Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 66 of 378
Found at i:17149669 original size:3 final size:3
Alignment explanation
Indices: 17149663--17149710 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17149653 TTAAGCTTTA
17149663 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17149711 GTTTGTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17150158 original size:13 final size:13
Alignment explanation
Indices: 17150140--17150165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17150130 CCACATAATA
17150140 CATAAATATATAT
1 CATAAATATATAT
17150153 CATAAATATATAT
1 CATAAATATATAT
17150166 ATCATATCAT
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:17150228 original size:9 final size:9
Alignment explanation
Indices: 17150216--17150292 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
17150206 TATATCATAT
17150216 CATAACTTA
1 CATAACTTA
*
17150225 CATATCTTA
1 CATAACTTA
17150234 CATAACTGTA
1 CATAACT-TA
* * *
17150244 TATCA-TAA
1 CATAACTTA
17150252 CATAACTTA
1 CATAACTTA
17150261 CATAACTTA
1 CATAACTTA
*
17150270 CAAAACTTA
1 CATAACTTA
*
17150279 CTTAACTTA
1 CATAACTTA
17150288 CATAA
1 CATAA
17150293 TACATAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 4 0.07
9 45 0.83
10 5 0.09
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:17150237 original size:18 final size:18
Alignment explanation
Indices: 17150179--17150292 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 18
17150169 ATATCATAAG
17150179 TTACATAACTTACATA--
1 TTACATAACTTACATATC
* * *
17150195 GTACATAA-ATATATATC
1 TTACATAACTTACATATC
*
17150212 ATATCATAACTTACATATC
1 TTA-CATAACTTACATATC
17150231 TTACATAACTGT--ATATC
1 TTACATAACT-TACATATC
* *
17150248 ATAACATAACTTACATAAC
1 -TTACATAACTTACATATC
* * *
17150267 TTACAAAACTTACTTAAC
1 TTACATAACTTACATATC
17150285 TTACATAA
1 TTACATAA
17150293 TACATAAATA
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
15 5 0.06
16 7 0.09
17 8 0.10
18 43 0.56
19 14 0.18
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATATC
Found at i:17150246 original size:36 final size:35
Alignment explanation
Indices: 17150181--17150276 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 35
17150171 ATCATAAGTT
* *
17150181 ACATAACTTACATA-GTACATAAATATATATCATA
1 ACATAACTTACATACTTACATAACTATATATCATA
* *
17150215 TCATAACTTACATATCTTACATAACTGTATATCATA
1 ACATAACTTACATA-CTTACATAACTATATATCATA
*
17150251 ACATAACTTACATAACTTACAAAACT
1 ACATAACTTACAT-ACTTACATAACT
17150277 TACTTAACTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 13 0.25
36 39 0.74
37 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (35 bp):
ACATAACTTACATACTTACATAACTATATATCATA
Found at i:17155244 original size:17 final size:19
Alignment explanation
Indices: 17155222--17155259 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17155212 TTCTTTCAAA
17155222 TATT-AATAA-ATTTTTAC
1 TATTAAATAATATTTTTAC
17155239 TATTAAATAATATTTTTAC
1 TATTAAATAATATTTTTAC
17155258 TA
1 TA
17155260 CTATATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATAATATTTTTAC
Found at i:17155427 original size:13 final size:14
Alignment explanation
Indices: 17155411--17155439 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17155401 TTATAAGTAT
17155411 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
17155424 TTATAATGGTTTAA
1 TTATAATGGTTTAA
17155438 TT
1 TT
17155440 CGTCAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:17155875 original size:21 final size:21
Alignment explanation
Indices: 17155846--17155895 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17155836 ATAACTTACA
*
17155846 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAAGGAG
* *
17155867 GCAGCGGCAGCAGCGAAGGAG
1 GCAGAGGCAGCAGAGAAGGAG
17155888 GCA-AGGCA
1 GCAGAGGCA
17155896 ACAATGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.32, C:0.20, G:0.48, T:0.00
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAAGGAG
Found at i:17156304 original size:43 final size:43
Alignment explanation
Indices: 17156256--17156460 Score: 170
Period size: 43 Copynumber: 4.8 Consensus size: 43
17156246 AAAAAGTGCA
17156256 GCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTAACAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTAACAAACGCC
* * * **** **
17156299 GCTAAAAGCCATGACTTATAGCGGCACTTCACCATTAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTAACAAACGCC
* * *
17156342 GTTAAAAGCTACA--ACTTTTAGCGGTGCTTCTTCATAAC--ACGCC
1 GCTAAAAG-T-CATGACTTTTAGCGGCGCTT-TT-TTAACAAACGCC
*
17156385 GCTAAAAGCCATGACTTTTAGCGGCGCTTTTCTT-ACAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCGCTTTT-TTAACAAACGCC
* * *
17156428 GCTAAAAGTCTTGATCTTTT-GTGGCGTTTTTTT
1 GCTAAAAGTCATGA-CTTTTAGCGGCGCTTTTTT
17156461 TTCAGATAAA
Statistics
Matches: 125, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.03
42 6 0.05
43 107 0.86
44 5 0.04
45 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
GCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTAACAAACGCC
Found at i:17158039 original size:27 final size:27
Alignment explanation
Indices: 17158006--17158149 Score: 144
Period size: 27 Copynumber: 5.0 Consensus size: 27
17157996 TAGAATACTT
** * *
17158006 TAGTTTACCAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
*
17158033 TGGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
*
17158060 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
*
17158087 TAGTTTGTAAAATTATCAAATTATCAAAATACCCC
1 TAG-TT-T---A-TA--AAATTACCAAAATACCCC
*
17158122 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
17158149 T
1 T
17158150 GATTTGTGAA
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
27 68 0.69
28 2 0.02
29 3 0.03
33 3 0.03
34 2 0.02
35 20 0.20
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:17158108 original size:35 final size:35
Alignment explanation
Indices: 17158069--17158146 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
17158059 CTAGTTTGTA
*
17158069 AAATTACCAAAATACCCCTAGTTTGTAAAATTATC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACC
*
17158104 AAATTATCAAAATACCCCTAGTTTGTAAAATTACC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACC
*
17158139 AAAATACC
1 AAATTACC
17158147 CCTGATTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (35 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACC
Found at i:17158116 original size:62 final size:62
Alignment explanation
Indices: 17158037--17158163 Score: 211
Period size: 62 Copynumber: 2.0 Consensus size: 62
17158027 TACCCTTGGT
17158037 TTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAA
1 TTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAA
* * *
17158099 TTATCAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAA
1 TTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
17158161 TTA
1 TTA
17158164 CTGAAATACC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 60 0.98
63 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (62 bp):
TTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
Found at i:17158155 original size:27 final size:27
Alignment explanation
Indices: 17158104--17158235 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
17158094 TAAAATTATC
*
17158104 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
17158131 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** * **
17158158 AAATTACTGAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
** * *
17158185 AAATTATTAAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* *
17158212 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
17158236 ACAGAATTAT
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
26 3 0.04
27 76 0.92
28 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:17158185 original size:89 final size:89
Alignment explanation
Indices: 17158014--17158191 Score: 227
Period size: 89 Copynumber: 2.0 Consensus size: 89
17158004 TTTAGTTTAC
* *
17158014 CAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 CAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
**
17158079 AATACCCCTAGTTTGTAAAATTAT
66 AATACCCCTAGCCTGTAAAATTAT
* * *
17158103 CAAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTGAAATTACT
1 CAAATTACT-AAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACC
* *
17158166 GAAATA-CCCTTGACCTGTAAAATTAT
64 AAAATACCCCTAG-CCTGTAAAATTAT
17158192 TAAAATACCC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
88 7 0.09
89 70 0.91
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (89 bp):
CAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTAGCCTGTAAAATTAT
Found at i:17158334 original size:53 final size:53
Alignment explanation
Indices: 17158264--17158376 Score: 131
Period size: 53 Copynumber: 2.1 Consensus size: 53
17158254 CATTGATTTA
* *
17158264 TAAAATTATCGAAATACCCTTG-AAGGGTAGAAATACCGAAATACCC-TGTAGGG
1 TAAAA-TACCGAAATACCCCTGTAA-GGTAGAAATACCGAAATACCCTTGTAGGG
* * * *
17158317 TAGAAATACCGAAATACCCCTGTAAGGTAGAATTACTGAGATACCCTTGTGGGG
1 TA-AAATACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCTTGTAGGG
17158371 TAAAAT
1 TAAAAT
17158377 TATCATTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 38 0.75
54 13 0.25
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (53 bp):
TAAAATACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCTTGTAGGG
Found at i:17158372 original size:27 final size:27
Alignment explanation
Indices: 17158273--17158376 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
17158263 ATAAAATTAT
*
17158273 CGAAATACCCTTGAAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
