863000--16863350 Score: 215
Period size: 81 Copynumber: 4.4 Consensus size: 79
16862990 AAAACTACAT
* * * * * *** * **
16863000 TAGGGTGTTCCAAGCGTACAAGAGCCTAGGGGTGTTTTGAGCGCAGAAGCACTTAGGGGTGTTCT
1 TAGGGTGTTCCAAGCGCAGAAGTGCCCAAGGGTGTTCCAAGCGGA-AAGCACCCAGGGGTGTTCT
* *
16863065 AAACGTAGAAGCGCC
65 AAGCGCAGAAGCGCC
* * * * ** * *
16863080 TAGGGTGTTCTAAGCGCAAAAGTG-CCTAGAGGTGTTCCAAG-GAAAATTACATCA-AGGTGTTC
1 TAGGGTGTTCCAAGCGCAGAAGTGCCCAAG-GGTGTTCCAAGCGGAAAGCAC-CCAGGGGTGTTC
* * **
16863142 CAAGCGTAGAAAAGCC
64 TAAGCGCAGAAGCGCC
*
16863158 TAGGGATGTTCCAAGCGCGGAAGTGCCCAAGGGTGTTCCAAGCGCGAAAGCACCCAGGGGTGTTC
1 TAGGG-TGTTCCAAGCGCAGAAGTGCCCAAGGGTGTTCCAAGCG-GAAAGCACCCAGGGGTGTTC
16863223 TAAGCGCAGAAGCGCC
64 TAAGCGCAGAAGCGCC
* * * * * * * * * *
16863239 TAGAGGTGTTCCGAGCACAGAAGCGCCTAGGGGCGTTCTAAGCGTGGAAGCACCTAGGGGCGTT-
1 TAG-GGTGTTCCAAGCGCAGAAGTGCCCAAGGGTGTTCCAAGCG-GAAAGCACCCAGGGGTGTTC
* *
16863303 TCAAGTGCAGAAGCACC
64 T-AAGCGCAGAAGCGCC
* ** *
16863320 CATGGGTGTTCCAAGCATAGAAGCGCCCAAG
1 TA-GGGTGTTCCAAGCGCAGAAGTGCCCAAG
16863351 AAGCGTTACA
Statistics
Matches: 210, Mismatches: 51, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
78 28 0.13
79 33 0.16
80 36 0.17
81 110 0.52
82 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (79 bp):
TAGGGTGTTCCAAGCGCAGAAGTGCCCAAGGGTGTTCCAAGCGGAAAGCACCCAGGGGTGTTCTA
AGCGCAGAAGCGCC
Found at i:16864395 original size:12 final size:12
Alignment explanation
Indices: 16864378--16864402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16864368 GAAACTTACC
16864378 TCTTCCTACTTT
1 TCTTCCTACTTT
16864390 TCTTCCTACTTT
1 TCTTCCTACTTT
16864402 T
1 T
16864403 GCCACTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTCCTACTTT
Found at i:16865846 original size:71 final size:71
Alignment explanation
Indices: 16865763--16865904 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
16865753 GCTCTCAAAG
* *
16865763 AAAGAAGGAAAACTTTACTAGAATAAGCTCATATGCTTGTGAAGACAAAAAGATGGTTTACTGTC
1 AAAGAAGGAAAACTCTACTAGAATAAGCTCATATGCTCGTGAAGACAAAAAGATGGTTTACTGTC
16865828 TATGAT
66 TATGAT
* * * *
16865834 AAAGAGGGAAAACTCTACTAGAATAAGCTCCTATGCTCGTGAAGACGAAAAGATGGTTTACTGTT
1 AAAGAAGGAAAACTCTACTAGAATAAGCTCATATGCTCGTGAAGACAAAAAGATGGTTTACTGTC
16865899 TATGAT
66 TATGAT
16865905 GGGGTACGCG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAGAAGGAAAACTCTACTAGAATAAGCTCATATGCTCGTGAAGACAAAAAGATGGTTTACTGTC
TATGAT
Found at i:16869334 original size:21 final size:21
Alignment explanation
Indices: 16869308--16869395 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 21
16869298 ACTTTACATA
16869308 TTGTCTTAATTAAGACAAGAG
1 TTGTCTTAATTAAGACAAGAG
*
16869329 TTGTCTTAATTTAGACAAGGTACATATG
1 TTGTCTTAATTAAGACAA-G-----A-G
*
16869357 TTGTCTTAATTAAGACAAGAA
1 TTGTCTTAATTAAGACAAGAG
16869378 TTGTCTTAAATT-AGACAA
1 TTGTCTT-AATTAAGACAA
16869396 TGGTATATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
21 30 0.54
22 6 0.11
27 2 0.04
28 18 0.32
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (21 bp):
TTGTCTTAATTAAGACAAGAG
Found at i:16885690 original size:62 final size:63
Alignment explanation
Indices: 16885581--16885706 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
16885571 AAACACCACA
16885581 AGAGATTTTTTGAAAAAAAAATCAGAAAGTAAAAAAGAAATATTTTTTAATTTTT-AAAGTTT
1 AGAGATTTTTTGAAAAAAAAATCAGAAAGTAAAAAAGAAATATTTTTTAATTTTTAAAAGTTT
16885643 NAGAGATTTTTTGAAAAAAAAATCAGAAAGTAAAAAAGAAATATTTTTT-ATTTTTAAAAGTTT
1 -AGAGATTTTTTGAAAAAAAAATCAGAAAGTAAAAAAGAAATATTTTTTAATTTTTAAAAGTTT
16885706 A
1 A
16885707 TTAAAAATTA
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
62 7 0.11
63 55 0.89
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (63 bp):
AGAGATTTTTTGAAAAAAAAATCAGAAAGTAAAAAAGAAATATTTTTTAATTTTTAAAAGTTT
Found at i:16886452 original size:22 final size:22
Alignment explanation
Indices: 16886425--16886470 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
16886415 AATTAAGCAT
16886425 ATTACAGTGAATGTGGGTGCAC
1 ATTACAGTGAATGTGGGTGCAC
16886447 ATTACAGTGAATGTGGGTGCAC
1 ATTACAGTGAATGTGGGTGCAC
16886469 AT
1 AT
16886471 CCCTTATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (22 bp):
ATTACAGTGAATGTGGGTGCAC
Found at i:16888837 original size:23 final size:23
Alignment explanation
Indices: 16888806--16888973 Score: 159
Period size: 23 Copynumber: 7.5 Consensus size: 23
16888796 GGATTTACGA
*
16888806 AATTCAATAAGGGGATTTGAGAG
1 AATTGAATAAGGGGATTTGAGAG
16888829 AATTGAATAAGGGGATTTG-G-G
1 AATTGAATAAGGGGATTTGAGAG
* *
16888850 AATTGAATAAAGGGATTTGCA-TG
1 AATTGAATAAGGGGATTTG-AGAG
16888873 AATTGAATAAGGGGATTTGAGA-
1 AATTGAATAAGGGGATTTGAGAG
* * * * *
16888895 ATTTGGAGAATGGGATTTGAAAG
1 AATTGAATAAGGGGATTTGAGAG
* **
16888918 AATTGAAGAAAAGGATTTG-G-G
1 AATTGAATAAGGGGATTTGAGAG
*
16888939 AATTGAATAAGGGGATTTGGGAG
1 AATTGAATAAGGGGATTTGAGAG
* *
16888962 AAATCAATAAGG
1 AATTGAATAAGG
16888974 CGATGTTCTT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
21 36 0.30
22 20 0.17
23 63 0.53
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (23 bp):
AATTGAATAAGGGGATTTGAGAG
Found at i:16888859 original size:44 final size:44
Alignment explanation
Indices: 16888806--16888973 Score: 185
Period size: 44 Copynumber: 3.8 Consensus size: 44
16888796 GGATTTACGA
*
16888806 AATTCAATAAGGGGATTTGAGAGAATTGAATAAGGGGATTTGGG
1 AATTGAATAAGGGGATTTGAGAGAATTGAATAAGGGGATTTGGG
* * *
16888850 AATTGAATAAAGGGATTTGCA-TGAATTGAATAAGGGGATTTGAG
1 AATTGAATAAGGGGATTTG-AGAGAATTGAATAAGGGGATTTGGG
* * * * * **
16888894 AATTTGGAGAATGGGATTTGAAAGAATTGAAGAAAAGGATTTGGG
1 AA-TTGAATAAGGGGATTTGAGAGAATTGAATAAGGGGATTTGGG
* * *
16888939 AATTGAATAAGGGGATTTGGGAGAAATCAATAAGG
1 AATTGAATAAGGGGATTTGAGAGAATTGAATAAGG
16888974 CGATGTTCTT
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
44 64 0.65
45 35 0.35
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (44 bp):
AATTGAATAAGGGGATTTGAGAGAATTGAATAAGGGGATTTGGG
Found at i:16892553 original size:2 final size:2
Alignment explanation
Indices: 16892548--16892576 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16892538 GTGTGTGTGT
16892548 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16892577 TTAACTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16894647 original size:17 final size:17
Alignment explanation
Indices: 16894625--16894658 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16894615 TGAGAATTTC
16894625 CTCCCCCTAAGTGTGTG
1 CTCCCCCTAAGTGTGTG
*
16894642 CTCCCCCTTAGTGTGTG
1 CTCCCCCTAAGTGTGTG
16894659 TATATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.35, G:0.24, T:0.32
Consensus pattern (17 bp):
CTCCCCCTAAGTGTGTG
Found at i:16894972 original size:14 final size:15
Alignment explanation
Indices: 16894953--16894981 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16894943 CCAAAGCAGC
16894953 GGCAGAAAC-TCAAT
1 GGCAGAAACTTCAAT
16894967 GGCAGAAACTTCAAT
1 GGCAGAAACTTCAAT
16894982 AACATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (15 bp):
GGCAGAAACTTCAAT
Found at i:16909893 original size:36 final size:35
Alignment explanation
Indices: 16909853--16909977 Score: 110
Period size: 36 Copynumber: 3.6 Consensus size: 35
16909843 TGGTGGAGTG
*
16909853 CGGTGTAGGAGTGTACATGATGATATATGCCATGTA
1 CGGTGTAGGAGTGCACATGATGATAT-TGCCATGTA
* * *
16909889 CGGTGTAAGAGTGCACATGAT-A-CTTGCCATGTG
1 CGGTGTAGGAGTGCACATGATGATATTGCCATGTA
* * * * *
16909922 CGATGTGGGAGTGCACATGAGGATATTAGCTATGTG
1 CGGTGTAGGAGTGCACATGATGATATT-GCCATGTA
* * *
16909958 CAGTGTGGGAATGCACATGA
1 CGGTGTAGGAGTGCACATGA
16909978 GCTGAGTTGA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
33 25 0.34
34 2 0.03
35 3 0.04
36 43 0.59
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (35 bp):
CGGTGTAGGAGTGCACATGATGATATTGCCATGTA
