Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 75 of 163
Found at i:19820940 original size:23 final size:23
Alignment explanation
Indices: 19820892--19820933 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19820882 CAACTGGGAT
19820892 TTTTAAATTTAAGTTTGAATTAA
1 TTTTAAATTTAAGTTTGAATTAA
19820915 TTTTAAATTT-A-TTTGAATT
1 TTTTAAATTTAAGTTTGAATT
19820934 TGAATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTTAAATTTAAGTTTGAATTAA
Found at i:19820960 original size:27 final size:27
Alignment explanation
Indices: 19820905--19820960 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
19820895 TAAATTTAAG
** *
19820905 TTTGAATTAATTTTAAATTTATTTGAA
1 TTTGAATTAATTTTAAATTTAAATAAA
**
19820932 TTTGAATTTGTTTTAAATTTAAATAAA
1 TTTGAATTAATTTTAAATTTAAATAAA
19820959 TT
1 TT
19820961 CAAAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTGAATTAATTTTAAATTTAAATAAA
Found at i:19822930 original size:29 final size:30
Alignment explanation
Indices: 19822885--19823020 Score: 137
Period size: 30 Copynumber: 4.6 Consensus size: 30
19822875 AAATTTTAGG
*
19822885 AAATTA-CATTTTAACCCCAAAAC-TTCCA
1 AAATTACCATTTTAACCCCCAAACTTTCCA
19822913 AAATTACCTATTTT-ACCCCCAAACTTTCCA
1 AAATTACC-ATTTTAACCCCCAAACTTTCCA
*
19822943 AAATT-CCATTTTTAA-CCCC-GA-TTTCACCAA
1 AAATTACCA-TTTTAACCCCCAAACTTT--CC-A
19822973 AAATTACCATTTT-ACCCCCAAACTTTCCA
1 AAATTACCATTTTAACCCCCAAACTTTCCA
19823002 AAATT-CCATTTTTAACCCC
1 AAATTACCA-TTTTAACCCC
19823021 GATTTCACCA
Statistics
Matches: 91, Mismatches: 3, Indels: 26
0.76 0.03 0.22
Matches are distributed among these distances:
27 3 0.03
28 11 0.12
29 33 0.36
30 37 0.41
31 4 0.04
32 3 0.03
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (30 bp):
AAATTACCATTTTAACCCCCAAACTTTCCA
Found at i:19822933 original size:30 final size:29
Alignment explanation
Indices: 19822885--19823043 Score: 145
Period size: 29 Copynumber: 5.4 Consensus size: 29
19822875 AAATTTTAGG
19822885 AAATTA-CATTTTAACCCCAAAAC-TTCCA
1 AAATTACCATTTTAACCCC-AAACTTTCCA
*
19822913 AAATTACCTATTTTACCCCCAAACTTTCCA
1 AAATTACC-ATTTTAACCCCAAACTTTCCA
*
19822943 AAATT-CCATTTTTAACCCC-GA-TTTCACCAA
1 AAATTACCA-TTTTAACCCCAAACTTT--CC-A
*
19822973 AAATTACCATTTTACCCCCAAACTTTCCA
1 AAATTACCATTTTAACCCCAAACTTTCCA
*
19823002 AAATT-CCATTTTTAACCCC-GA-TTTCACCA
1 AAATTACCA-TTTTAACCCCAAACTTT--CCA
19823031 AAATTACCATTTT
1 AAATTACCATTTT
19823044 GCCTCCGGGT
Statistics
Matches: 110, Mismatches: 7, Indels: 27
0.76 0.05 0.19
Matches are distributed among these distances:
27 6 0.05
28 12 0.11
29 45 0.41
30 40 0.36
31 4 0.04
32 3 0.03
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.33
Consensus pattern (29 bp):
AAATTACCATTTTAACCCCAAACTTTCCA
Found at i:19822973 original size:59 final size:58
Alignment explanation
Indices: 19822910--19823043 Score: 250
Period size: 59 Copynumber: 2.3 Consensus size: 58
19822900 CCCAAAACTT
19822910 CCAAAATTACCTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAATTACC-ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
19822969 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CC-AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
19823028 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
19823044 GCCTCCGGGT
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
58 14 0.19
59 51 0.69
60 9 0.12
ACGTcount: A:0.34, C:0.31, G:0.01, T:0.34
Consensus pattern (58 bp):
CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:19823070 original size:58 final size:59
Alignment explanation
Indices: 19822912--19823085 Score: 235