17158300 CGAAATACCC-TGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
17158326 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
17158353 TGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCTTGTAGGGTAGAAAT
17158377 TATCATTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 28 0.42
27 39 0.58
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:17158704 original size:27 final size:26
Alignment explanation
Indices: 17158664--17158723 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
17158654 ATATATATAT
* *
17158664 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
17158690 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
17158717 ATATCTG
1 ATATCTG
17158724 GCAGTCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:17158879 original size:6 final size:6
Alignment explanation
Indices: 17158842--17158929 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
17158832 TTGCATTCAA
* * *
17158842 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
17158891 -TCACCTG ATCCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
17158930 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:17158887 original size:31 final size:31
Alignment explanation
Indices: 17158842--17158945 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 31
17158832 TTGCATTCAA
* *
17158842 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
17158873 ATTCTGATTCTGATTCTGTCACCTGATCCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
17158904 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
17158934 TTTCTTATTCTG
1 ATTCTGATTCTG
17158946 TAATAGGTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 17 0.27
31 44 0.70
32 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:17175600 original size:19 final size:19
Alignment explanation
Indices: 17175553--17175602 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
17175543 TCAATAAATC
17175553 TCAAATATAAAATATTTAT
1 TCAAATATAAAATATTTAT
** * * *
17175572 AAAAAAATAAAGTTTTTAT
1 TCAAATATAAAATATTTAT
17175591 TCAAATATAAAA
1 TCAAATATAAAA
17175603 GTAAAAATCT
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAATATAAAATATTTAT
Found at i:17178342 original size:2 final size:2
Alignment explanation
Indices: 17178335--17178359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17178325 GGCTGAGGAG
17178335 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
17178360 TTAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17181189 original size:10 final size:10
Alignment explanation
Indices: 17181174--17181198 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17181164 CCATAATTTA
17181174 TGATACAAAT
1 TGATACAAAT
17181184 TGATACAAAT
1 TGATACAAAT
17181194 TGATA
1 TGATA
17181199 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:17181234 original size:26 final size:26
Alignment explanation
Indices: 17181194--17181301 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
17181184 TGATACAAAT
17181194 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17181220 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17181246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17181272 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17181298 TGAT
1 TGAT
17181302 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17186049 original size:25 final size:25
Alignment explanation
Indices: 17186015--17186063 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
17186005 AGGAGGCCTC
*
17186015 ATCCTCTGATGTTATTACTAGTATT
1 ATCCCCTGATGTTATTACTAGTATT
*
17186040 ATCCCCTGATGTTATTACTGGTAT
1 ATCCCCTGATGTTATTACTAGTAT
17186064 ATTCACTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45
Consensus pattern (25 bp):
ATCCCCTGATGTTATTACTAGTATT
Found at i:17193251 original size:24 final size:24
Alignment explanation
Indices: 17193224--17193273 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
17193214 ATGAAGACAA
*
17193224 TGGAGATGAAGATGCAG-ATGATGG
1 TGGAGATGAAGAT-AAGCATGATGG
17193248 TGGAGATGAAGATAAGCATGATGG
1 TGGAGATGAAGATAAGCATGATGG
17193272 TG
1 TG
17193274 AAAGTGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.22
Consensus pattern (24 bp):
TGGAGATGAAGATAAGCATGATGG
Found at i:17203964 original size:25 final size:26
Alignment explanation
Indices: 17203909--17203977 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
17203899 AATGAAAAGG
*
17203909 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGGAAAA-CTA
*
17203936 GCACTATGTGTGCGAAT-GAATA-TA
1 GCACTATGTGTGCGAATGGAAAACTA
*
17203960 TGCACTATGTGTACGAAT
1 -GCACTATGTGTGCGAAT
17203978 TTATTAACCG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.42
26 4 0.11
27 16 0.42
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (26 bp):
GCACTATGTGTGCGAATGGAAAACTA
Found at i:17211111 original size:26 final size:26
Alignment explanation
Indices: 17211082--17211189 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
17211072 TGGTACAAAT
17211082 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17211108 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17211134 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17211160 TGATAATGGCTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17211186 TGAT
1 TGAT
17211190 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17212852 original size:54 final size:54
Alignment explanation
Indices: 17212770--17212930 Score: 245
Period size: 54 Copynumber: 3.0 Consensus size: 54
17212760 GGAGGAAGCA
*
17212770 TCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
*
17212824 TCCTGGCGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * * *
17212878 TTCTGGTGGCTTTGCCACAA-TATCTGTATCTGGTGACTCTGTCACA-ATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
17212931 GCAGCCTCGC
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 86 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:17212908 original size:32 final size:27
Alignment explanation
Indices: 17212772--17212930 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
17212762 AGGAAGCATC
*
17212772 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
17212799 TTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
17212825 CCTGGCGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
17212853 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
17212880 CTGGTGGCTTTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
* *
17212907 CTGGTGACTCTGTCACA-ATATCTG
1 CTGGTGGCTCTGCCACATATATCTG
17212931 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.08
27 101 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:17212924 original size:81 final size:80
Alignment explanation
Indices: 17212772--17212930 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
17212762 AGGAAGCATC
*
17212772 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGCGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGCGACTAT
17212837 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
17212853 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTTTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGCGAC
* *
17212915 TCTGTCACAATATCTG
63 TATGCCACAATATCTG
17212931 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 18 0.26
81 50 0.74
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGCGACTAT
GCCACAATATCTGAT
Found at i:17214502 original size:13 final size:13
Alignment explanation
Indices: 17214484--17214508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17214474 ATTGATGTGC
17214484 TATTTTTTTATTA
1 TATTTTTTTATTA
17214497 TATTTTTTTATT
1 TATTTTTTTATT
17214509 TTTGTTGTAC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTTTATTA
Found at i:17218703 original size:46 final size:46
Alignment explanation
Indices: 17218632--17218807 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
17218622 TGTAACCCGC
17218632 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
17218678 CCAAAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCG-TAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CGTTCGCAT
* *** * *
17218724 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
17218771 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17218808 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.65
47 35 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:17218750 original size:93 final size:93
Alignment explanation
Indices: 17218640--17218810 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17218630 GCCCATAAGT
*
17218640 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
17218705 CGAGCTCGGATGCGTAGTTACATCTCTC
66 CGAGCTCGGATGCGTAGTTACATCTCTC
* *
17218733 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
* *
17218798 TGAGTTCGGATGC
66 CGAGCTCGGATGC
17218811 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCGTAGTTACATCTCTC
Found at i:17224161 original size:93 final size:93
Alignment explanation
Indices: 17224049--17224219 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
17224039 GCCCATAAGT
* *
17224049 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17224114 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
17224142 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
17224207 CGAGTTCGGATGC
66 CGAGCTCGGATGC
17224220 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:17224216 original size:46 final size:46
Alignment explanation
Indices: 17224041--17224216 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
17224031 TGTAACCCGC