Found at i:16909917 original size:33 final size:36
Alignment explanation
Indices: 16909853--16909947 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 36
16909843 TGGTGGAGTG
*
16909853 CGGTGTAGGAGTGTACATGATGATATATGCCATGTA
1 CGGTGTAGGAGTGCACATGATGATATATGCCATGTA
* * *
16909889 CGGTGTAAGAGTGCACATGAT-A-CT-TGCCATGTG
1 CGGTGTAGGAGTGCACATGATGATATATGCCATGTA
* * *
16909922 CGATGTGGGAGTGCACATGAGGATAT
1 CGGTGTAGGAGTGCACATGATGATAT
16909948 TAGCTATGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
33 25 0.52
34 2 0.04
35 2 0.04
36 19 0.40
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (36 bp):
CGGTGTAGGAGTGCACATGATGATATATGCCATGTA
Found at i:16913186 original size:9 final size:9
Alignment explanation
Indices: 16913166--16913201 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16913156 CCCTTAAAAC
16913166 ACATCA-AA
1 ACATCACAA
16913174 ACATCACAA
1 ACATCACAA
16913183 ACATCACAA
1 ACATCACAA
16913192 ACATCACAA
1 ACATCACAA
16913201 A
1 A
16913202 AATAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.11
Consensus pattern (9 bp):
ACATCACAA
Found at i:16920436 original size:16 final size:16
Alignment explanation
Indices: 16920403--16920465 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
16920393 CAAATCTCTT
16920403 TTTC-TTCTTTC-TCC
1 TTTCTTTCTTTCTTCC
*
16920417 TTTCTTTCTTTCTTCA
1 TTTCTTTCTTTCTTCC
* *
16920433 TTTCTTCCTTTCTCCC
1 TTTCTTTCTTTCTTCC
*
16920449 TTTCTCTCTTTGCTTCC
1 TTTCTTTCTTT-CTTCC
16920466 AAGCCGATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 4 0.10
15 7 0.18
16 24 0.62
17 4 0.10
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTCTTTCTTTCTTCC
Found at i:16928911 original size:30 final size:30
Alignment explanation
Indices: 16928877--16928935 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16928867 AATCAAGCCC
*
16928877 TTTATATTTTTATTTTGAA-CTAAATAAGCT
1 TTTATATATTTATTTTGAATC-AAATAAGCT
16928907 TTTATATATTTATTTTGAATCAAATAAGC
1 TTTATATATTTATTTTGAATCAAATAAGC
16928936 CCTTATGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (30 bp):
TTTATATATTTATTTTGAATCAAATAAGCT
Found at i:16938456 original size:38 final size:38
Alignment explanation
Indices: 16938405--16938479 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
16938395 AGTCATCAGC
16938405 ATGAGGATATCCTAACATTAATCTGCACTTGGAAAAAT
1 ATGAGGATATCCTAACATTAATCTGCACTTGGAAAAAT
16938443 ATGAGGATATCCTAACATTAATCTGCACTTGGAAAAA
1 ATGAGGATATCCTAACATTAATCTGCACTTGGAAAAA
16938480 CATTCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (38 bp):
ATGAGGATATCCTAACATTAATCTGCACTTGGAAAAAT
Found at i:16943734 original size:3 final size:3
Alignment explanation
Indices: 16943721--16943767 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
16943711 TTTGCATAGG
*
16943721 TAC TGC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
16943768 ATAACAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:16949650 original size:13 final size:13
Alignment explanation
Indices: 16949632--16949656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16949622 ATTTTCAAAA
16949632 ATTTTATAAAATT
1 ATTTTATAAAATT
16949645 ATTTTATAAAAT
1 ATTTTATAAAAT
16949657 CTCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:16954767 original size:20 final size:19
Alignment explanation
Indices: 16954726--16954767 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
16954716 GGGGAGGTAT
*
16954726 TCATACTTCCCATTAGGTA
1 TCATACTTCCCATTAGGAA
16954745 TCATACCTTCCC-TTAAGGAA
1 TCATA-CTTCCCATT-AGGAA
16954765 TCA
1 TCA
16954768 ATCATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (19 bp):
TCATACTTCCCATTAGGAA
Found at i:16956633 original size:9 final size:9
Alignment explanation
Indices: 16956600--16956637 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16956590 AATAGAGAGA
*
16956600 AGGGAGGGG
1 AGGGGGGGG
*
16956609 AGGGGGGGC
1 AGGGGGGGG
16956618 AGGGGGGGG
1 AGGGGGGGG
16956627 -GGGGGGGG
1 AGGGGGGGG
16956635 AGG
1 AGG
16956638 ATGTCATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.13, C:0.03, G:0.84, T:0.00
Consensus pattern (9 bp):
AGGGGGGGG
Found at i:16956634 original size:18 final size:18
Alignment explanation
Indices: 16956600--16956632 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16956590 AATAGAGAGA
16956600 AGGGAGGGGAGGGGGGGC
1 AGGGAGGGGAGGGGGGGC
16956618 AGGG-GGGG-GGGGGGG
1 AGGGAGGGGAGGGGGGG
16956633 GGAGGATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.12, C:0.03, G:0.85, T:0.00
Consensus pattern (18 bp):
AGGGAGGGGAGGGGGGGC
Found at i:16964598 original size:30 final size:30
Alignment explanation
Indices: 16964562--16964653 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
16964552 GTATAAGGAT
16964562 TTATTTGG-ATCAAAATAAAAATACTAAGAC
1 TTATTTGGCA-CAAAATAAAAATACTAAGAC
16964592 TTATTTGGCACAAAATAAAAATACTAAGAC
1 TTATTTGGCACAAAATAAAAATACTAAGAC
* *
16964622 TTATTTGGCACAAAATAAAAATATTAAAAC
1 TTATTTGGCACAAAATAAAAATACTAAGAC
16964652 TT
1 TT
16964654 GATTGAAGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 58 0.98
31 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (30 bp):
TTATTTGGCACAAAATAAAAATACTAAGAC
Found at i:16969588 original size:61 final size:61
Alignment explanation
Indices: 16969518--16969669 Score: 182
Period size: 61 Copynumber: 2.5 Consensus size: 61
16969508 AAATGCAATC
* * * *
16969518 TATCAATACATT-CTCAAAATGTATCAATAGAAATTCAACAGAATTCTCACTACCTCAAAAG
1 TATCAATACATTAATC-AAATGTATCAATACAAATTCAACAAAATGCTCACTACCTCAAAAG
** *
16969579 TATCAATACATTAATCAAATGTATCAATACATTTTCAACAAAATGCTCACTACCTTAAAAG
1 TATCAATACATTAATCAAATGTATCAATACAAATTCAACAAAATGCTCACTACCTCAAAAG
* * * *
16969640 TATCGATTCATTAA-CAAATCTATCGATACA
1 TATCAATACATTAATCAAATGTATCAATACA
16969670 TTTCACCTCA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
60 14 0.18
61 63 0.80
62 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (61 bp):
TATCAATACATTAATCAAATGTATCAATACAAATTCAACAAAATGCTCACTACCTCAAAAG
Found at i:16969602 original size:21 final size:21
Alignment explanation
Indices: 16969572--16969611 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16969562 TCTCACTACC
16969572 TCAAAAGTATCAATACATTAA
1 TCAAAAGTATCAATACATTAA
*
16969593 TCAAATGTATCAATACATT
1 TCAAAAGTATCAATACATT
16969612 TTCAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (21 bp):
TCAAAAGTATCAATACATTAA
Found at i:16969665 original size:20 final size:20
Alignment explanation
Indices: 16969639--16969715 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
16969629 TACCTTAAAA
*
16969639 GTATCGATTCATTAACAAAT
1 GTATCGATACATTAACAAAT
* * *
16969659 CTATCGATACATTTCACCTCAAAA
1 GTATCGATACA-TT-A--ACAAAT
*
16969683 GTATCGATTCATTAACAAAT
1 GTATCGATACATTAACAAAT
16969703 GTATCGATACATT
1 GTATCGATACATT
16969716 TTCAATAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
20 25 0.57
21 2 0.05
22 2 0.05
23 2 0.05
24 13 0.30
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
GTATCGATACATTAACAAAT
Found at i:16969698 original size:44 final size:44
Alignment explanation
Indices: 16969630--16969716 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
16969620 AATGCTCACT
*
16969630 ACCTTAAAAGTATCGATTCATTAACAAATCTATCGATACATTTC
1 ACCTCAAAAGTATCGATTCATTAACAAATCTATCGATACATTTC
*
16969674 ACCTCAAAAGTATCGATTCATTAACAAATGTATCGATACATTT
1 ACCTCAAAAGTATCGATTCATTAACAAATCTATCGATACATTT
16969717 TCAATAGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (44 bp):
ACCTCAAAAGTATCGATTCATTAACAAATCTATCGATACATTTC
Found at i:16978793 original size:61 final size:60
Alignment explanation
Indices: 16978712--16978863 Score: 196
Period size: 61 Copynumber: 2.5 Consensus size: 60
16978702 AAATTCAATC
** * *
16978712 TATCGATACATTCTCAAAATGTATCGATAGAAATTCAACAGAATGCTCATTGCCTCAAAAG