Period size: 59 Copynumber: 2.9 Consensus size: 59
19822902 CAAAACTTCC
*
19822912 AAAATTACCTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACC-ATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
19822972 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *** * *
19823030 AAAATTACCATTTTGCCTCC-GGGTATCCAAAAGTCTCATTTTCAACCCCGATTTCA
1 AAAATTACCATTTTACCCCCAAACTATCCAAAATTC-CATTTTTAACCCCGATTTCA
19823086 TCGTTTCTTC
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
57 10 0.10
58 37 0.35
59 49 0.47
60 9 0.09
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:19827757 original size:26 final size:25
Alignment explanation
Indices: 19827698--19827759 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
19827688 CACTTTTAAA
*
19827698 TAAACAATTAATAGAATCAATTGGT
1 TAAACAATTAATAGAATCAATTGAT
* *
19827723 CAAATCAATTAATAGAATCAGTTGAT
1 TAAA-CAATTAATAGAATCAATTGAT
19827749 TAAACCAATTA
1 TAAA-CAATTA
19827760 CTGCAATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (25 bp):
TAAACAATTAATAGAATCAATTGAT
Found at i:19828176 original size:59 final size:58
Alignment explanation
Indices: 19828084--19828254 Score: 175
Period size: 59 Copynumber: 2.9 Consensus size: 58
19828074 TTAATATAAC
* * * *
19828084 ATTTGGTATTTGAATTTGATACTTTTTTCTAATTTGATACCTAAACATTTTTT-GAACCA
1 ATTTGGTACTTGAACTTGAAACTTTTTCCTAATTTG-TACCTAAAC-TTTTTTGGAACCA
* *
19828143 ATTTGGTGCTTGAACTTGAAACTTTTTCCTAATTTCGTACCTAAACTTTTTTTGGACCCA
1 ATTTGGTACTTGAACTTGAAACTTTTTCCTAATTT-GTACCTAAAC-TTTTTTGGAACCA
* * * * *
19828203 ATTTGATACCTGAACTTG-ACCTTTTTTCCTAGTTTGGTACCTAAGCTTTTTT
1 ATTTGGTACTTGAACTTGAAAC-TTTTTCCTAATTT-GTACCTAAACTTTTTT
19828255 ATATTCAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 53 0.56
60 42 0.44
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (58 bp):
ATTTGGTACTTGAACTTGAAACTTTTTCCTAATTTGTACCTAAACTTTTTTGGAACCA
Found at i:19828229 original size:60 final size:59
Alignment explanation
Indices: 19828094--19828254 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 59
19828084 ATTTGGTATT
* * * * * *
19828094 TGAATTTGATACTTTTTT-CTAATTTGATACCTAAACATTTTTTGAACCAATTTGGTGCT
1 TGAACTTGAAACTTTTTTCCTAATTTG-TACCTAAACTTTTTTTGAACCAATTTGATACC
*
19828153 TGAACTTGAAAC-TTTTTCCTAATTTCGTACCTAAACTTTTTTTGGACCCAATTTGATACC
1 TGAACTTGAAACTTTTTTCCTAATTT-GTACCTAAACTTTTTTT-GAACCAATTTGATACC
* * *
19828213 TGAACTTG-ACCTTTTTTCCTAGTTTGGTACCTAAGCTTTTTT
1 TGAACTTGAAACTTTTTTCCTAATTT-GTACCTAAACTTTTTT
19828255 ATATTCAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.06
59 34 0.39
60 48 0.55
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (59 bp):
TGAACTTGAAACTTTTTTCCTAATTTGTACCTAAACTTTTTTTGAACCAATTTGATACC
Found at i:19828473 original size:61 final size:58
Alignment explanation
Indices: 19828407--19828562 Score: 158
Period size: 61 Copynumber: 2.7 Consensus size: 58
19828397 GAATTAATAT
* **
19828407 TAAAAAAAGATTAGATACCAAATT-AAGAAAAAGAGTCAAGTTCGGGTATCAAATTGGA
1 TAAAAAAAGATTAGATACCAAATTAAAAAAAAAGA-TCAAGTTCGAATATCAAATTGGA
** * * *
19828465 TCTCAAAAAGTTTA-AGTACCAACTTTAAAAAAAAAGTATCAAGTTTGAATATCAAATTGGA
1 T-AAAAAAAGATTAGA-TACCAA-ATTAAAAAAAAAG-ATCAAGTTCGAATATCAAATTGGA
*
19828526 TAAAAAAA-ATTAGATATCAAATTAAAAAAAAA-ATCAA
1 TAAAAAAAGATTAGATACCAAATTAAAAAAAAAGATCAA
19828563 ATTCAAGTAC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
56 5 0.06
58 13 0.16
59 23 0.29
60 8 0.10
61 29 0.37
62 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (58 bp):
TAAAAAAAGATTAGATACCAAATTAAAAAAAAAGATCAAGTTCGAATATCAAATTGGA