* *
17224041 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
17224087 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
17224133 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
17224180 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17224217 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:17227559 original size:91 final size:91
Alignment explanation
Indices: 17227450--17227619 Score: 313
Period size: 91 Copynumber: 1.9 Consensus size: 91
17227440 GCCCATAAGT
* *
17227450 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17227515 CGAGTTCGGATGCCTAGTTACATCAC
66 CGAGTTCGGATGCCTAGTTACATCAC
*
17227541 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17227606 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17227620 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCAC
Found at i:17227615 original size:46 final size:46
Alignment explanation
Indices: 17227442--17227615 Score: 244
Period size: 46 Copynumber: 3.8 Consensus size: 46
17227432 TGTAACCCGC
* * *
17227442 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
17227488 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
* * *
17227534 ACATCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17227579 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17227616 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.03
45 35 0.32
46 70 0.64
47 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17227634 original size:46 final size:45
Alignment explanation
Indices: 17227493--17227634 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
17227483 CGCATCCATA
* * *
17227493 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATAT-C-CC
* * * ** *
17227539 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
17227584 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
17227630 AGTGA
1 AGTGA
17227635 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
44 2 0.03
45 33 0.43
46 38 0.49
48 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:17230371 original size:23 final size:23
Alignment explanation
Indices: 17230344--17230388 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
17230334 GGCCTACTAA
**
17230344 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
17230367 ATATATACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
17230389 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:17230454 original size:40 final size:40
Alignment explanation
Indices: 17230404--17230489 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
17230394 TATAATCAAT
*
17230404 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAGAATTG
** * * * *
17230444 TTTTAATATATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAGAATTG
17230484 TTTTAA
1 TTTTAA
17230490 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.65
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:17234653 original size:41 final size:41
Alignment explanation
Indices: 17234608--17234760 Score: 227
Period size: 41 Copynumber: 3.7 Consensus size: 41
17234598 TAATCTCATA
* *
17234608 ACTAAGTGCCTTTCATAGTCGAAGCTATCACAGTCTCGCAC
1 ACTAAGTGCCTTTCATAGCCGAAGCTATCTCAGTCTCGCAC
*
17234649 ACTAAGTGCCTTTCATAGCCGAAGCTTTCTCAGTCTCGCAC
1 ACTAAGTGCCTTTCATAGCCGAAGCTATCTCAGTCTCGCAC
* *
17234690 ACTAAGTTCCTTCCATAGCCGAAGCTATCTCAGTCTCGCAC
1 ACTAAGTGCCTTTCATAGCCGAAGCTATCTCAGTCTCGCAC
* *
17234731 ACTAAGTG-CTTTGTATAGCTGAAGCTATCT
1 ACTAAGTGCCTTT-CATAGCCGAAGCTATCT
17234761 TGATACGCAC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 3 0.03
41 98 0.97
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (41 bp):
ACTAAGTGCCTTTCATAGCCGAAGCTATCTCAGTCTCGCAC
Found at i:17242402 original size:40 final size:41
Alignment explanation
Indices: 17242254--17242371 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
17242244 GCTATTGTAA
* ** *
17242254 TCTCGCACATTAAGTGCCTT-TCATAATCGAAGCTATCACAG
1 TCTCGCACACTAAGTGCCTTAT-ATAGCCGAAGCTATCTCAG
* *
17242295 TCTCGCACACTAAGTTCCTTCTATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCTTATATAGCCGAAGCTATCTCAG
*
17242336 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTAT
1 TCTCGCACACTAAGTGCCTTATATAGCCGAAGCTAT
17242372 TCCGATTTTC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCTTATATAGCCGAAGCTATCTCAG
Found at i:17248198 original size:20 final size:18
Alignment explanation
Indices: 17248170--17248218 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
17248160 ATTAGGGATT
17248170 AATTTGAAACAAATCAAAA
1 AATTTGAAA-AAATCAAAA
*
17248189 AATTTGGAAAAAATTAAAA
1 AATTT-GAAAAAATCAAAA
17248208 AATTTTGAAAA
1 AA-TTTGAAAA
17248219 CAGGGGTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTTGAAAAAATCAAAA
Found at i:17248830 original size:39 final size:38
Alignment explanation
Indices: 17248780--17248879 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 38
17248770 CGAATATAAT
* *
17248780 AATTATAATTACCATAATTATAATAATGTT-TGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTCT-ACCG-AA
* * *
17248819 AATTACAATTACAATAATTATAATAATATTCTATCGTA
1 AATTATAATTACAATAATTATAATAATATTCTACCGAA
17248857 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
17248880 CAAAGATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 23 0.43
39 30 0.56
40 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCTACCGAA
Found at i:17253485 original size:9 final size:9
Alignment explanation
Indices: 17253466--17253551 Score: 109
Period size: 9 Copynumber: 9.6 Consensus size: 9
17253456 TTTATACAAA
*
17253466 TAATTCAGT
1 TAATTCGGT
*
17253475 TAATTTGGT
1 TAATTCGGT
17253484 TAATTCGGT
1 TAATTCGGT
17253493 TAATTCGGT
1 TAATTCGGT
* * *
17253502 TAGTTTGGG
1 TAATTCGGT
*
17253511 TAATTCGGA
1 TAATTCGGT
17253520 TAATTCGGT
1 TAATTCGGT
*
17253529 TAATTCGAT
1 TAATTCGGT
17253538 TAATTCGGT
1 TAATTCGGT
17253547 TAATT
1 TAATT
17253552 TTATACTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 65 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17255026 original size:2 final size:2
Alignment explanation
Indices: 17255021--17255067 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
17255011 AATTATGTGC
17255021 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
17255063 -T AT AT
1 AT AT AT
17255068 TTTTTAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17257190 original size:18 final size:17
Alignment explanation
Indices: 17257150--17257194 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
17257140 TGTTATTATT
*
17257150 TTTATTTTTTATTATCA
1 TTTATTATTTATTATCA
*
17257167 -TTATTATTTAGTTTTCA
1 TTTATTATTTA-TTATCA
17257184 TTTATTATTTA
1 TTTATTATTTA
17257195 ATTAGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
18 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTATTATTTATTATCA
Found at i:17264336 original size:51 final size:51
Alignment explanation
Indices: 17264251--17264382 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 51
17264241 ATCGAAGATA
* * * *
17264251 ACAAATCTTATTTCCCTGAAGTTGTAGTGAAATAGATTAGAGCTACAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGAAATAGATCAAAGCTACAAATT
* * *
17264302 ACAAATCATATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGCTACAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGAAATAGATCAAAGCTACAAATT
* * *
17264353 ATAAATCTTATCTCCCTGAAGCTGTAGTGA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGA
17264383 GCAGATTAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (51 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGAAATAGATCAAAGCTACAAATT
Found at i:17264696 original size:89 final size:88
Alignment explanation
Indices: 17264498--17264714 Score: 211
Period size: 89 Copynumber: 2.4 Consensus size: 88
17264488 CTATAATGGA
* * * * **
17264498 AAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCTTTAATCTTATCTCCCTAAAGTT
1 AAATCTTATCT-CCTAAAATTGTAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGTT
* *
17264563 GTAGTGGAGTAGATTAAAGATAAC
65 GCAGTAGAGTAGATTAAAGATAAC
* * * * * ** *
17264587 GAATCTTATATCCTTGAAATTGTGGTGAAGCAGATTAAAACCACTAATTTTATCTCTTTGAAGTT
1 AAATCTTATCTCC-TAAAATTGTAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGTT
* *
17264652 GCAGTAGAGTAGATTGAAGATAGC
65 GCAGTAGAGTAGATTAAAGATAAC
* *
17264676 AAATCTCATCTCTCTAAAATTGCAGT-AGAGCAGATTAAA
1 AAATCTTATCTC-CTAAAATTGTAGTGA-AGCAGATTAAA
17264715 GTTATAAATC
Statistics
Matches: 101, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
88 3 0.03
89 97 0.96
90 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (88 bp):
AAATCTTATCTCCTAAAATTGTAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGTTG
CAGTAGAGTAGATTAAAGATAAC
Found at i:17266469 original size:11 final size:11
Alignment explanation
Indices: 17266453--17266477 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17266443 ATTTTTTTTC
17266453 ATTTATTTATT
1 ATTTATTTATT
17266464 ATTTATTTATT
1 ATTTATTTATT
17266475 ATT
1 ATT
17266478 GTTATTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:17266637 original size:27 final size:27
Alignment explanation
Indices: 17266576--17266631 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17266566 TGTATTATTG
* *
17266576 TTATT-TTTTTTATTTTTTCATTATCA
1 TTATTATTATTTATTTTTCCATTATCA
17266602 TTATTATTATTTATTTTTCCATT-T-A
1 TTATTATTATTTATTTTTCCATTATCA
17266627 TTATT
1 TTATT
17266632 TAATTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 6 0.22
27 15 0.56
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (27 bp):
TTATTATTATTTATTTTTCCATTATCA
Found at i:17267220 original size:7 final size:7