1 TATCGATACATTAGC-AAATGTATCGATACAAATTCAACAGAATGCTCATTGCCTCAAAAA
* * * * *
16978773 TATCGATGCATTAATCAAATGTATCGATACATATTCAACATAATGTTCATTGCCTCAAAAA
1 TATCGATACATT-AGCAAATGTATCGATACAAATTCAACAGAATGCTCATTGCCTCAAAAA
*
16978834 TATCGATACATTAGCAAAGGTATCGATACA
1 TATCGATACATTAGCAAATGTATCGATACA
16978864 TTTCCAACAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
60 16 0.20
61 62 0.77
62 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (60 bp):
TATCGATACATTAGCAAATGTATCGATACAAATTCAACAGAATGCTCATTGCCTCAAAAA
Found at i:16989159 original size:2 final size:2
Alignment explanation
Indices: 16989152--16989193 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16989142 TGTTTTGTTT
16989152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16989194 ATAATAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16996649 original size:2 final size:2
Alignment explanation
Indices: 16996642--16996688 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
16996632 TGAACTTTTC
16996642 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16996682 TA T- TA TA
1 TA TA TA TA
16996689 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16996667 original size:17 final size:17
Alignment explanation
Indices: 16996645--16996688 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
16996635 ACTTTTCTAT
16996645 ATATATATATATATATA
1 ATATATATATATATATA
*
16996662 ATATATATATATATATT
1 ATATATATATATATATA
16996679 ATATAT-TATA
1 ATATATATATA
16996689 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:16998294 original size:2 final size:2
Alignment explanation
Indices: 16998287--16998341 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
16998277 NNNNNNNNNN
16998287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16998329 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
16998342 ACCACTTCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17014548 original size:25 final size:25
Alignment explanation
Indices: 17014493--17014548 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
17014483 AAATTTTAAT
*
17014493 ATTTTATAAAAAAATAATTTAAAAA
1 ATTTTATAAAAAAATAATATAAAAA
* ** * *
17014518 AATTTATGTAAAAATCATATAAATA
1 ATTTTATAAAAAAATAATATAAAAA
17014543 ATTTTA
1 ATTTTA
17014549 ATTACATGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
ATTTTATAAAAAAATAATATAAAAA
Found at i:17017748 original size:133 final size:133
Alignment explanation
Indices: 17017510--17017903 Score: 594
Period size: 133 Copynumber: 3.0 Consensus size: 133
17017500 AATAACTCTT
* * * **
17017510 CAAATTAAAGGATTTAGTGGATAAACAAATTGAACATCCATTGGCAGGTACAGTTAAGAAGCATA
1 CAAATTAAAGGATTTAGTGAATAAACAGATAGAACATCCATCAGCAGGTACAGTTAAGAAGCATA
* *
17017575 TATTGTAAAGTGTGAGCTAGTGAACAACTTAAATCAATAAACTAATTGCTAATACAGGAAGAAAC
66 TATTGTAAAGTGTAAACTAGTGAACAACTTAAATCAATAAACTAATTGCTAATACAGGAAGAAAC
17017640 ATA
131 ATA
*
17017643 CAAATTAAAGGATTTAGTGAATAAACAGATAGAACATCCATCAGCAGGTCCAGTTAAGAAGCATA
1 CAAATTAAAGGATTTAGTGAATAAACAGATAGAACATCCATCAGCAGGTACAGTTAAGAAGCATA
* * * *
17017708 TACTGCT-AAGTGTAAACAAATGAACAACTTAAATCAATAAACTGATTGCTAATACAGGAAGAAA
66 TATTG-TAAAGTGTAAACTAGTGAACAACTTAAATCAATAAACTAATTGCTAATACAGGAAGAAA
17017772 CATA
130 CATA
* *
17017776 CAATTTAAAGGATTTAGTGAATAAACAGTTAGAACATCCATCAGCAGGTACAGTTAAGAAGCATA
1 CAAATTAAAGGATTTAGTGAATAAACAGATAGAACATCCATCAGCAGGTACAGTTAAGAAGCATA
* * * * *
17017841 TATTGTAAAGTGTCAACTAGTGAACAACTTAAATCAAT-AGCTAGTTGCTAAAAGAGGAAGAAA
66 TATTGTAAAGTGTAAACTAGTGAACAACTTAAATCAATAAACTAATTGCTAATACAGGAAGAAA
17017904 GATATTTCTT
Statistics
Matches: 235, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
132 21 0.09
133 213 0.91
134 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (133 bp):
CAAATTAAAGGATTTAGTGAATAAACAGATAGAACATCCATCAGCAGGTACAGTTAAGAAGCATA
TATTGTAAAGTGTAAACTAGTGAACAACTTAAATCAATAAACTAATTGCTAATACAGGAAGAAAC
ATA
Found at i:17021092 original size:93 final size:93
Alignment explanation
Indices: 17020990--17021175 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
17020980 CTAGTTGATC
*
17020990 ACATTCTTCTATGATTCTCCTTAGTGAAGGAAATTGCCATTGACTCTTTTATTTCAACTGTAAAA
1 ACATTCTTCTATGATTCTCCTTAGTGAAGGAAATTGCCATTGACTCTCTTATTTCAACTGTAAAA
17021055 AATTAAAATAGACAGCCTTGCAGAGGTG
66 AATTAAAATAGACAGCCTTGCAGAGGTG
* *
17021083 ACATTCTTCTATGATTCTCCTTAGTGAAGGAAATTGCCATTGACTCTCTTCTTTTAACTGTAAAA
1 ACATTCTTCTATGATTCTCCTTAGTGAAGGAAATTGCCATTGACTCTCTTATTTCAACTGTAAAA
17021148 AATTAAAATAGACAGCCTTGCAGAGGTG
66 AATTAAAATAGACAGCCTTGCAGAGGTG
17021176 GCAACATTTT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (93 bp):
ACATTCTTCTATGATTCTCCTTAGTGAAGGAAATTGCCATTGACTCTCTTATTTCAACTGTAAAA
AATTAAAATAGACAGCCTTGCAGAGGTG
Found at i:17024696 original size:42 final size:42
Alignment explanation
Indices: 17024639--17024723 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
17024629 TAATTTATAT
*
17024639 TGTATGTACATCCAATTGCCTTCTAACAAGCT-CTTTAACCTA
1 TGTATGTACATCCAATTGCCTTCTAACAAG-TGCTTCAACCTA
*
17024681 TGTATGTACATCCAATTGCCTTCTAGCAAGTGCTTCAACCTA
1 TGTATGTACATCCAATTGCCTTCTAACAAGTGCTTCAACCTA
17024723 T
1 T
17024724 TCCTAGTCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (42 bp):
TGTATGTACATCCAATTGCCTTCTAACAAGTGCTTCAACCTA
Found at i:17033182 original size:28 final size:29
Alignment explanation
Indices: 17033114--17033183 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 29
17033104 TTTGAACAAC
* *
17033114 TTTAGCTTGATTAGCATTTTATCATTTTTT
1 TTTAACTTGAGTAGCATTTTATCA-TTTTT
17033144 TACTTAACTTGAGTAGCATTTTATCA-TTTT
1 T--TTAACTTGAGTAGCATTTTATCATTTTT
17033174 TTTAACTTGA
1 TTTAACTTGA
17033184 TCTATCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 9 0.25
30 6 0.17
32 21 0.58
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.54
Consensus pattern (29 bp):
TTTAACTTGAGTAGCATTTTATCATTTTT
Found at i:17033268 original size:21 final size:21
Alignment explanation
Indices: 17033242--17033284 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17033232 ATTAAATCAT
17033242 CAAAGCATTTTTCTAATACAC
1 CAAAGCATTTTTCTAATACAC
17033263 CAAAGCATTTTTCTAATACAC
1 CAAAGCATTTTTCTAATACAC
17033284 C
1 C
17033285 TTGTGCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (21 bp):
CAAAGCATTTTTCTAATACAC
Found at i:17042295 original size:32 final size:31
Alignment explanation
Indices: 17042225--17042295 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 31
17042215 TCTTTCTCAA
*
17042225 GTAAA-TTTAATTTCAGTTAATTAATTTAGT
1 GTAAATTTTAATTTCAGTTAATTAATTTACT
* * *
17042255 G-ATTATTTTAATTTCATTTTAATTAATTTTCT
1 GTA-AATTTTAATTTCA-GTTAATTAATTTACT
17042287 GTAAATTTT
1 GTAAATTTT
17042296 GGTTACTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.03
30 2 0.06
31 10 0.31
32 18 0.56
33 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.56
Consensus pattern (31 bp):
GTAAATTTTAATTTCAGTTAATTAATTTACT
Found at i:17044482 original size:30 final size:28
Alignment explanation
Indices: 17044448--17044505 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
17044438 TGTAAAGAAT
*
17044448 TAAATTAGTTAATTTAAATTATTTTATAAA
1 TAAATTAGTTAA-TT-AATTAATTTATAAA
17044478 TAAATTAGTTAATTAATTAATTTATAAA
1 TAAATTAGTTAATTAATTAATTTATAAA
17044506 CTTTTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 13 0.48
29 2 0.07
30 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TAAATTAGTTAATTAATTAATTTATAAA
Found at i:17046604 original size:57 final size:58
Alignment explanation
Indices: 17046537--17046678 Score: 169
Period size: 57 Copynumber: 2.5 Consensus size: 58
17046527 GGAATGTGTA
* * **** * *
17046537 ACACAACATGGTGGGAATGTGTGGCAGGGTTGTGACACGGCAACGTTTAGAG-TTGTG
1 ACACGACATGGTGGGAATGTGTGACACAACTATGACACGACAACGTTTAGAGTTTGTG
* **
17046594 ACACGACATGGTTGGAATGTGTGACACAACTATGACACGACAGGGTTTAGAGTTTGTG
1 ACACGACATGGTGGGAATGTGTGACACAACTATGACACGACAACGTTTAGAGTTTGTG