Found at i:19828474 original size:59 final size:57
Alignment explanation
Indices: 19828409--19828562 Score: 152
Period size: 59 Copynumber: 2.6 Consensus size: 57
19828399 ATTAATATTA
* **
19828409 AAAAAAGATTAGATACCAAATT-AAGAAAAAGAGTCAAGTTCGGGTATCAAATTGGATCT
1 AAAAAAGATTAGATACCAAATTAAAAAAAAAGA-TCAAGTTCGAATATCAAATTGGA--T
* * * *
19828468 CAAAAAGTTTA-AGTACCAACTTTAAAAAAAAAGTATCAAGTTTGAATATCAAATTGGAT
1 AAAAAAGATTAGA-TACCAA-ATTAAAAAAAAAG-ATCAAGTTCGAATATCAAATTGGAT
* *
19828527 AAAAAAAATTAGATATCAAATTAAAAAAAAA-ATCAA
1 AAAAAAGATTAGATACCAAATTAAAAAAAAAGATCAA
19828563 ATTCAAGTAC
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
56 5 0.06
58 12 0.15
59 29 0.37
60 3 0.04
61 28 0.36
62 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (57 bp):
AAAAAAGATTAGATACCAAATTAAAAAAAAAGATCAAGTTCGAATATCAAATTGGAT
Found at i:19836184 original size:23 final size:23
Alignment explanation
Indices: 19836158--19836204 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19836148 ATAAATCATT
19836158 AAAAAAT-TCATAAAAAAATTAAA
1 AAAAAATATC-TAAAAAAATTAAA
**
19836181 AAAATGTATCTAAAAAAATTAAA
1 AAAAAATATCTAAAAAAATTAAA
19836204 A
1 A
19836205 TCTGTTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAATATCTAAAAAAATTAAA
Found at i:19840234 original size:56 final size:56
Alignment explanation
Indices: 19840148--19840261 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
19840138 TAACTCATGA
19840148 GCCTCCTTACTCAACCACCCTAGGCCACATGAACCTCCTTGTGCGATGGCAATTGT
1 GCCTCCTTACTCAACCACCCTAGGCCACATGAACCTCCTTGTGCGATGGCAATTGT
** * *
19840204 GCCTCCTTTGTCAGCCACCCTAGGCCACATGAGCCTCCTTGTGCGATGGCAATTGT
1 GCCTCCTTACTCAACCACCCTAGGCCACATGAACCTCCTTGTGCGATGGCAATTGT
19840260 GC
1 GC
19840262 TTTTATGGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.25
Consensus pattern (56 bp):
GCCTCCTTACTCAACCACCCTAGGCCACATGAACCTCCTTGTGCGATGGCAATTGT
Found at i:19844854 original size:52 final size:52
Alignment explanation
Indices: 19844769--19845059 Score: 343
Period size: 52 Copynumber: 5.6 Consensus size: 52
19844759 TAAATGAAAA
* * *
19844769 AGGTCCGATGACTATGTGTCATCGTGAATATATGATTCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
19844821 AGGTTCGATGACTATGTGTTATCGTGAGCATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * **
19844873 ATGTCCGTTGACTATGTGTTATCGTGAGTATATGAATCCTTCATAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
19844925 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * ** *
19844977 AGATCCGATGACTATGTGTCATCGTGAGCATAT-AGATCCTTTTACAAATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTATG
** * *
19845029 AGGTCTAATGACTTTGTGTCATTGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
19845060 TAAATGGGAA
Statistics
Matches: 203, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
51 1 0.00
52 194 0.96
53 8 0.04
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:19845056 original size:156 final size:156
Alignment explanation
Indices: 19844769--19845059 Score: 397
Period size: 156 Copynumber: 1.9 Consensus size: 156
19844759 TAAATGAAAA
* * * * *
19844769 AGGTCCGATGACTATGTGTCATCGTGAATATATGATTCCTTTATGGATTATGAGGTTCGATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAATATATGAATCCTTTACGGATTAAGAGATCCGATGACT
* ** * * ** *
19844834 ATGTGTTATCGTGAGCATATGAATCTTTTACGGATTATGATGTCCGTTGACTATGTGTTATCGTG
66 ATGTGTCATCGTGAGCATATGAATCTTTTACAAATTATAAGGTCCAATGACTATGTGTCATCGTG
19844899 AGTATATGAATCCTTCATAGATTATG
131 AGTATATGAATCCTTCATAGATTATG
*
19844925 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAGAGATCCGATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAATATATGAATCCTTTACGGATTAAGAGATCCGATGACT