Alignment explanation
Indices: 17267208--17267237 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
17267198 AATCTCTTCA
17267208 AATTTTC
1 AATTTTC
17267215 AATTTTC
1 AATTTTC
17267222 AATTTTC
1 AATTTTC
17267229 AATTTTC
1 AATTTTC
17267236 AA
1 AA
17267238 CACTAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTTC
Found at i:17267597 original size:29 final size:28
Alignment explanation
Indices: 17267564--17267657 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 28
17267554 TCTTTAAGTG
*
17267564 TGTATGATTGAATCCAAATTAAAGTTTCA
1 TGTATAATTGAA-CCAAATTAAAGTTTCA
* *
17267593 TGTATATATTTACACCACAATAAAAGTTTCA
1 TGTATA-ATTGA-ACCA-AATTAAAGTTTCA
* *
17267624 TGTTTATAATTGCACTAAATTAAAG-TTCA
1 TG--TATAATTGAACCAAATTAAAGTTTCA
17267653 TGTAT
1 TGTAT
17267658 TAAATTACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
27 3 0.06
29 11 0.21
30 14 0.26
31 18 0.34
32 3 0.06
33 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (28 bp):
TGTATAATTGAACCAAATTAAAGTTTCA
Found at i:17267619 original size:31 final size:30
Alignment explanation
Indices: 17267577--17267667 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
17267567 ATGATTGAAT
* *
17267577 CCAAATTAAAGTTTCATGTATATATTTACA
1 CCAAATAAAAGTTTCATGTATATAATTACA
* *
17267607 CCACAATAAAAGTTTCATGTTTATAATTGCA
1 CCA-AATAAAAGTTTCATGTATATAATTACA
* *
17267638 CTAAATTAAAG-TTCATGTAT-TAAATTACA
1 CCAAATAAAAGTTTCATGTATAT-AATTACA
17267667 C
1 C
17267668 ATTGAATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.02
29 15 0.29
30 10 0.20
31 25 0.49
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (30 bp):
CCAAATAAAAGTTTCATGTATATAATTACA
Found at i:17272965 original size:19 final size:18
Alignment explanation
Indices: 17272941--17272978 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
17272931 GCAATAGCGG
*
17272941 TAACTATGTATAATTATTA
1 TAACTATGTACAATT-TTA
17272960 TAACTATGTACAATTTTA
1 TAACTATGTACAATTTTA
17272978 T
1 T
17272979 CAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TAACTATGTACAATTTTA
Found at i:17289794 original size:2 final size:2
Alignment explanation
Indices: 17289783--17289816 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
17289773 TTTAGTTTTT
17289783 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
17289817 CTATTTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17294287 original size:9 final size:9
Alignment explanation
Indices: 17294269--17294365 Score: 56
Period size: 9 Copynumber: 10.3 Consensus size: 9
17294259 TTTTCTTTAA
17294269 TTTT-TTAT
1 TTTTATTAT
17294277 TTTTATTAT
1 TTTTATTAT
17294286 TTTGTA-TAT
1 TTT-TATTAT
*
17294295 ATTTATTAT
1 TTTTATTAT
*
17294304 TTTTATAAT
1 TTTTATTAT
* *
17294313 TCTATATAAT
1 T-TTTATTAT
17294323 TTTTATGTAAAT
1 TTTTAT-T--AT
* *
17294335 TTCTATAAT
1 TTTTATTAT
17294344 TATTTATTAT
1 T-TTTATTAT
17294354 TTTCTA-TAT
1 TTT-TATTAT
17294363 TTT
1 TTT
17294366 AAAAAAACTG
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
8 6 0.09
9 38 0.54
10 19 0.27
12 7 0.10
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATTAT
Found at i:17294298 original size:27 final size:26
Alignment explanation
Indices: 17294266--17294326 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
17294256 GAATTTTCTT
* * *
17294266 TAATTTTTTATTTTTATTATTTTGTA
1 TAATTTTTTATTTTTATAATTCTATA
*
17294292 TATATTTATTATTTTTATAATTCTATA
1 TA-ATTTTTTATTTTTATAATTCTATA
17294319 TAATTTTT
1 TAATTTTT
17294327 ATGTAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TAATTTTTTATTTTTATAATTCTATA
Found at i:17294343 original size:21 final size:19
Alignment explanation
Indices: 17294302--17294365 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
17294292 TATATTTATT
*
17294302 ATTTTTA-TAATTCTATATA
1 ATTTTTATTAATT-TCTATA
17294321 ATTTTTATGTAAATTTCTATA
1 ATTTTTAT-T-AATTTCTATA
*
17294342 ATTATTTATTATTTTCTAT-
1 ATT-TTTATTAATTTCTATA
17294361 ATTTT
1 ATTTT
17294366 AAAAAAACTG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 8 0.21
21 10 0.26
22 9 0.23
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTATTAATTTCTATA
Found at i:17294392 original size:8 final size:8
Alignment explanation
Indices: 17294379--17294435 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 8
17294369 AAAACTGCAA
17294379 TTTTATAT
1 TTTTATAT
17294387 TTTTATAAT
1 TTTTAT-AT
*
17294396 TTTTATTAG
1 TTTTA-TAT
17294405 TTTTATTAT
1 TTTTA-TAT
*
17294414 TTTAAAATAT
1 TTT--TATAT
17294424 TTTTATAT
1 TTTTATAT
17294432 TTTT
1 TTTT
17294436 TACAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 14 0.34
9 19 0.46
10 7 0.17
11 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TTTTATAT
Found at i:17299288 original size:5 final size:5
Alignment explanation
Indices: 17299269--17299351 Score: 69
Period size: 5 Copynumber: 15.8 Consensus size: 5
17299259 GGCATATCTT
* * *
17299269 ATATC ATAT- ATTATC ATATC ATATTCC ATATC ATGTC ATAGCAC ATTTC
1 ATATC ATATC A-TATC ATATC ATA-T-C ATATC ATATC ATA--TC ATATC
* *
17299318 ATATC TTATC ATATC ATATC ATAAC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
17299352 TCTACCCCAT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 1 0.02
5 51 0.82
6 3 0.05
7 7 0.11
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:17299298 original size:22 final size:22
Alignment explanation
Indices: 17299273--17299336 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
17299263 TATCTTATAT
17299273 CATATATTATCATATCATATTC
1 CATATATTATCATATCATATTC
* * * *
17299295 CATATCA-TGTCATAGCACATTT
1 CATAT-ATTATCATATCATATTC
*
17299317 CATATCTTATCATATCATAT
1 CATATATTATCATATCATAT
17299337 CATAACATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.42
Consensus pattern (22 bp):
CATATATTATCATATCATATTC
Found at i:17299613 original size:2 final size:2
Alignment explanation
Indices: 17299608--17299635 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17299598 ACACACACAC
17299608 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
17299636 CATAAGTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17302626 original size:21 final size:21
Alignment explanation
Indices: 17302589--17302632 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17302579 TTTCCAGTAC
*
17302589 TTTAAAAAAATAGATATTTTT
1 TTTAAAAAAATAGATATGTTT
*
17302610 TTTAGAAAAAAT-TATATGTTT
1 TTTA-AAAAAATAGATATGTTT
17302631 TT
1 TT
17302633 AATATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTAAAAAAATAGATATGTTT
Found at i:17302909 original size:26 final size:26
Alignment explanation
Indices: 17302871--17302960 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
17302861 AATTTATAGC
* *
17302871 TTTTATTAGTTTTATATTAATTGTATT
1 TTTTAATATTTTTATATTAATT-TATT
* *
17302898 TTTTAA-ATTTTTTTATTTACA-ATATT
1 TTTTAATATTTTTATA-TTA-ATTTATT
17302924 TTTATAATATTTTTATA--AATTT-TT
1 TTT-TAATATTTTTATATTAATTTATT
17302948 TTTTAATATTTTT
1 TTTTAATATTTTT
17302961 TCAACTTTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
23 10 0.19
24 6 0.12
25 2 0.04
26 14 0.27
27 11 0.21
28 9 0.17
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTAATATTTTTATATTAATTTATT
Found at i:17302945 original size:10 final size:11
Alignment explanation
Indices: 17302913--17302960 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
17302903 AATTTTTTTA
*
17302913 TTTACAATATT
1 TTTATAATATT
17302924 TTTATAATATT
1 TTTATAATATT
*
17302935 TTTATAAATTTT
1 TTTAT-AATATT
*
17302947 TTTTTAATATT
1 TTTATAATATT
17302958 TTT
1 TTT
17302961 TCAACTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATAATATT
Found at i:17304922 original size:20 final size:20
Alignment explanation
Indices: 17304894--17304961 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
17304884 TACCTTTATA
*
17304894 AAGTCTCAATCTTTGGGATT
1 AAGTATCAATCTTTGGGATT
* *
17304914 AAGTATCAATACATT---ATA
1 AAGTATCAAT-CTTTGGGATT
*
17304932 AAGTCTCAATCTTTGGGATT
1 AAGTATCAATCTTTGGGATT
*
17304952 AAGTACCAAT
1 AAGTATCAAT
17304962 ACATTATCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
20 19 0.53
21 3 0.08
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
AAGTATCAATCTTTGGGATT
Found at i:17304931 original size:38 final size:38
Alignment explanation
Indices: 17304889--17304968 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
17304879 ATCGATACCT
*
17304889 TTATAAAGTCTCAATCTTTGGGATTAAGTATCAATACA
1 TTATAAAGTCTCAATCTTTGGGATTAAGTACCAATACA
17304927 TTATAAAGTCTCAATCTTTGGGATTAAGTACCAATACA
1 TTATAAAGTCTCAATCTTTGGGATTAAGTACCAATACA
17304965 TTAT
1 TTAT
17304969 CTAGCCTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (38 bp):
TTATAAAGTCTCAATCTTTGGGATTAAGTACCAATACA
Found at i:17307779 original size:18 final size:17
Alignment explanation
Indices: 17307758--17307799 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17307748 AATAAAGTTT
17307758 AAATAAAAAGAAAAGTAA
1 AAATAAAAAGAAAAGT-A
* *
17307776 AAATAAAAATAATAGTA
1 AAATAAAAAGAAAAGTA
17307793 AAATAAA
1 AAATAAA
17307800 GGGACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATAAAAAGAAAAGTA
Found at i:17324265 original size:25 final size:26
Alignment explanation
Indices: 17324220--17324268 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
17324210 ATTGTTTTGG
*
17324220 ATTCATATGCCCATCATGTACCTAGA
1 ATTCATATACCCATCATGTACCTAGA
17324246 ATTCATATACCC-TCATGTACCTA
1 ATTCATATACCCATCATGTACCTA
17324269 ATCCTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (26 bp):
ATTCATATACCCATCATGTACCTAGA
Found at i:17327547 original size:18 final size:19
Alignment explanation
Indices: 17327524--17327580 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