*
17046652 ACACGCCATGGTGGGAATGTGTGACAC
1 ACACGACATGGTGGGAATGTGTGACAC
17046679 GGCTACGACA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 41 0.58
58 30 0.42
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (58 bp):
ACACGACATGGTGGGAATGTGTGACACAACTATGACACGACAACGTTTAGAGTTTGTG
Found at i:17046673 original size:58 final size:58
Alignment explanation
Indices: 17046581--17046736 Score: 179
Period size: 58 Copynumber: 2.7 Consensus size: 58
17046571 ACACGGCAAC
* * *
17046581 GTTTAGAG-TTGTGACACGACATGGTTGGAATGTGTGACACAACTATGACACGACAGG
1 GTTTAGAGTTTGTGACACGCCATGGTGGGAATGTGTGACACAACTACGACACGACAGG
** ** *
17046638 GTTTAGAGTTTGTGACACGCCATGGTGGGAATGTGTGACACGGCTACGACACGTTAGT
1 GTTTAGAGTTTGTGACACGCCATGGTGGGAATGTGTGACACAACTACGACACGACAGG
* * * * * *
17046696 ATTCAGAGTTGGTGACACTCCATGGAGGGAATCTGTGACAC
1 GTTTAGAGTTTGTGACACGCCATGGTGGGAATGTGTGACAC
17046737 GCTAGAGTTC
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 8 0.10
58 76 0.90
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (58 bp):
GTTTAGAGTTTGTGACACGCCATGGTGGGAATGTGTGACACAACTACGACACGACAGG
Found at i:17046748 original size:47 final size:47
Alignment explanation
Indices: 17046697--17046809 Score: 165
Period size: 47 Copynumber: 2.4 Consensus size: 47
17046687 CACGTTAGTA
* * * *
17046697 TTCAGAGTTGGTGACACTCCATGGAGGGAATCTGTGACACGCTAGA-G
1 TTCAGAGTTGGTGACACGCCATGGAAGGAATCTATGACACGCCA-ACG
17046744 TTCAGAGTTGGTGACACGCCATGGAAGGAATCTATGACACGCCAACG
1 TTCAGAGTTGGTGACACGCCATGGAAGGAATCTATGACACGCCAACG
*
17046791 TTTAGAGTTGGTGACACGC
1 TTCAGAGTTGGTGACACGC
17046810 TAGCGTTCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.02
47 59 0.98
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
TTCAGAGTTGGTGACACGCCATGGAAGGAATCTATGACACGCCAACG
Found at i:17046762 original size:24 final size:24
Alignment explanation
Indices: 17046730--17046835 Score: 69
Period size: 24 Copynumber: 4.5 Consensus size: 24
17046720 GAGGGAATCT
*
17046730 GTGACACGCTAGAGTTCAGAGTTG
1 GTGACACGCCAGAGTTCAGAGTTG
* *
17046754 GTGACACGCCATG-G--AAGGAATCT-
1 GTGACACGCCA-GAGTTCA-GAGT-TG
* *
17046777 ATGACACGCCA-ACGTTTAGAGTTG
1 GTGACACGCCAGA-GTTCAGAGTTG
* *
17046801 GTGACACGCTAGCGTTCAGAGTTG
1 GTGACACGCCAGAGTTCAGAGTTG
*
17046825 GTGACATGCCA
1 GTGACACGCCA
17046836 TGGAGGGAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
22 1 0.02
23 15 0.25
24 43 0.70
25 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (24 bp):
GTGACACGCCAGAGTTCAGAGTTG
Found at i:17046812 original size:71 final size:71
Alignment explanation
Indices: 17046730--17046948 Score: 316
Period size: 71 Copynumber: 3.1 Consensus size: 71
17046720 GAGGGAATCT
* * * * *
17046730 GTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAATCTATGACACGCCAACGTTTA
1 GTGACACGCTAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACACCAGCGTTCA
*
17046795 GAGTTG
66 GAGTTA
* * *
17046801 GTGACACGCTAGCGTTCAGAGTTGGTGACATGCCATGGAGGGAATCTGTGACACACCAGCATTCA
1 GTGACACGCTAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACACCAGCGTTCA
17046866 GAGTTA
66 GAGTTA
* *
17046872 GTGACACG-TCAGCGGTCAGAGTTGGT-ACACACCATGGAAGGAATCTGTGACACACCAGCGTTC
1 GTGACACGCT-AGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACACCAGCGTTC
17046935 AGAGTTA
65 AGAGTTA
17046942 GTGACAC
1 GTGACAC
17046949 ACCATGGTGG
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
70 48 0.36
71 85 0.64
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (71 bp):
GTGACACGCTAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACACCAGCGTTCA
GAGTTA
Found at i:17046884 original size:24 final size:24
Alignment explanation
Indices: 17046848--17046952 Score: 69
Period size: 24 Copynumber: 4.5 Consensus size: 24
17046838 GAGGGAATCT
*
17046848 GTGACACACCAGCATTCAGAGTTA
1 GTGACACACCAGCAGTCAGAGTTA
** * *
17046872 GTGACACGTCAGCGGTCAGAGTTG
1 GTGACACACCAGCAGTCAGAGTTA
* *
17046896 GT-ACACACCATG--G-AAGGAATCT-
1 GTGACACACCA-GCAGTCA-GAGT-TA
17046918 GTGACACACCAGC-GTTCAGAGTTA
1 GTGACACACCAGCAG-TCAGAGTTA
17046942 GTGACACACCA
1 GTGACACACCA
17046953 TGGTGGGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
21 1 0.02
22 7 0.11
23 17 0.27
24 36 0.58
25 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (24 bp):
GTGACACACCAGCAGTCAGAGTTA
Found at i:17046968 original size:23 final size:23
Alignment explanation
Indices: 17046898--17046971 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
17046888 CAGAGTTGGT
* *
17046898 ACACACCATGGAAGGAATCTGTG
1 ACACACCATGGTAGGAATTTGTG
* *
17046921 ACACACCA-GCGTTCA-GAGTTAGTG
1 ACACACCATG-G-T-AGGAATTTGTG
*
17046945 ACACACCATGGTGGGAATTTGTG
1 ACACACCATGGTAGGAATTTGTG
17046968 ACAC
1 ACAC
17046972 GTCAGCGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.03
23 21 0.54
24 15 0.38
25 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (23 bp):
ACACACCATGGTAGGAATTTGTG
Found at i:17047002 original size:47 final size:46
Alignment explanation
Indices: 17046872--17046987 Score: 160
Period size: 47 Copynumber: 2.5 Consensus size: 46
17046862 TTCAGAGTTA
* *
17046872 GTGACACGTCAGCGGTCAGAGTTGGTACACACCATGGAAGGAATCT
1 GTGACACGTCAGCGTTCAGAGTTAGTACACACCATGGAAGGAATCT
** ** *
17046918 GTGACACACCAGCGTTCAGAGTTAGTGACACACCATGGTGGGAATTT
1 GTGACACGTCAGCGTTCAGAGTTAGT-ACACACCATGGAAGGAATCT
17046965 GTGACACGTCAGCGTTCAGAGTT
1 GTGACACGTCAGCGTTCAGAGTT
17046988 TGTCAGACTC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 22 0.37
47 38 0.63
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
GTGACACGTCAGCGTTCAGAGTTAGTACACACCATGGAAGGAATCT
Found at i:17047232 original size:7 final size:7
Alignment explanation
Indices: 17047220--17047244 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17047210 GTTTGTGTTC
17047220 TTCCTCA
1 TTCCTCA
17047227 TTCCTCA
1 TTCCTCA
17047234 TTCCTCA
1 TTCCTCA
17047241 TTCC
1 TTCC
17047245 CAAATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCTCA
Found at i:17047684 original size:31 final size:31
Alignment explanation
Indices: 17047644--17048001 Score: 473
Period size: 31 Copynumber: 11.5 Consensus size: 31
17047634 GTGTCAGCGT
*
17047644 TGGCGTGTTACTACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * * *
17047675 TGGTGTGTTACCATACTTTATGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
17047706 TGTCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * * *
17047737 TGGCGTGTTACCATAGTTTATGTTATATACA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
17047768 TGGCGTGTTACCACAGTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * * *
17047799 TAGCATGTTACCACAGTTTACATTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* *
17047830 TGGCGTGTTACCGCATTCTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
17047861 TGGCGTGTTATCACAGTTTACATTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* *
17047892 TGGCGTGTTACCATATTCTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
17047923 TGGCGCGTTACCACATTCTATGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* *
17047954 TGGTGTGTTACCACATTCTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
17047985 TGGCGTGTTACCACATT
1 TGGCGTGTTACCACATT
17048002 ATGGGTTAAC
Statistics
Matches: 283, Mismatches: 44, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 283 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACCACATTTTACGTTATATGCA
Found at i:17049676 original size:145 final size:145
Alignment explanation
Indices: 17049379--17049691 Score: 346
Period size: 145 Copynumber: 2.2 Consensus size: 145
17049369 ACCATGGCAA
* * *
17049379 TGGTAGTGAAGAGCCGGTAAAGACAGTTCTAAAGGTTTGTAGTCAACAATTCCATATGTGATTAT
1 TGGTAATGAAGAGCCGGTAAAGACAGTTATAAAGGTTTATAGTCAACAATTCCATATGTGATTAT
* * * *
17049444 CGAATAACATATCTGTGTTTGTAGTTGGACCATGCGATGACAACTCCACAACCACCAATAAATCC