* * *
19844990 ATGTGTCATCGTGAGCATAT-AGATCCTTTTACAAATT-TAAGGTCTAATGACTTTGTGTCATTG
66 ATGTGTCATCGTGAGCATATGA-AT-CTTTTACAAATTATAAGGTCCAATGACTATGTGTCATCG
19845053 TGAGTAT
129 TGAGTAT
19845060 TAAATGGGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
155 1 0.01
156 105 0.91
157 10 0.09
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (156 bp):
AGGTCCGATGACTATGTGTCATCGTGAATATATGAATCCTTTACGGATTAAGAGATCCGATGACT
ATGTGTCATCGTGAGCATATGAATCTTTTACAAATTATAAGGTCCAATGACTATGTGTCATCGTG
AGTATATGAATCCTTCATAGATTATG
Found at i:19851240 original size:18 final size:19
Alignment explanation
Indices: 19851202--19851240 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19851192 AACAAATAAA
*
19851202 AAATATATAATACTATTAC
1 AAATATATAATACTATCAC
*
19851221 AAATATCTAA-ACTATCAC
1 AAATATATAATACTATCAC
19851239 AA
1 AA
19851241 TTCTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATATAATACTATCAC
Found at i:19851614 original size:19 final size:19
Alignment explanation
Indices: 19851592--19851631 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19851582 AATAATATTA
*
19851592 AATTATTATTAAAATAATT
1 AATTATTATAAAAATAATT
*
19851611 AATTATTCTAAAAATAATT
1 AATTATTATAAAAATAATT
19851630 AA
1 AA
19851632 AACAAACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTATTATAAAAATAATT
Found at i:19855439 original size:22 final size:22
Alignment explanation
Indices: 19855393--19855440 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19855383 TCTTTTTATT
* *
19855393 TAAAATGTCCAAATTACATATC
1 TAAAATATCCAAATTACAAATC
19855415 TAAAATATCCAAATTA-AAATCC
1 TAAAATATCCAAATTACAAAT-C
19855437 TAAA
1 TAAA
19855441 CCCACTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAATATCCAAATTACAAATC
Found at i:19856685 original size:21 final size:22
Alignment explanation
Indices: 19856660--19856707 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
19856650 GCCCTTTTAT
19856660 TCTTTTTTATTATT-ATTTAAA
1 TCTTTTTTATTATTCATTTAAA
*
19856681 TC-TTTTTATTTTTCATTTAAA
1 TCTTTTTTATTATTCATTTAAA
19856702 T-TTTTT
1 TCTTTTT
19856708 AAAAACCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTTTTTTATTATTCATTTAAA
Found at i:19856686 original size:20 final size:20
Alignment explanation
Indices: 19856662--19856708 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
19856652 CCTTTTATTC
19856662 TTTTTTATTATT-ATTTAAA
1 TTTTTTATTATTCATTTAAA
*
19856681 TCTTTTTATTTTTCATTTAAA
1 T-TTTTTATTATTCATTTAAA
19856702 TTTTTTA
1 TTTTTTA
19856709 AAAACCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.64
21 8 0.32
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTATTATTCATTTAAA
Found at i:19857279 original size:110 final size:110
Alignment explanation
Indices: 19857074--19857288 Score: 281
Period size: 110 Copynumber: 2.0 Consensus size: 110
19857064 AATATCAAGG
* * * *
19857074 TAATGTACTTTTATTTTAGGAAATTCGAGAAATTGTGCCCTAACGTGTTTGGTACGGTTTTTTCT
1 TAATGTACTTTTATTTTAGGAAACTCAAGAAATTGTGCCCTAACGTATTGGGTACGGTTTTTTCT
* * **
19857139 TTCAACCTAAATGATTGAGTATCCTATTTAAAATCGATAAACGTT
66 TGCAACCTAAATAATTGAACATCCTATTTAAAATCGATAAACGTT
* *
19857184 TAATGTTCTTTTATTTTATGG-AACTCAAGAAATTGTGCCCTAACGTATTGGGTATGG-TTTTTC
1 TAATGTACTTTTATTTTA-GGAAACTCAAGAAATTGTGCCCTAACGTATTGGGTACGGTTTTTTC
* * *
19857247 TTGGAACCTAAGTAATTGAACATTCTATTTTAAAATCGATAA
65 TTGCAACCTAAATAATTGAACATCCTA-TTTAAAATCGATAA
19857289 GTGTTCTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
109 26 0.29
110 62 0.69