17327514 AGGCAACCCA
17327524 ATTTTTACTTTTA-CTT-TT
1 ATTTTTA-TTTTATCTTATT
17327542 ATTTTTATTTTATCTTATT
1 ATTTTTATTTTATCTTATT
17327561 A-TTTTA--TTAT-TTATT
1 ATTTTTATTTTATCTTATT
17327576 ATTTT
1 ATTTT
17327581 CAGATATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
17 5 0.14
18 15 0.42
19 3 0.08
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTATTTTATCTTATT
Found at i:17329196 original size:10 final size:10
Alignment explanation
Indices: 17329181--17329230 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
17329171 TAATTCTAGG
17329181 ATTTAT-TTT
1 ATTTATCTTT
17329190 CATTTATCTTT
1 -ATTTATCTTT
17329201 ATTTATCTTT
1 ATTTATCTTT
17329211 ATTTAT-TTGT
1 ATTTATCTT-T
17329221 ATTTATCTTT
1 ATTTATCTTT
17329231 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:17332820 original size:14 final size:14
Alignment explanation
Indices: 17332787--17332820 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17332777 AAAAGTATAT
17332787 ATATATGTGTAATA
1 ATATATGTGTAATA
* *
17332801 AAATATGTGTACTA
1 ATATATGTGTAATA
17332815 ATATAT
1 ATATAT
17332821 AATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (14 bp):
ATATATGTGTAATA
Found at i:17333052 original size:21 final size:21
Alignment explanation
Indices: 17333015--17333072 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
17333005 ATATAAATAT
*
17333015 ATATAAATA-ATAGTATTAGAA
1 ATATACATATATA-TATTAGAA
*
17333036 ATATACCATATA-ATATTAGAT
1 ATATA-CATATATATATTAGAA
17333057 ATATACATATATATAT
1 ATATACATATATATAT
17333073 ATATATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 4 0.12
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATACATATATATATTAGAA
Found at i:17333068 original size:8 final size:7
Alignment explanation
Indices: 17333043--17333148 Score: 57
Period size: 7 Copynumber: 15.3 Consensus size: 7
17333033 GAAATATACC
17333043 ATATAAT
1 ATATAAT
17333050 AT-TAGAT
1 ATATA-AT
17333057 ATATACAT
1 ATATA-AT
17333065 ATAT-AT
1 ATATAAT
17333071 ATAT-AT
1 ATATAAT
17333077 ATATAAT
1 ATATAAT
17333084 AGTATGAA-
1 A-TAT-AAT
* *
17333092 AGA-AAA
1 ATATAAT
17333098 ATATAACT
1 ATATAA-T
17333106 A-ATAAT
1 ATATAAT
*
17333112 ATTAAAAAT
1 A-T-ATAAT
17333121 ATATAAT
1 ATATAAT
17333128 A-AT-AT
1 ATATAAT
*
17333133 ATATAAA
1 ATATAAT
17333140 ATATAAT
1 ATATAAT
17333147 AT
1 AT
17333149 TAAGGACTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
5 5 0.06
6 22 0.28
7 30 0.38
8 14 0.18
9 7 0.09
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (7 bp):
ATATAAT
Found at i:17333100 original size:62 final size:59
Alignment explanation
Indices: 17333003--17333147 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 59
17332993 ATACATACAC
* * * * *
17333003 ACATATAAATATATATAAATAATAGTATTAGAAATAT-ACCATATAATATT-AGATATAT
1 ACATATATATATATATATATAATAGTATAAGAAATATAACTA-ATAATATTAAAATATAT
17333061 ACATATATATATATATATATAATAGTATGAAAGAAAAATATAACTAATAATATTAAAAATATAT
1 ACATATATATATATATATATAATAGTAT--AAG--AAATATAACTAATAATATT-AAAATATAT
*
17333125 A-ATA-ATATATATAAAATATAATA
1 ACATATATATATAT-ATATATAATA
17333148 TTAAGGACTT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
58 26 0.36
60 2 0.03
62 22 0.30
63 15 0.21
64 8 0.11
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (59 bp):
ACATATATATATATATATATAATAGTATAAGAAATATAACTAATAATATTAAAATATAT
Found at i:17333118 original size:21 final size:21
Alignment explanation
Indices: 17333094--17333147 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
17333084 AGTATGAAAG
17333094 AAAAATATAACTAATAATAT-T
1 AAAAATATAA-TAATAATATAT
17333115 AAAAATAT-ATAATAATATAT
1 AAAAATATAATAATAATATAT
17333135 ATAAAATATAATA
1 A-AAAATATAATA
17333148 TTAAGGACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 15 0.50
22 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATAATAATAATATAT
Found at i:17333121 original size:9 final size:10
Alignment explanation
Indices: 17333094--17333144 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
17333084 AGTATGAAAG
17333094 AAAAATATAACT
1 AAAAATAT-A-T
*
17333106 AATAATAT-T
1 AAAAATATAT
17333115 AAAAATATAT
1 AAAAATATAT
*
17333125 AATAATATAT
1 AAAAATATAT
17333135 ATAAAATATA
1 A-AAAATATA
17333145 ATATTAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.24
10 11 0.33
11 7 0.21
12 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATAT
Found at i:17333365 original size:13 final size:14
Alignment explanation
Indices: 17333347--17333377 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
17333337 ATGTATGAAT
17333347 ATATACATATA-TA
1 ATATACATATATTA
17333360 ATATACATATATTA
1 ATATACATATATTA
17333374 ATAT
1 ATAT
17333378 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:17335526 original size:74 final size:71
Alignment explanation
Indices: 17335381--17335630 Score: 254
Period size: 71 Copynumber: 3.5 Consensus size: 71
17335371 AATTAAAAGA
* * * * * *
17335381 CTCAACTCACCTCTCGTAATATGAATTGACTCTTTA-AGATA-GAATTTGAAAATACCTTAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTAGAAACATGAA-TTGAAATTACCTCAGCGT
*
17335444 GCCGCAAGG
63 GCCCCAAGG
* *
17335453 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTA-ATGGGAATTGAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA--AACAT--GAATTGAAATTACCTCAGCG
17335517 TGCCCCAAGG
62 TGCCCCAAGG
* * * * * *
17335527 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATGAATTGAAATTACCCCAACGTGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAACATGAATTGAAATTACCTCAGCGTGCC
***
17335592 TTGAGG
66 CCAAGG
17335598 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
17335631 CTTGGAAACA
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
70 4 0.03
71 57 0.38
72 28 0.19
73 3 0.02
74 56 0.37
75 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAACATGAATTGAAATTACCTCAGCGTGCC
CCAAGG
Found at i:17335613 original size:71 final size:71
Alignment explanation
Indices: 17335381--17335644 Score: 237
Period size: 74 Copynumber: 3.6 Consensus size: 71
17335371 AATTAAAAGA
* * * * * ** *
17335381 CTCAACTCACCTCTCGTAATATGAATTGACTCTTT--AAGATAGAATTTGAAAATACCTTAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACAT-GAA-TTGAAATTACCCCAACGT
*
17335444 GCCGCAAGG
63 GCCCCAAGG
* * * * *
17335453 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTA-ATGGGAATTGAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AACAT--GAATTGAAATTACCCCAACG
17335517 TGCCCCAAGG
62 TGCCCCAAGG
* * *
17335527 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATGAATTGAAATTACCCCAACGTGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATGAATTGAAATTACCCCAACGTGCC
***
17335592 TTGAGG
66 CCAAGG
17335598 CTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGGAAACATGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TT-GAAACATGAA
17335645 CTAAAAAGCA
Statistics
Matches: 160, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
71 54 0.34
72 30 0.19
73 4 0.03
74 68 0.43
75 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATGAATTGAAATTACCCCAACGTGCC
CCAAGG
Found at i:17335772 original size:71 final size:71
Alignment explanation
Indices: 17335656--17336022 Score: 288
Period size: 71 Copynumber: 4.9 Consensus size: 71
17335646 TAAAAAGCAG
* * * * *
17335656 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
17335721 AAACAT
66 AAACAT
*
17335727 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
17335792 TGGAAAACAT
64 T-G-AAACAT
* * * ** * ** * * * * *
17335802 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATA
1 AAATT-GAAA-T--TACCTCAACGTGCCT-TGAG-G-C-TCA-ACTC-A--C-C-TCTCGCAATA
* *
17335867 TGAGTTGATTTTT-ATTTA-AT
52 TGAGCTGATTTTTGA--AACAT
* ** *
17335887 AGGAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTT
1 A--AATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
17335952 TGAAACAT
64 TGAAACAT
*
17335960 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
17336023 CTTGGAAAAC
Statistics
Matches: 227, Mismatches: 45, Indels: 48
0.71 0.14 0.15
Matches are distributed among these distances:
71 110 0.48
72 4 0.02
73 26 0.11
74 3 0.01
75 11 0.05
76 3 0.01
77 2 0.01
78 3 0.01
79 9 0.04
80 3 0.01
81 2 0.01
82 3 0.01
83 8 0.04
84 4 0.02
85 4 0.02
86 4 0.02
87 7 0.03
88 4 0.02
89 17 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:17335787 original size:159 final size:160
Alignment explanation
Indices: 17335498--17335951 Score: 707
Period size: 159 Copynumber: 2.8 Consensus size: 160
17335488 ATTTAATGGG
* ** *
17335498 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* * *
17335563 AACATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
17335628 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
17335657 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
17335722 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
17335787 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
*
17335817 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-A
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* * * **
17335881 TTTA-ATAGGAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGC
66 --AACATA--AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGC
*
17335945 TGCTTTT
127 TGATTTT
17335952 TGAAACATAA
Statistics
Matches: 274, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
159 132 0.48
160 84 0.31
161 1 0.00
162 57 0.21
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAACTAAAAAGCAGA
Found at i:17335896 original size:233 final size:233
Alignment explanation
Indices: 17335657--17336112 Score: 840