66 CAAATAACATATCTGTATTTGCAGTTGGACCATGCGACGACAACTCCACAACCACCAATAAATCC
* * * *
17049509 TCTTTAGTCTCACAG
131 TCTTCAATCGCAAAG
* * * *
17049524 TGTTAATGAAGAGCCGGT-AAGAATAGTTATAATGGTTTAT-GTTCAACAATTCCGTATGTGATT
1 TGGTAATGAAGAGCCGGTAAAG-ACAGTTATAAAGGTTTATAG-TCAACAATTCCATATGTGATT
* * * * * ***
17049587 ATCAAATAACATATCTGTATTTGCAGTTGGACGATGTGGCGACAGCTCCTCAACCACCAATCGGT
64 ATCAAATAACATATCTGTATTTGCAGTTGGACCATGCGACGACAACTCCACAACCACCAATAAAT
17049652 CCTGC-TCAATCGCAAAG
129 CCT-CTTCAATCGCAAAG
*
17049669 TGGTAATG-AGCCGCCGGTAAAGA
1 TGGTAATGAAG-AGCCGGTAAAGA
17049692 TATTAAAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
144 6 0.04
145 128 0.93
146 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (145 bp):
TGGTAATGAAGAGCCGGTAAAGACAGTTATAAAGGTTTATAGTCAACAATTCCATATGTGATTAT
CAAATAACATATCTGTATTTGCAGTTGGACCATGCGACGACAACTCCACAACCACCAATAAATCC
TCTTCAATCGCAAAG
Found at i:17051803 original size:62 final size:59
Alignment explanation
Indices: 17051730--17052041 Score: 180
Period size: 62 Copynumber: 5.2 Consensus size: 59
17051720 CAGCAAGAAG
*
17051730 TCAGCGAGTCACCACAGAAATTTGCATGCACTCAGCGTGTCACGCCAAGTATCAGGTTCCAC
1 TCAGCGTGTCACCACAGAAA-TTGCATGCACTCAG-GTGTCACGCCAAGTATCA-GTTCCAC
* * * * * * *** *
17051792 TCAACGTGTCACCACA-AGA-TG-AGGCATTCA-GTGTCACCCCACAATA-CAGTAAGAAG
1 TCAGCGTGTCACCACAGAAATTGCATGCACTCAGGTGTCACGCCA-AGTATCAGT-TCCAC
* * *
17051848 TCAGCGTATCACCACAGAAATCTACATGCACTCAGTGTGTCACGCCAAGTATTTAGTTCCAC
1 TCAGCGTGTCACCACAGAAAT-TGCATGCACTCAG-GTGTCACGCCAAGTA-TCAGTTCCAC
* * * * *** *
17051910 TCAGCGTGTCACCACA-AGATGGGGCATG--C-C--GTGTCACCCCACAATA-CAGTAAGAAG
1 TCAGCGTGTCACCACAGAAAT--TGCATGCACTCAGGTGTCACGCCA-AGTATCAGT-TCCAC
* * *
17051966 TCAGCGTGTCACCACAAAAATCTACATGCACTCAGCGTGTCACACCAAGTATCTAGTTCCAC
1 TCAGCGTGTCACCACAGAAAT-TGCATGCACTCAG-GTGTCACGCCAAGTATC-AGTTCCAC
17052028 TCAGCGTGTCACCA
1 TCAGCGTGTCACCA
17052042 TAAGATGGGG
Statistics
Matches: 182, Mismatches: 46, Indels: 44
0.67 0.17 0.16
Matches are distributed among these distances:
55 5 0.03
56 58 0.32
57 11 0.06
58 8 0.04
59 5 0.03
60 8 0.04
61 11 0.06
62 70 0.38
63 6 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (59 bp):
TCAGCGTGTCACCACAGAAATTGCATGCACTCAGGTGTCACGCCAAGTATCAGTTCCAC
Found at i:17051860 original size:118 final size:117
Alignment explanation
Indices: 17051644--17052127 Score: 611
Period size: 118 Copynumber: 4.1 Consensus size: 117
17051634 CTAGAACAAG
* * * * * * *
17051644 TCAGCGTGTCATGCTAAGTATCTAGTTCCATTCAGTGTGTCACCA-TA-ATCGGGGCGTGTC-GT
1 TCAGCGTGTCACGCCAAGTATC-AGTTCCACTCAGCGTGTCACCACAAGAT-GGGGCAT-CCAGT
* *
17051706 GTCACCCCACAATACAGCAAGAAGTCAGCG-AGTCACCACAGAAATTTGCATGCAC
63 GTCACCCCACAATACAGCAAGAAGTCAGCGTA-TCACCACAGAAATCTACATGCAC
* * *
17051761 TCAGCGTGTCACGCCAAGTATCAGGTTCCACTCAACGTGTCACCACAAGATGAGGCATTCAGTGT
1 TCAGCGTGTCACGCCAAGTATCA-GTTCCACTCAGCGTGTCACCACAAGATGGGGCATCCAGTGT
*
17051826 CACCCCACAATACAGTAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
65 CACCCCACAATACAGCAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
* *
17051879 TCAGTGTGTCACGCCAAGTATTTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCATGCC-GTG
1 TCAGCGTGTCACGCCAAGTA-TCAGTTCCACTCAGCGTGTCACCACAAGATGGGGCAT-CCAGTG
* * *
17051943 TCACCCCACAATACAGTAAGAAGTCAGCGTGTCACCACAAAAATCTACATGCAC
64 TCACCCCACAATACAGCAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
* * *
17051997 TCAGCGTGTCACACCAAGTATCTAGTTCCACTCAGCGTGTCACCATAAGATGGGGCGTGCCAGTG
1 TCAGCGTGTCACGCCAAGTATC-AGTTCCACTCAGCGTGTCACCACAAGATGGGGCAT-CCAGTG
* * * *
17052062 TCATCCCACAATACTA-CAAGAAGTCAGCGTGTCACCATAGAAATCTACATGCCC
64 TCACCCCACAATAC-AGCAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
17052116 TCAGCGTGTCAC
1 TCAGCGTGTCAC
17052128 TCAAAAAATC
Statistics
Matches: 329, Mismatches: 28, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
116 1 0.00
117 41 0.12
118 218 0.66
119 68 0.21
120 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (117 bp):
TCAGCGTGTCACGCCAAGTATCAGTTCCACTCAGCGTGTCACCACAAGATGGGGCATCCAGTGTC
ACCCCACAATACAGCAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
Found at i:17051994 original size:56 final size:58
Alignment explanation
Indices: 17051819--17051994 Score: 137
Period size: 56 Copynumber: 3.0 Consensus size: 58
17051809 GATGAGGCAT
* *
17051819 TCAGTGTCACCCCACAATACAGTAAGAAGTCAGCGTATCACCACAGAAATCTACATGCAC
1 TCAGTGTCACCCCACAATACAGTAAGAAGTCAGCGTGTCACCACAAAAATCTACATG--C
* ** *** * * ***
17051879 TCAGTGTGTCACGCCA-AGTATTTAGT-TCCACTCAGCGTGTCACCAC-AAGATGGGGCATGC
1 TCA--GTGTCACCCCACA--ATACAGTAAGAAGTCAGCGTGTCACCACAAAAAT-CTACATGC
17051939 -C-GTGTCACCCCACAATACAGTAAGAAGTCAGCGTGTCACCACAAAAATCTACATGC
1 TCAGTGTCACCCCACAATACAGTAAGAAGTCAGCGTGTCACCACAAAAATCTACATGC
17051995 ACTCAGCGTG
Statistics
Matches: 84, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
55 5 0.06
56 31 0.37
57 5 0.06
59 1 0.01
60 4 0.05
61 4 0.05
62 29 0.35
63 5 0.06
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (58 bp):
TCAGTGTCACCCCACAATACAGTAAGAAGTCAGCGTGTCACCACAAAAATCTACATGC
Found at i:17052001 original size:31 final size:32
Alignment explanation
Indices: 17051966--17052041 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
17051956 CAGTAAGAAG
*
17051966 TCAGCGTGTCACCA-CAAAAATCTACATGCAC
1 TCAGCGTGTCACCACCAAAAATCTACATCCAC
** **
17051997 TCAGCGTGTCA-CACCAAGTATCTAGTTCCAC
1 TCAGCGTGTCACCACCAAAAATCTACATCCAC
17052028 TCAGCGTGTCACCA
1 TCAGCGTGTCACCA
17052042 TAAGATGGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (32 bp):
TCAGCGTGTCACCACCAAAAATCTACATCCAC
Found at i:17052179 original size:31 final size:31
Alignment explanation
Indices: 17052085--17052186 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
17052075 CTACAAGAAG
* * * *
17052085 TCAGCGTGTCACCATAGAAATCTACATGCCC
1 TCAGCGTGTCACTACAGAAATCTGCATGCAC
* ** *
17052116 TCAGCGTGTCACT-CAAAAAATCTGGTTCCAC
1 TCAGCGTGTCACTAC-AGAAATCTGCATGCAC
*
17052147 TCAGTGTGTCACTACAGAAATCTGCATGCAC
1 TCAGCGTGTCACTACAGAAATCTGCATGCAC
*
17052178 TCAACGTGT
1 TCAGCGTGT
17052187 TGACTTAGCA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
31 53 0.98
32 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (31 bp):
TCAGCGTGTCACTACAGAAATCTGCATGCAC
Found at i:17052445 original size:3 final size:3
Alignment explanation
Indices: 17052437--17052461 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17052427 CTTGGTACAA
17052437 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
17052462 TTGTTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17055824 original size:31 final size:31
Alignment explanation
Indices: 17055775--17055894 Score: 186
Period size: 31 Copynumber: 3.9 Consensus size: 31
17055765 TTTGTCAGTC
* * *
17055775 ATGTTGTAACACACCATGCATATAACGTATA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
* * *
17055806 ATGTGATAACACGTCATGCATATAACGTAGA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
17055837 ATGTGGTAACACGCCATGCATATAACGTAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
17055868 ATGTGGTAACACGCCATGCATATAACG
1 ATGTGGTAACACGCCATGCATATAACG
17055895 CCAACGCTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (31 bp):
ATGTGGTAACACGCCATGCATATAACGTAAA
Found at i:17056355 original size:63 final size:63
Alignment explanation
Indices: 17056250--17056372 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
17056240 CCACAGCCCG
* * * *
17056250 ATGACGATGGTGCTTAACAAAGAGTTGACAGAGCTTATACAGTTTAGAGAGCTGAGAGAGCTT
1 ATGACGATGGTGCTCAACAAAGAGTTGACAAAGCTTAGACAGTTCAGAGAGCTGAGAGAGCTT
* * **
17056313 ATGACGATGGTGCTCAACAGAGAGTTGGCAAAG-TTGAGACAGTTCAGAGATTTGAGAGAG
1 ATGACGATGGTGCTCAACAAAGAGTTGACAAAGCTT-AGACAGTTCAGAGAGCTGAGAGAG
17056373 AAAGATGACC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (63 bp):
ATGACGATGGTGCTCAACAAAGAGTTGACAAAGCTTAGACAGTTCAGAGAGCTGAGAGAGCTT
Found at i:17064687 original size:15 final size:16
Alignment explanation
Indices: 17064657--17064691 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17064647 ATAAAATATT
17064657 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
17064673 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
17064689 ATG
1 ATG
17064692 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:17066303 original size:21 final size:21
Alignment explanation
Indices: 17066248--17066292 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
17066238 TCATGTCATA
17066248 ATGTCATAATGTCACATGATC
1 ATGTCATAATGTCACATGATC
*
17066269 ATGTCATAATGTCACATTATC
1 ATGTCATAATGTCACATGATC
17066290 ATG
1 ATG
17066293 CTACGATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTCATAATGTCACATGATC
Found at i:17066419 original size:30 final size:30
Alignment explanation
Indices: 17066376--17066433 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17066366 AATCATTAGT
*
17066376 TATAAGAGTTTATTTGACTCAAAATAAAAA
1 TATAAGAGCTTATTTGACTCAAAATAAAAA
* * *
17066406 TATAAGGGCTTATTTGATTCAGAATAAA
1 TATAAGAGCTTATTTGACTCAAAATAAA
17066434 CGTAAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (30 bp):
TATAAGAGCTTATTTGACTCAAAATAAAAA
Found at i:17069675 original size:20 final size:20
Alignment explanation
Indices: 17069650--17069690 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17069640 ACCAATATAA
* *
17069650 AACAGTTATGTCACATGGAG
1 AACAGTTATCTCACATAGAG
17069670 AACAGTTATCTCACATAGAG
1 AACAGTTATCTCACATAGAG
17069690 A
1 A
17069691 GCTGCGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (20 bp):
AACAGTTATCTCACATAGAG
Found at i:17082043 original size:2 final size:2
Alignment explanation
Indices: 17082036--17082062 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17082026 TTCCAACACC
17082036 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 A
17082063 ATGAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17083666 original size:2 final size:2
Alignment explanation
Indices: 17083659--17083715 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
17083649 CAAAGGTCAA
17083659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17083699 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
17083716 ATGCGATCTA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17087264 original size:6 final size:6
Alignment explanation
Indices: 17087243--17087295 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
17087233 AAGGAAAAGG
* * * * *
17087243 TGGTGA TGAATGA TGGTGA TGGTGA TGGTGG TGGTAA TGGTAA TGGTAA
1 TGGTGA TG-GTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
17087292 TGGT
1 TGGT
17087296 AGTATAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (6 bp):
TGGTGA
Found at i:17089881 original size:2 final size:2
Alignment explanation
Indices: 17089874--17089918 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
17089864 NNNNNNNNNN
17089874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17089916 AT A
1 AT A
17089919 AATGCTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17091638 original size:19 final size:20
Alignment explanation
Indices: 17091599--17091639 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17091589 CTCCCTTTTC
*
17091599 TATTTTTTTTTTAAATATAA
1 TATTTATTTTTTAAATATAA
17091619 TATTTATTTTTTAAAT-TAA
1 TATTTATTTTTTAAATATAA
17091638 TA
1 TA
17091640 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATTTTTTAAATATAA
Found at i:17097388 original size:18 final size:18
Alignment explanation
Indices: 17097332--17097388 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
17097322 TACAAGTATA
*
17097332 TATCCACTTTTGGTGGGT
1 TATCCACTTATGGTGGGT
* * *
17097350 GATCCACATATGATGGGT
1 TATCCACTTATGGTGGGT
* *
17097368 TATCCACTTCTGGTGGAT
1 TATCCACTTATGGTGGGT
17097386 TAT
1 TAT
17097389 ATATTTTTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (18 bp):
TATCCACTTATGGTGGGT
Found at i:17097771 original size:59 final size:57
Alignment explanation
Indices: 17097659--17097772 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 57
17097649 TTTTCCATAT
* * *
17097659 CCATGATCATAATTATTAAATAGTGACATTCACTTCAAAGAATAGATAGATTTATGA
1 CCATAATCATAATTATTAAATAGTGACATTCACTTCAAAGAATAGACAAATTTATGA
* **
17097716 CCATAATCATAATTATTAAATGATGTCG-CATTTACTTCAGGGAATAGACAAATTTAT
1 CCATAATCATAATTATTAAAT-A-GT-GACATTCACTTCAAAGAATAGACAAATTTAT
17097773 AATTTTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
57 20 0.42
58 1 0.02
59 26 0.54
60 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (57 bp):
CCATAATCATAATTATTAAATAGTGACATTCACTTCAAAGAATAGACAAATTTATGA
Found at i:17118074 original size:19 final size:19
Alignment explanation
Indices: 17118052--17118089 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17118042 ACTTCTAAAT
*
17118052 CTCAAACCATACTCTAATA
1 CTCAAACCATACTCCAATA
*
17118071 CTCAAATCATACTCCAATA
1 CTCAAACCATACTCCAATA
17118090 AGTCAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAACCATACTCCAATA
Found at i:17124650 original size:129 final size:130
Alignment explanation
Indices: 17124420--17124677 Score: 437
Period size: 129 Copynumber: 2.0 Consensus size: 130
17124410 GTGGCCCGAA
*
17124420 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAGAGGTAAGT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAGAGGTAAAT
17124485 ATATAATTAAGTTACCGTGCCCCTCTCATAGGCAGTCCAC-GAAAACCCCCACCACTGTAGTGAT
66 ATATAATTAAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAAACCCCCACCACTGTAGTGAT
* * *
17124549 CGTGAGGTGCATTCAAATCTTACCTCAGGAGATACTTCATCCAACATCTCCCCCCAGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAGAGGTAAAT
** * *
17124614 ATATAATTGGGTTACCGTGCCCCTCTCATAGGCAGTCCACGGACACCCCCCACCACTGTAGTGA
66 ATATAATTAAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAAACCCCCACCACTGTAGTGA
17124678 CCGTTTAATA
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
129 99 0.82
130 21 0.17
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (130 bp):
CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAGAGGTAAAT
ATATAATTAAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAAACCCCCACCACTGTAGTGAT
Found at i:17126275 original size:20 final size:20
Alignment explanation
Indices: 17126258--17126295 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17126248 CCTCAAATCT
17126258 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
17126278 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
17126296 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:17127899 original size:50 final size:50
Alignment explanation
Indices: 17127840--17127939 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
17127830 AGAAAGTTTT
* * *
17127840 CTCGATTTTTGGATTGCAAAAGACTTATTTCGAGCTCTTTACTCTTCTCA
1 CTCGATTTTTGGATCGCAAAAGACTTATTCCAAGCTCTTTACTCTTCTCA
17127890 CTCGATTTTTGGATCGCAAAAGACTTATTCCAAGCTCTTTACTCTTCTCA
1 CTCGATTTTTGGATCGCAAAAGACTTATTCCAAGCTCTTTACTCTTCTCA
17127940 TACACTGGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (50 bp):
CTCGATTTTTGGATCGCAAAAGACTTATTCCAAGCTCTTTACTCTTCTCA
Found at i:17131539 original size:25 final size:25
Alignment explanation
Indices: 17131505--17131552 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17131495 AAAAAAACTC
17131505 TGTGACTTTGGCTAATTTGCAATTA
1 TGTGACTTTGGCTAATTTGCAATTA
17131530 TGTGACTTTGGCTAATTTGCAAT
1 TGTGACTTTGGCTAATTTGCAAT
17131553 CCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (25 bp):
TGTGACTTTGGCTAATTTGCAATTA
Found at i:17138555 original size:57 final size:57
Alignment explanation
Indices: 17138466--17138575 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
17138456 GCACGGTTGC
* * * * *