Period size: 233 Copynumber: 2.0 Consensus size: 233
17335647 AAAAAGCAGA
* * *
17335657 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
17335722 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
17335787 TTTCTTGGAAAACATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
17335852 TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
* *
17335890 AATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
17335955 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
17336020 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGGAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
17336085 TCACTTCTCGCAATATGAGTTGATTTTT
196 TCACTTCTCGCAATATGAGTTGATTTTT
17336113 GGAAAAAACA
Statistics
Matches: 215, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
233 215 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (233 bp):
AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
TCACTTCTCGCAATATGAGTTGATTTTTATTTAATAGG
Found at i:17335936 original size:73 final size:71
Alignment explanation
Indices: 17335816--17336022 Score: 283
Period size: 73 Copynumber: 2.9 Consensus size: 71
17335806 TAAAAAGTAG
* * *
17335816 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
*
17335880 ATTTA-AT
66 A--AACAT
** *
17335887 AGGAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTT
1 A--AATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
17335952 TGAAACAT
64 TGAAACAT
* *
17335960 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
17336023 CTTGGAAAAC
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
71 58 0.48
72 1 0.01
73 60 0.50
74 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:17345266 original size:3 final size:3
Alignment explanation
Indices: 17345258--17345343 Score: 52
Period size: 3 Copynumber: 27.3 Consensus size: 3
17345248 TTTATTGTAA
* *
17345258 TAT TAT TAT TAT TAT TAT TAC TAT TAT TA- TAT CAT ATAT ATAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT
* *
17345305 ATAT GTAT TTT TAT GTACA TAT TAT TAT T-T TA- TAT TAT T
1 -TAT -TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT T
17345344 TACCAAATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
2 6 0.09
3 41 0.60
4 21 0.31
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17357660 original size:546 final size:547
Alignment explanation
Indices: 17356621--17357713 Score: 2010
Period size: 546 Copynumber: 2.0 Consensus size: 547
17356611 GCCACGCTCG
17356621 AAAAGATTTTTGATTGAGGAACGAGGAAGAGTTCATGTGTTGAATATCTAGAGCATTTGTATCCG
1 AAAAGATTTTTGATTGAGGAACGAGGAAGAGTTCATGTGTTGAATATCTAGAGCATTTGTATCCG
17356686 TTGAATACAATCCTTTCTTTCTTTTGACATTTTTTACTCTCATTGGTTAACTTGCTTTGTTTGCC
66 TTGAATACAATCCTTTCTTTCTTTTGACATTTTTTACTCTCATTGGTTAACTTGCTTTGTTTGCC
*
17356751 ACCTTTGAAATAGATGAATATGAAATATCATTTTTGTCCCTATCTGACCTTTTTCATGCATCTCA
131 ACATTTGAAATAGATGAATATGAAATATCATTTTTGTCCCTATCTGACCTTTTTCATGCATCTC-
* *
17356816 TTATGTGTTTATTTACATGATAAATGGTGAAATGATATACTCTAAACAAAAGAAATGTTAAGCAT
195 -TA----TTTATTTACATGATAAATGGTGAAATGACATACTCCAAACAAAAGAAATGTTAAGCAT
17356881 TACCTGGATGAAAATTTGATAAGCACAAGAGTCTCAAAGTAAGAACAAAGTTCAATCGGGGCAGA
255 TACCTGGATGAAAATTTGATAAGCACAAGAGTCTCAAAGTAAGAACAAAGTTCAATCGGGGCAGA
* *
17356946 AGAGTGATATCTAAGAAACGTCGATTACTTGTGAAGCTTGAAGACAGGTATAAGGCCTGAAGAGA
320 AGAATGATATCTAAGAAACGTCGATTACTCGTGAAGCTTGAAGACAGGTATAAGGCCTGAAGAGA
* *
17357011 AAGTCGAGAATCAAAGTAATGAACACAGATCCTCAACAATCGTGGCTAAATGGACATACGACAAA
385 AAGTCGAGAATCAAAGCAATGAACACAGATCCTCAACAATCATGGCTAAATGGACATACGACAAA
17357076 CATGCTTAAGGAGCACTGCATAATCATGTAGGCATAAAAGCATTTAAGACAAACATGTGCATATC
450 CATGCTTAAGGAGCACTGCATAATCATGTAGGCATAAAAGCATTTAAGACAAACATGTGCATATC
*
17357141 ATGATAACATCATACATGGCATATACATGGCAT
515 ATGATAACATCATACATGACATATACATGGCAT
17357174 AAAAGATTTTTGATTGAGGAACGAGGAAGAGTTCATGTGTTGAATATCTAGAGCATTTGTATCCG
1 AAAAGATTTTTGATTGAGGAACGAGGAAGAGTTCATGTGTTGAATATCTAGAGCATTTGTATCCG
* *
17357239 TTGAATACGATCCTTTCTTTCTTTTTGACATTTTTTACTCTCATTGTTTAACTTGCTTTGTTTGC
66 TTGAATACAATCCTTTCTTTC-TTTTGACATTTTTTACTCTCATTGGTTAACTTGCTTTGTTTGC
17357304 CACATTTGAAATAGATGAATATGAAATATCATTTTTGTCCCTATCTGACCTTTTTCATGCATCTC
130 CACATTTGAAATAGATGAATATGAAATATCATTTTTGTCCCTATCTGACCTTTTTCATGCATCTC
17357369 -A-TTATTTACATGATAAATGGTGAAATGACATACTCCAAACAAAAGAAATGTTAAGCATTACCT
195 TATTTATTTACATGATAAATGGTGAAATGACATACTCCAAACAAAAGAAATGTTAAGCATTACCT
17357432 GGATGAAAATTTGATAAGCACAAGAGTCTCAAAGTAAGAACAAAGTTCAATCGGGGCAGAAGAAT
260 GGATGAAAATTTGATAAGCACAAGAGTCTCAAAGTAAGAACAAAGTTCAATCGGGGCAGAAGAAT
*
17357497 GATATCTGAGAAACGTCGATTACTCGTGAAGCTTGAAGACAGGTATAAGGCCTGAAGAGAAAGTC
325 GATATCTAAGAAACGTCGATTACTCGTGAAGCTTGAAGACAGGTATAAGGCCTGAAGAGAAAGTC
17357562 GAGAATCAAAGCAATGAACACAGATCCTCAACAATCATGGCTAAATGGACATACGACAAACATGC
390 GAGAATCAAAGCAATGAACACAGATCCTCAACAATCATGGCTAAATGGACATACGACAAACATGC
17357627 TTAAGGAGCACTGCATAATCATGTAGGCATAAAAGCATTTAAGACAAACATGTGCATATCATGAT
455 TTAAGGAGCACTGCATAATCATGTAGGCATAAAAGCATTTAAGACAAACATGTGCATATCATGAT
17357692 AACATCATACATGACATATACA
520 AACATCATACATGACATATACA
17357714 GGTACTCCAA
Statistics
Matches: 528, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
546 336 0.64
551 1 0.00
553 85 0.16
554 106 0.20
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (547 bp):
AAAAGATTTTTGATTGAGGAACGAGGAAGAGTTCATGTGTTGAATATCTAGAGCATTTGTATCCG
TTGAATACAATCCTTTCTTTCTTTTGACATTTTTTACTCTCATTGGTTAACTTGCTTTGTTTGCC
ACATTTGAAATAGATGAATATGAAATATCATTTTTGTCCCTATCTGACCTTTTTCATGCATCTCT
ATTTATTTACATGATAAATGGTGAAATGACATACTCCAAACAAAAGAAATGTTAAGCATTACCTG
GATGAAAATTTGATAAGCACAAGAGTCTCAAAGTAAGAACAAAGTTCAATCGGGGCAGAAGAATG
ATATCTAAGAAACGTCGATTACTCGTGAAGCTTGAAGACAGGTATAAGGCCTGAAGAGAAAGTCG
AGAATCAAAGCAATGAACACAGATCCTCAACAATCATGGCTAAATGGACATACGACAAACATGCT
TAAGGAGCACTGCATAATCATGTAGGCATAAAAGCATTTAAGACAAACATGTGCATATCATGATA
ACATCATACATGACATATACATGGCAT
Found at i:17358097 original size:72 final size:71
Alignment explanation
Indices: 17357999--17358164 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
17357989 GAGTTAAGCC
** * *
17357999 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17358063 TGAGGTA
65 TGAGGTA
*
17358070 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17358135 TGAGGTA
65 TGAGGTA
* *
17358142 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
17358165 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:17358267 original size:140 final size:140
Alignment explanation
Indices: 17358097--17358584 Score: 888
Period size: 140 Copynumber: 3.5 Consensus size: 140
17358087 TTAATTTCAA
17358097 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
17358162 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAATGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
17358227 TCAAAATCAG
131 TCAAAATCAG
17358237 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17358302 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
17358367 TCAAAATCAG
131 TCAAAATCAG
*
17358377 CTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
17358442 TTTATGTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
17358507 TCAAAATCAG
131 TCAAAATCAG
17358517 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
17358581 TCAA
62 TCAA
17358585 AAAAAAAAAT
Statistics
Matches: 338, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.01
140 307 0.91
142 23 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:17358440 original size:13 final size:13
Alignment explanation
Indices: 17358422--17358455 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17358412 CGCTGAGGTA
*
17358422 TTTTCAATTTCTG
1 TTTTCAATTTATG
17358435 TTTTCAATTTATG
1 TTTTCAATTTATG
17358448 TTATTCAA
1 TT-TTCAA
17358456 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:17358713 original size:72 final size:73
Alignment explanation
Indices: 17358590--17358731 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 73
17358580 TTCAAAAAAA
*
17358590 AAAATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTT
1 AAAATTTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACATTGAGGTAATTTCAATTT
17358655 CTGTTTTC
66 CTGTTTTC
*
17358663 AAAA-TTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTT
1 AAAATTTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACATTGAGGTAATTTCAATTT
17358727 CTGTT
66 CTGTT
17358732 CAAAATGAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 63 0.94
73 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (73 bp):
AAAATTTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACATTGAGGTAATTTCAATTT
CTGTTTTC
Found at i:17359076 original size:77 final size:75
Alignment explanation
Indices: 17358809--17359192 Score: 470
Period size: 74 Copynumber: 5.0 Consensus size: 75
17358799 TCAGAAAAAA
* * *
17358809 AAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTCT
1 AAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA-TTT-T
* * *
17358874 CAATTTATATTTTTC
61 CAATTTCTGTTGTTC
* *
17358889 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
17358954 TCTGTTG-TC
66 TCTGTTGTTC
* * *
17358963 AAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
17359028 TTTCGTATGTTTC
66 TCT-GT-TG-TTC
*
17359041 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
17359105 TCTGTTG-TA
66 TCTGTTGTTC
* * *
17359114 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG-TCAAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCA
* *
17359178 ATTTCCGTTTTTC
63 ATTTCTGTTGTTC
17359191 AA
1 AA
17359193 TTTCTACCTT
Statistics
Matches: 268, Mismatches: 27, Indels: 21
0.85 0.09 0.07
Matches are distributed among these distances:
73 1 0.00
74 104 0.39
75 15 0.06
76 30 0.11
77 77 0.29
78 2 0.01
79 33 0.12
80 6 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTGTTC
Found at i:17359086 original size:151 final size:152
Alignment explanation
Indices: 17358808--17359155 Score: 506
Period size: 151 Copynumber: 2.3 Consensus size: 152
17358798 TTCAGAAAAA
* * *
17358808 AAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTC
1 AAAAAAA-ATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTA-TTTC
* *
17358873 TCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCAGGACACGC
64 TCAATTTATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
17358938 TGAGGTATTTTCAATTTCTGTTGT
129 TGAGGTATTTTCAATTTCTGTTGT
* * * *
17358962 CAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA-TTGTC
1 AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTATTTCTC
* *
17359024 AATTTTTCGTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
66 AA--TTT-ATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
17359088 CTGAGGTATTTTTAATTTCTGTTGT
128 CTGAGGTATTTTCAATTTCTGTTGT
*
17359113 AAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAG
1 AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAG
17359156 GTCACACGTC
Statistics
Matches: 176, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
149 6 0.03
151 123 0.70
152 9 0.05
153 32 0.18
154 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (152 bp):
AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTATTTCTC
AATTTATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTTTCAATTTCTGTTGT
Found at i:17359265 original size:91 final size:91
Alignment explanation
Indices: 17359114--17359280 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
17359104 TTCTGTTGTA
* * *
17359114 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGTCAAGCTATTTTCAA
17359179 TTTCCGTTTTTCAATTTCTACCTTTC
66 TTTCCGTTTTTCAATTTCTACCTTTC
* * * *
17359205 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGCG-CTGAGCTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAGG-TCACACGTC-AAGCTATTTTC
*
17359268 AATTTCTGTTTTT
64 AATTTCCGTTTTT
17359281 AATGTCTGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 3 0.05
91 63 0.95
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (91 bp):
AAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGTCAAGCTATTTTCAA
TTTCCGTTTTTCAATTTCTACCTTTC
Found at i:17359994 original size:36 final size:32
Alignment explanation
Indices: 17359937--17360018 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 32
17359927 AAGCCCCTCC
17359937 AAAAAAAAAGAAAAAAGAAAACCTAACCCAAA
1 AAAAAAAAAGAAAAAAGAAAACCTAACCCAAA
17359969 AAAAAAAGAAGAAGAAAAAGAAAAACCTAACCCAAA
1 AAAAAAA-AAG-A-AAAAAG-AAAACCTAACCCAAA
*
17360005 AAAAAATAA-AAAAA
1 AAAAAAAAAGAAAAA
17360019 CCCTAGCCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
32 11 0.24
33 4 0.09
34 1 0.02
35 8 0.18
36 21 0.47
ACGTcount: A:0.77, C:0.12, G:0.07, T:0.04
Consensus pattern (32 bp):
AAAAAAAAAGAAAAAAGAAAACCTAACCCAAA
Found at i:17360581 original size:2 final size:2
Alignment explanation
Indices: 17360576--17360608 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17360566 TAAATACTAT
*
17360576 TA TA TA CA 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 TA TA TA T
17360609 TTTAAATACC
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17364194 original size:2 final size:2
Alignment explanation
Indices: 17364187--17364223 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17364177 TACCATTAAA
17364187 AT AT AT AT AT 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
17364224 ATGCTTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17378106 original size:43 final size:45
Alignment explanation
Indices: 17378028--17378111 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
17378018 AACTTTAGGG
**
17378028 AGATAAGATCTTCAATCTTCAGTCTGCTTCTTTGCTACCTCAAGA
1 AGATAAGATCTTCAATCTTCAACCTGCTTCTTTGCTACCTCAAGA
*
17378073 AGATAAGA-C-TCAATCTTTAACCTGC-TCTCTTGCTACCTC
1 AGATAAGATCTTCAATCTTCAACCTGCTTCT-TTGCTACCTC
17378112 CGAGAGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.09
43 23 0.66
44 1 0.03
45 8 0.23
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTTCTTTGCTACCTCAAGA
Found at i:17378120 original size:43 final size:44
Alignment explanation
Indices: 17378027--17378122 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
17378017 CAACTTTAGG
**
17378027 GAGATAAGATCTTCAATCTTCAGTCTGCTTCTTTGCTACCTCAA
1 GAGATAAGATCTTCAATCTTCAACCTGCTTCTTTGCTACCTCAA
* *
17378071 GAAGATAAGA-C-TCAATCTTTAACCTGC-TCTCTTGCTACCTCCGA
1 G-AGATAAGATCTTCAATCTTCAACCTGCTTCT-TTGCTACCT-CAA
17378115 GAGATAAG
1 GAGATAAG
17378123 GCTTGGGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
42 3 0.07
43 29 0.64
44 5 0.11
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTTCTTTGCTACCTCAA
Found at i:17378428 original size:176 final size:176
Alignment explanation
Indices: 17377880--17378736 Score: 1102
Period size: 176 Copynumber: 4.9 Consensus size: 176
17377870 TCTGCTCCAC
* * * * * * *
17377880 TGCTACCTTAGGAAGATAAGATCTACAATCATCAATCTGCTTCTTTTGCTATCTCAAAAAGATAA
1 TGCTACCTAAGGAAGATAAGA-CT-CAATCTTCAACCTGC-TCTCTTGCTACCTCAGAGAGATAA
* * *
17377945 GGCTAATGGCTAAAATCTGCTCCATTGCCGATACATGGAGAAAAGATTCTCCATCTTTGATCTGC
63 GGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCGATCTGC
* * * *
17378010 TCCGCTGCAACTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCTT
128 TCCACTACAGC-TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
* *
17378060 TGCTACCTCAA-GAAGATAAGACTCAATCTTTAACCTGCTCTCTTGCTACCTCCGAGAGATAAGG
1 TGCTACCT-AAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
* * * * *
17378124 CTTGGGGCTTAAATTTGCT-C--T-----TACATGGAGATAAGATT-TGCC-TCTTTCAATCTGC
65 CTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCT-CCATC-TTCGATCTGC
* *
17378179 TCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCTT
128 TCCACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
*
17378228 TGCTACCTCAA-GAAGATCAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
1 TGCTACCT-AAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
* *
17378292 CTAGTGGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCAATCTGCTC
65 CTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCGATCTGCTC
* *
17378357 CACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCT
130 CACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
17378404 TGCTACCTAAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
1 TGCTACCTAAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
* * * *
17378469 TAGTGGCTAAAATCTACTCTATTGCCGATACATGGAGCTAAGATTCGCCATCTTCGATCTGCTCC
66 TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCGATCTGCTCC
17378534 ACTA-ACGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
131 ACTACA-GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
* *
17378580 TGCTACCCT-AGGAAGATAAGACTACAAT-TGCCAACCTGCTCTCTTACTACCTCAGAGAGATAA
1 TGCTA-CCTAAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAA
*
17378643 GGCTTAG-GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT-TGCC-TCTTTCGATC
63 GGC-TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCT-CCATC-TTCGATC
** *
17378705 TATTCCACTACAACTTTAGGGAGATAAGATCT
125 TGCTCCACTACAGC-TTAGGGAGATAAGATCT
17378737 GACTTCACCA
Statistics
Matches: 605, Mismatches: 49, Indels: 48
0.86 0.07 0.07
Matches are distributed among these distances:
168 118 0.20
169 34 0.06
171 1 0.00
174 1 0.00
175 2 0.00
176 261 0.43
177 134 0.22
178 33 0.05
179 2 0.00
180 18 0.03
181 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (176 bp):
TGCTACCTAAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCGATCTGCTCC
ACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
Found at i:17378443 original size:87 final size:87
Alignment explanation
Indices: 17378169--17378443 Score: 217
Period size: 87 Copynumber: 3.1 Consensus size: 87
17378159 ATTTGCCTCT
* * * *
17378169 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCTTTGCTAC
1 TTCAACCTGCTCCACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTAC
*
17378234 CTCAA-GAAGATCAGACTCAATC
66 CT-AAGGAAGATAAGACTCAATC
* * * * * ** ** * *
17378256 TTCAACCTGCTCTCTTGCTA-C-CTCAGAGAGATAAGGCTAGT--GGCTAAAATTTGC-TCCATT
1 TTCAACCTGCTC-C--ACTACCGCTTAGGGAGATAA-GATATTCAATCTTCAGTCTGCTTCC-TT
* *
17378316 GCCGATA-C-ATGG-AGATAAGATTCTCCATC
61 G-C--TACCTAAGGAAGATAAGA--CTCAATC
*
17378345 TTCAATCTGCTCCACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTAC
1 TTCAACCTGCTCCACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTAC
17378410 CTAAGGAAGATAAGACTCAATC
66 CTAAGGAAGATAAGACTCAATC
17378432 TTCAACCTGCTC
1 TTCAACCTGCTC
17378444 TCTTGCTACC
Statistics
Matches: 136, Mismatches: 33, Indels: 38
0.66 0.16 0.18
Matches are distributed among these distances:
86 7 0.05
87 52 0.38
88 30 0.22
89 39 0.29
90 8 0.06
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (87 bp):
TTCAACCTGCTCCACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTAC
CTAAGGAAGATAAGACTCAATC
Found at i:17378464 original size:43 final size:43
Alignment explanation
Indices: 17378195--17378466 Score: 145
Period size: 43 Copynumber: 6.2 Consensus size: 43
17378185 ACTGCTTAGG
*
17378195 GAGATAAGATCTTCAATCTTCAGTCTGCT-TCTTTGCTACCTCA-A
1 GAGATAAGA-C-TCAATCTTCAATCTGCTCTC-TTGCTACCTCAGA
* *
17378239 GAAGATCAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGACTCAATCTTCAATCTGCTCTCTTGCTACCTCAGA
* * ** * *
17378283 GAGATAAGGCT-AGTGGCTAAAATTTGCTC-CATTGC--CGATACATG-
1 GAGATAAGACTCAAT--CTTCAATCTGCTCTC-TTGCTAC-CT-CA-GA
* * * *
17378327 GAGATAAGATTCTCCATCTTCAATCTGCTC-C--ACTACCGCTTAGG
1 GAGATAAGA--CTCAATCTTCAATCTGCTCTCTTGCTA-C-CTCAGA
* * *
17378371 GAGATAAGATATTCAATCTTCAGTCTGCT-TCCTTGCTACCTAAG-
1 GAGATAAG--ACTCAATCTTCAATCTGCTCT-CTTGCTACCTCAGA
*
17378415 GAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGACTCAATCTTCAATCTGCTCTCTTGCTACCTCAGA
17378459 GAGATAAG
1 GAGATAAG
17378467 GCTAGTGGCT
Statistics
Matches: 174, Mismatches: 29, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
42 4 0.02
43 72 0.41
44 56 0.32
45 34 0.20
46 4 0.02
47 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
GAGATAAGACTCAATCTTCAATCTGCTCTCTTGCTACCTCAGA
Found at i:17385910 original size:27 final size:27
Alignment explanation
Indices: 17385856--17385968 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
17385846 AGCATGGCTG
* * *
17385856 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
17385882 CCAAAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
17385909 CCAGAACAGATATATATGTGACAGTGCCA
1 CCAGAACAGATA-AT-TGTGGCAGAGCCA
* * *
17385938 CCGGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17385965 CCAG
1 CCAG
17385969 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
26 12 0.17
27 33 0.48
28 4 0.06
29 20 0.29
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:17385948 original size:56 final size:53
Alignment explanation
Indices: 17385856--17385968 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 53
17385846 AGCATGGCTG
* *
17385856 CCAGAACAGATAATGTGACAGTGTCACCAAAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAAAACAGATAATTGTGGCAGAGCCA
** * *
17385909 CCAGAACAGATATATATGTGACAGTGCCACCGGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAG--ATA-ATGTGACAGTGCCACCAAAACAGATAATTGTGGCAGAGCCA
17385965 CCAG
1 CCAG
17385969 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 9 0.18
55 3 0.06
56 39 0.76
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAAAACAGATAATTGTGGCAGAGCCA
Found at i:17387458 original size:24 final size:23
Alignment explanation
Indices: 17387401--17387476 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
17387391 CCAACACCGT
*
17387401 TCTCCTAATCAGCTCCTAAATCC
1 TCTCCTTATCAGCTCCTAAATCC
*
17387424 TCTCCTTATCAGCTCTTAAATCC
1 TCTCCTTATCAGCTCCTAAATCC
* *
17387447 TCTTCCTTATCAGCTCCCAAATCT
1 TC-TCCTTATCAGCTCCTAAATCC
17387471 TCTCCT
1 TCTCCT
17387477 GACAGCCTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 27 0.57
24 20 0.43
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.37
Consensus pattern (23 bp):
TCTCCTTATCAGCTCCTAAATCC
Found at i:17393815 original size:27 final size:27
Alignment explanation
Indices: 17393761--17393871 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
17393751 AGCATGGCTG
* * *
17393761 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17393787 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
17393814 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
17393841 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17393868 CCAG
1 CCAG
17393872 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:17393845 original size:54 final size:53
Alignment explanation
Indices: 17393761--17393871 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
17393751 AGCATGGCTG
*
17393761 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * *
17393814 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
17393868 CCAG
1 CCAG
17393872 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:17395358 original size:24 final size:24
Alignment explanation
Indices: 17395320--17395420 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
17395310 CCAACACCGT
* *
17395320 TCTCCCTAATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
17395344 TTTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
17395368 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
17395392 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
17395416 TCTCC
1 TCTCC
17395421 TGACAGCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.21, C:0.41, G:0.04, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:17402137 original size:2 final size:2
Alignment explanation
Indices: 17402124--17402166 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
17402114 TTTAAAAGAC
*
17402124 AT AT AC 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
17402166 A
1 A
17402167 AATTTAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17402341 original size:25 final size:26
Alignment explanation
Indices: 17402294--17402358 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
17402284 CAAAATGTTT
* *
17402294 AAATAA-TATGATAA-AAAACTAAA-
1 AAATAATTATGAAAATAAAAATAAAG
17402317 AAATAATTATGAAAATAAAAATAAAG
1 AAATAATTATGAAAATAAAAATAAAG
*
17402343 AAA-AATTATTAAAATA
1 AAATAATTATGAAAATA
17402359 GATTAACACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 6 0.17
24 7 0.19
25 20 0.56
26 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (26 bp):
AAATAATTATGAAAATAAAAATAAAG
Found at i:17413771 original size:9 final size:9
Alignment explanation
Indices: 17413741--17413778 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
17413731 AAACCCTTTT
17413741 AAAATT-TA
1 AAAATTATA
*
17413749 ACAATTATTA
1 AAAATTA-TA
17413759 AAAATTATA
1 AAAATTATA
17413768 AAAATTATA
1 AAAATTATA
17413777 AA
1 AA
17413779 CTACATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 5 0.19
9 13 0.50
10 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:17420510 original size:22 final size:22
Alignment explanation
Indices: 17420467--17420513 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17420457 CATAAGATGG
*
17420467 TATTAAGAGCATAAAAATATAA
1 TATTAAGAGCATAAAAACATAA
* * *
17420489 TATTGAGAGCATATATACATAA
1 TATTAAGAGCATAAAAACATAA
17420511 TAT
1 TAT
17420514 ATAACACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (22 bp):
TATTAAGAGCATAAAAACATAA
Found at i:17420657 original size:21 final size:21
Alignment explanation
Indices: 17420631--17420677 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
17420621 ACGAGTGGTA
17420631 ATAATGA-AAATAATAAATAAT
1 ATAATGATAAATAA-AAATAAT
* *
17420652 ATAATGATATATGAAAATAAT
1 ATAATGATAAATAAAAATAAT
17420673 ATAAT
1 ATAAT
17420678 ACTATTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
ATAATGATAAATAAAAATAAT
Found at i:17420853 original size:26 final size:26
Alignment explanation
Indices: 17420789--17420856 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 26
17420779 TGTACATATA
*
17420789 ATAGTATTTAAAAATATATACATGAG
1 ATAGTATATAAAAATATATACATGAG
** *
17420815 ATA--ATATGGAAATATGTACATG-G
1 ATAGTATATAAAAATATATACATGAG
17420838 TATAGTATATAAAAATATA
1 -ATAGTATATAAAAATATA
17420857 ACTAATGACA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.03
24 18 0.56
26 13 0.41
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (26 bp):
ATAGTATATAAAAATATATACATGAG
Found at i:17420935 original size:2 final size:2
Alignment explanation
Indices: 17420874--17420918 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
17420864 ACATTGAAAG
*
17420874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17420915 TA TA
1 TA TA
17420919 AAACATATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17421119 original size:28 final size:27
Alignment explanation
Indices: 17421079--17421137 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
17421069 ATACATATAT
17421079 TATA-ATATTAAAATGTATAC-ACGAGA
1 TATATATATTAAAAT-TATACAACGAGA
* *
17421105 TATATATATATAAAATTATGCAATGAGA
1 TATATATAT-TAAAATTATACAACGAGA
17421133 TATAT
1 TATAT
17421138 CGATAGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 8 0.29
28 16 0.57
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (27 bp):
TATATATATTAAAATTATACAACGAGA
Found at i:17421937 original size:2 final size:2
Alignment explanation
Indices: 17421930--17421967 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17421920 TATTATGATG
17421930 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
17421968 CAAATTAGCA
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):
TA
Found at i:17423309 original size:27 final size:26
Alignment explanation
Indices: 17423269--17423383 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
17423259 AGCATGGCTG
* * *
17423269 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17423295 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
17423323 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
17423350 CCACATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
17423377 CCAGAAC
1 CCAGAAC
17423384 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17423369 original size:54 final size:54
Alignment explanation
Indices: 17423269--17423383 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
17423259 AGCATGGCTG
* *
17423269 CCAGAACAAATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
* * * * *
17423323 CCAGAACAGATATATGTGGCAGAGCCACCACAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
17423377 CCAGAAC
1 CCAGAAC
17423384 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
Found at i:17423818 original size:16 final size:15
Alignment explanation
Indices: 17423797--17423826 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17423787 AAAATACCGA
17423797 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
17423813 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
17423827 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Done.