17138466 GCTCCACTCATAGGGGACGACCCTTGCTACAAGCAGTCCTTTCCTCTTTCAGCAGCG
1 GCTCCACTCATAGGGGACAACCCTCGCAACAAGCAGCCCTTTCCTCCTTCAGCAGCG
* *
17138523 GCTCCACTCGTAGGGGACAACCCTCGCAACAAGCAGCCCTTTCTTCCTTCAGC
1 GCTCCACTCATAGGGGACAACCCTCGCAACAAGCAGCCCTTTCCTCCTTCAGC
17138576 GGTGGCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (57 bp):
GCTCCACTCATAGGGGACAACCCTCGCAACAAGCAGCCCTTTCCTCCTTCAGCAGCG
Found at i:17138800 original size:2 final size:2
Alignment explanation
Indices: 17138793--17138830 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17138783 TTACTTAACA
17138793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17138831 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17140946 original size:69 final size:69
Alignment explanation
Indices: 17140865--17141004 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
17140855 TTATTTTAAG
17140865 ATGTTGAGTACGCCTTTATCACTATCATTAAATTTGAACCATAACCCTATTTCAATCATATCGAT
1 ATGTTGAGTACGCCTTTATCACTATCATTAAATTTGAACCATAACCCTATTTCAATCATATCGAT
17140930 TTCA
66 TTCA
*
17140934 ATGTTGAGTACGCCTTTATCACTATCATTAAATTTGAACCATAACTCTATTTCAATCATATCGAT
1 ATGTTGAGTACGCCTTTATCACTATCATTAAATTTGAACCATAACCCTATTTCAATCATATCGAT
17140999 TTCA
66 TTCA
17141003 AT
1 AT
17141005 CACATATTCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (69 bp):
ATGTTGAGTACGCCTTTATCACTATCATTAAATTTGAACCATAACCCTATTTCAATCATATCGAT
TTCA
Found at i:17144424 original size:23 final size:23
Alignment explanation
Indices: 17144398--17144449 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
17144388 ACTTATCGTC
17144398 CTTTTTCCCATCTTGTTCGTGTT
1 CTTTTTCCCATCTTGTTCGTGTT
17144421 CTTTTTCCCATCTTGTTCGTGTT
1 CTTTTTCCCATCTTGTTCGTGTT
17144444 CTTTTT
1 CTTTTT
17144450 TGTCGAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.04, C:0.25, G:0.12, T:0.60
Consensus pattern (23 bp):
CTTTTTCCCATCTTGTTCGTGTT
Found at i:17153708 original size:28 final size:28
Alignment explanation
Indices: 17153673--17153729 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
17153663 TGGAGAAAAA
17153673 GGGTAAAATGGTAATTTTGCCACC-CCAG
1 GGGTAAAATGGTAATTTT-CCACCACCAG
*
17153701 GGGTAAAATTGTAATTTTCCACCACCAG
1 GGGTAAAATGGTAATTTTCCACCACCAG
17153729 G
1 G
17153730 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTCCACCACCAG
Found at i:17154857 original size:13 final size:13
Alignment explanation
Indices: 17154839--17154863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17154829 AGAGAAATTG
17154839 TGATTTTATAAAA
1 TGATTTTATAAAA
17154852 TGATTTTATAAA
1 TGATTTTATAAA
17154864 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:17163909 original size:21 final size:22
Alignment explanation
Indices: 17163885--17163926 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17163875 AATATTAACT
17163885 TAAATATA-TTATAATAAAAAA
1 TAAATATATTTATAATAAAAAA
*
17163906 TAAATATATTTATAATGAAAA
1 TAAATATATTTATAATAAAAA
17163927 TTAACTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAATATATTTATAATAAAAAA
Found at i:17181456 original size:3 final size:3
Alignment explanation
Indices: 17181450--17181520 Score: 56
Period size: 3 Copynumber: 22.7 Consensus size: 3
17181440 ATATGTTTGA
17181450 ATT ATT ATT ATTT ATTT ATT ATTT ATTT ATT ATT ATTT ATT ATT -TT
1 ATT ATT ATT A-TT A-TT ATT A-TT A-TT ATT ATT A-TT ATT ATT ATT
* * *
17181496 -TT ATT ATT TTT ATC ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
17181521 CAAGTAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.07
3 37 0.64
4 17 0.29
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (3 bp):
ATT
Found at i:17181466 original size:4 final size:4
Alignment explanation
Indices: 17181457--17181504 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
17181447 TGAATTATTA
17181457 TTAT TTAT TTA- TTAT TTAT TTA- TTA- TTAT TTA- TTAT TT-T TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
17181499 TTAT TT
1 TTAT TT
17181505 TTATCATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 18 0.46
4 21 0.54
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:17181471 original size:7 final size:7
Alignment explanation
Indices: 17181451--17181520 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
17181441 TATGTTTGAA
17181451 TTATTA-
1 TTATTAT
17181457 TTATTTAT
1 TTA-TTAT
17181465 TTATTAT
1 TTATTAT
17181472 TTATT-T
1 TTATTAT
17181478 ATTATTAT
1 -TTATTAT
17181486 TTATTAT
1 TTATTAT
*
17181493 TTTTTA-
1 TTATTAT
17181499 TTATT-T
1 TTATTAT
*
17181505 TTATCA-
1 TTATTAT
17181511 TTATT-T
1 TTATTAT
17181517 TTAT
1 TTAT
17181521 CAAGTAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
6 20 0.38
7 29 0.55
8 4 0.08
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:17181487 original size:10 final size:10
Alignment explanation
Indices: 17181450--17181520 Score: 85
Period size: 10 Copynumber: 7.2 Consensus size: 10
17181440 ATATGTTTGA
17181450 ATTA-TTATT
1 ATTATTTATT
17181459 ATTTATTTATT
1 A-TTATTTATT
17181470 ATTTATTTATT
1 A-TTATTTATT
17181481 ATTATTTATT
1 ATTATTTATT
*
17181491 ATTTTTTATT
1 ATTATTTATT
*
17181501 ATT-TTTATC
1 ATTATTTATT
17181510 ATTATTT-TT
1 ATTATTTATT
17181519 AT
1 AT
17181521 CAAGTAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
9 12 0.21
10 27 0.48
11 17 0.30
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTATTTATT
Found at i:17194600 original size:18 final size:18
Alignment explanation
Indices: 17194577--17194615 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17194567 ACACGATTAA
17194577 TAACACATTTAACACGAT
1 TAACACATTTAACACGAT
* *
17194595 TAACACGTTTAACATGAT
1 TAACACATTTAACACGAT
17194613 TAA
1 TAA
17194616 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (18 bp):
TAACACATTTAACACGAT
Found at i:17194906 original size:18 final size:18
Alignment explanation
Indices: 17194883--17194922 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17194873 GTATACACGT
*
17194883 TTAAACATGATAATACGA
1 TTAAACACGATAATACGA
17194901 TTAAACACGATAATACGA
1 TTAAACACGATAATACGA
17194919 TTAA
1 TTAA
17194923 GTAAACGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (18 bp):
TTAAACACGATAATACGA
Found at i:17195729 original size:15 final size:16
Alignment explanation
Indices: 17195711--17195785 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 16
17195701 TATTTTATTT
17195711 TTTAAAT-ATTAATAA
1 TTTAAATAATTAATAA
17195726 TTTATAATTAATTAA-AA
1 TTTA-AA-TAATTAATAA
17195743 TATT-AATAATTAATAA
1 T-TTAAATAATTAATAA
* *
17195759 TTTAAAT-ATCAATAT
1 TTTAAATAATTAATAA
17195774 TTTAATATAATT
1 TTTAA-ATAATT
17195786 TAATTACTNN
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 24 0.49
16 12 0.24
17 6 0.12
18 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTAAATAATTAATAA
Found at i:17195967 original size:29 final size:29
Alignment explanation
Indices: 17195910--17195967 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
17195900 TAATCATATT
*
17195910 AATATTAATAATGTTTAAATTATATATAA
1 AATATTAATAATGTTTAAATTATAAATAA
17195939 AATATTAAT-AT-TTTAAATTTTATAAATAA
1 AATATTAATAATGTTTAAA--TTATAAATAA
17195968 TTTATTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.23
28 2 0.08
29 18 0.69
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
AATATTAATAATGTTTAAATTATAAATAA
Found at i:17197292 original size:36 final size:37
Alignment explanation
Indices: 17197203--17197415 Score: 171
Period size: 39 Copynumber: 5.7 Consensus size: 37
17197193 CTCCCTTGGC
* * *
17197203 TCATGTGCACTCCCACATCGCACATTACAATATCATCA
1 TCATGTGCACTCCCACACCGCACACT-CAATATCATCG
* ** *
17197241 TCAAGTGCACTCCCACACCGCAC-CTCACCATCACCG
1 TCATGTGCACTCCCACACCGCACACTCAATATCATCG
* *
17197277 TCATGTGCACTCCCACACCGCACACGGCATATATCATCA
1 TCATGTGCACTCCCACACCGCACAC-TCA-ATATCATCG
* *
17197316 TCATGTACTCTCCCACACCGCACA-TGGCATATATCATCG
1 TCATGTGCACTCCCACACCGCACACT--CA-ATATCATCG
* * ** * ** * *
17197355 ACGTGTGCTTTCCCACATCGCACACT-ACCAGCACCG
1 TCATGTGCACTCCCACACCGCACACTCAATATCATCG
17197391 TCATGTGCACTCCCACACCGCACAC
1 TCATGTGCACTCCCACACCGCACAC
17197416 GCACGGTTAT
Statistics
Matches: 138, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
36 54 0.39
37 3 0.02
38 23 0.17
39 57 0.41
40 1 0.01
ACGTcount: A:0.26, C:0.41, G:0.12, T:0.21
Consensus pattern (37 bp):
TCATGTGCACTCCCACACCGCACACTCAATATCATCG
Found at i:17200244 original size:19 final size:19
Alignment explanation
Indices: 17200220--17200262 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17200210 CAATCCAATA
* *
17200220 AATTTA-TTGGAATTGATTG
1 AATTTAGTT-GAATTAATTC
17200239 AATTTAGTTGAATTAATTC
1 AATTTAGTTGAATTAATTC
17200258 AATTT
1 AATTT
17200263 GTTCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (19 bp):
AATTTAGTTGAATTAATTC
Found at i:17203017 original size:28 final size:29
Alignment explanation
Indices: 17202976--17203035 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
17202966 GTCTATGGGC
*
17202976 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
17203004 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
17203034 AA
1 AA
17203036 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:17212849 original size:17 final size:19
Alignment explanation
Indices: 17212816--17212851 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
17212806 AACAGTCTCA
17212816 CCATTCGCTGAATAATCCT
1 CCATTCGCTGAATAATCCT
17212835 CCATT-GCTG-ATAATCCT
1 CCATTCGCTGAATAATCCT
17212852 TCTTACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (19 bp):
CCATTCGCTGAATAATCCT
Found at i:17213989 original size:44 final size:45
Alignment explanation
Indices: 17213930--17214018 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
17213920 AAAATGGATG
* * *
17213930 CATCTTTTTACTATTTATCAT-AAAAATATTATTAATAAATGTCA
1 CATCTTATTAATATTTATAATAAAAAATATTATTAATAAATGTCA
17213974 CATCTTATTAATATTTATAATAAAAAATATTATTAATAAATGTCA
1 CATCTTATTAATATTTATAATAAAAAATATTATTAATAAATGTCA
17214019 TTCCATACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (45 bp):
CATCTTATTAATATTTATAATAAAAAATATTATTAATAAATGTCA
Found at i:17214093 original size:23 final size:24
Alignment explanation
Indices: 17214065--17214111 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
17214055 ATAAATCTTA
* *
17214065 TTAAAATTAATAACA-AAAAATAT
1 TTAAAAATAACAACATAAAAATAT
*
17214088 TTAAAAATAACAATATAAAAATAT
1 TTAAAAATAACAACATAAAAATAT
17214112 AATAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
TTAAAAATAACAACATAAAAATAT
Found at i:17222174 original size:2 final size:2
Alignment explanation
Indices: 17222167--17222211 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
17222157 ACTTTATTAA
* * *
17222167 AT AT AT AT TT CT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17222209 AT A
1 AT A
17222212 GTAGTTAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17223980 original size:19 final size:19
Alignment explanation
Indices: 17223956--17224003 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
17223946 TTGAAGTAAG
17223956 ATAACTTTCGTTATGTGAT
1 ATAACTTTCGTTATGTGAT
17223975 ATAACTTTCGTTATGTGAT
1 ATAACTTTCGTTATGTGAT
17223994 ATAACTTTCG
1 ATAACTTTCG
17224004 AGTTAAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (19 bp):
ATAACTTTCGTTATGTGAT
Found at i:17224504 original size:2 final size:2
Alignment explanation
Indices: 17224497--17224552 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
17224487 AATTTCTCAA
*
17224497 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17224539 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
17224553 NAAATAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17224653 original size:2 final size:2
Alignment explanation
Indices: 17224646--17224695 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
17224636 TTAATATAAT
*
17224646 TA TA TA TA TA TA TA T- TA TA AA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17224686 T- TA TA TA TA T
1 TA TA TA TA TA T
17224696 GGAGTGACGT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17224664 original size:21 final size:21
Alignment explanation
Indices: 17224640--17224695 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
17224630 AATCACTTAA
17224640 TATAATTATATATATATATAT
1 TATAATTATATATATATATAT
*
17224661 TATAAATATATATATATATAT
1 TATAATTATATATATATATAT
17224682 TAT-ATTATATATAT
1 TATAATTATATATAT
17224696 GGAGTGACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAATTATATATATATATAT
Found at i:17231170 original size:20 final size:20
Alignment explanation
Indices: 17231134--17231171 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17231124 ATTCAAGATT
*
17231134 TTGTTTATTTGTTATATTTG
1 TTGTTTATTTGTAATATTTG
17231154 TTGTATTATTT-TAATATT
1 TTGT-TTATTTGTAATATT
17231172 CTACCTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (20 bp):
TTGTTTATTTGTAATATTTG
Found at i:17234251 original size:173 final size:173
Alignment explanation
Indices: 17233870--17234261 Score: 405
Period size: 173 Copynumber: 2.3 Consensus size: 173
17233860 AGAATAGCCT
* * * * *
17233870 CACTACCTTATATTTTTTGTTTACAA-ATTACATTATGAATTGAATACTATGATGTTAACTTTTG
1 CACTACCTTATATTTTTTGTTTACAACA-TACATGATAAATTAAACACTATAATGTTAACTTTTG
* * ** * * * * *
17233934 TATATAAATAAAGATATGCAAAAACAAAGCATTAGATCGTGATTTTGATTTTGTTCATGAGTACT
65 TATACAAACAAAGATATGCAAAAACAAAGCAGCAGATCATGATCTTAACTTTGTTCATGAGCACT
* ** *
17233999 AACTTATTGTTAAATGGATGGTAGTGAATGTATAAGATTATAAA
130 AACTTATTGTTAAATGGATGGTAATGAATACATAAAATTATAAA
* * * * *
17234043 CACTGCCTTATATTTTTTATTTATAGACA-ACATGATAAATTCAACATTATAATGTTAACTTTTG
1 CACTACCTTATATTTTTTGTTTACA-ACATACATGATAAATTAAACACTATAATGTTAACTTTTG
* * * * *
17234107 TATACACACAAAGATTTGCAAAAAC-ACGACAGCAGATCATGATCTTAACTTTGTTCGTGAGCAT
65 TATACAAACAAAGATATGCAAAAACAAAG-CAGCAGATCATGATCTTAACTTTGTTCATGAGCAC
* * * *
17234171 TGATTTTTTGTTAAATGGGTAGG-AATGAATACATAAAATTATAAA
129 TAACTTATTGTTAAATGGAT-GGTAATGAATACATAAAATTATAAA
* * *
17234216 CACTATCTTATATTTTTTGTTTGCAACATACATGATATATTAAACA
1 CACTACCTTATATTTTTTGTTTACAACATACATGATAAATTAAACA
17234262 ACAGATCATA
Statistics
Matches: 176, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
172 5 0.03
173 167 0.95
174 3 0.02
175 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (173 bp):
CACTACCTTATATTTTTTGTTTACAACATACATGATAAATTAAACACTATAATGTTAACTTTTGT
ATACAAACAAAGATATGCAAAAACAAAGCAGCAGATCATGATCTTAACTTTGTTCATGAGCACTA
ACTTATTGTTAAATGGATGGTAATGAATACATAAAATTATAAA
Found at i:17237234 original size:2 final size:2
Alignment explanation
Indices: 17237218--17237289 Score: 119
Period size: 2 Copynumber: 35.5 Consensus size: 2
17237208 ACGTATGCAT
17237218 TA TA TGA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17237260 TA TA TA TA TA TA TNA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA T
17237290 TTCTTGATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.01
2 62 0.93
3 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17241898 original size:20 final size:21
Alignment explanation
Indices: 17241859--17241898 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17241849 ATAAGAGTAT
* *
17241859 TTTTTAATTAATAATCATAAC
1 TTTTGAATTAAAAATCATAAC
17241880 TTTTGAATTAAAAAT-ATAA
1 TTTTGAATTAAAAATCATAA
17241899 GCTCATGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTTGAATTAAAAATCATAAC
Found at i:17244265 original size:2 final size:2
Alignment explanation
Indices: 17244260--17244286 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17244250 TTGTGTTGTC
17244260 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17244287 GATTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.