111 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (110 bp):
TAATGTACTTTTATTTTAGGAAACTCAAGAAATTGTGCCCTAACGTATTGGGTACGGTTTTTTCT
TGCAACCTAAATAATTGAACATCCTATTTAAAATCGATAAACGTT
Found at i:19862783 original size:30 final size:30
Alignment explanation
Indices: 19862749--19862889 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
19862739 GCTGTTTTGG
*
19862749 TATATGTGAGCCTTTGTGGCTATATTCTGT
1 TATATGTGAGCCTTTGTGGCTATAATCTGT
* * * * *
19862779 TATATGTGAGCCATAGTGGC-AAAACCTGG
1 TATATGTGAGCCTTTGTGGCTATAATCTGT
* * * ** *
19862808 TATATGTGAGCTTTTTTGGCTCTCCTCTAT
1 TATATGTGAGCCTTTGTGGCTATAATCTGT
* * *
19862838 TATATGTGAGCCTTAGTGGCGA-AACCTGT
1 TATATGTGAGCCTTTGTGGCTATAATCTGT
19862867 TATATGTGGGAGCCTTTGTGGCT
1 TATATGT--GAGCCTTTGTGGCT
19862890 GTTCACTATT
Statistics
Matches: 80, Mismatches: 28, Indels: 5
0.71 0.25 0.04
Matches are distributed among these distances:
29 31 0.39
30 37 0.46
31 12 0.15
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (30 bp):
TATATGTGAGCCTTTGTGGCTATAATCTGT
Found at i:19862828 original size:59 final size:59
Alignment explanation
Indices: 19862746--19862889 Score: 189
Period size: 59 Copynumber: 2.4 Consensus size: 59
19862736 GTGGCTGTTT
* *
19862746 TGGTATATGTGAGCCTTTGTGGCTATATTCTGTTATATGTGAGCCATAGTGGCAAAACC
1 TGGTATATGTGAGCCTTTGTGGCTATACTCTATTATATGTGAGCCATAGTGGCAAAACC
* * * * * *
19862805 TGGTATATGTGAGCTTTTTTGGCTCTCCTCTATTATATGTGAGCCTTAGTGGCGAAACC
1 TGGTATATGTGAGCCTTTGTGGCTATACTCTATTATATGTGAGCCATAGTGGCAAAACC
*
19862864 TGTTATATGTGGGAGCCTTTGTGGCT
1 TGGTATATGT--GAGCCTTTGTGGCT
19862890 GTTCACTATT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 60 0.83
61 12 0.17
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.38
Consensus pattern (59 bp):
TGGTATATGTGAGCCTTTGTGGCTATACTCTATTATATGTGAGCCATAGTGGCAAAACC
Found at i:19872252 original size:6 final size:7
Alignment explanation
Indices: 19872233--19872260 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19872223 TTAAAATTTT
19872233 TTAAAAA
1 TTAAAAA
19872240 TTAAAAA
1 TTAAAAA
19872247 TTAAAAA
1 TTAAAAA
19872254 TTAAAAA
1 TTAAAAA
19872261 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:19872670 original size:40 final size:40
Alignment explanation
Indices: 19872615--19872805 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 40
19872605 AAATATTATT
* *
19872615 GCAGTGTTTACAGTGTCACCGTCAG-TCTAGTAGTAATACC
1 GCAGTGTTTACAGTGTCACTGCCAGTTC-AGTAGTAATACC
* * ***
19872655 GCAGTGTTTATAGTGTCACTGCCAATTCAGTAGTAATGTT
1 GCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACC
**
19872695 GCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATGTC
1 GCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACC
* * * * * * **
19872735 GAAGTGTTTACAGCGTCACTGCCAATTCAATAATAGTAAT
1 GCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACC
* *
19872775 GCAATGTTTACAGTGTCATTGCCAGTTCAGT
1 GCAGTGTTTACAGTGTCACTGCCAGTTCAGT
19872806 TGTTCTAAAG
Statistics
Matches: 125, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
40 123 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (40 bp):
GCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACC
Found at i:19872753 original size:80 final size:80
Alignment explanation
Indices: 19872606--19872805 Score: 249
Period size: 80 Copynumber: 2.5 Consensus size: 80
19872596 AGTTAACATA
* * * * * *
19872606 AATATTATTGCAGTGTTTACAGTGTCACCGTCAG-TCTAGTAGTAATACCGCAGTGTTTATAGTG
1 AATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTC-AGTAGTAATACCGAAGTGTTTACAGCG
*
19872670 TCACTGCCAATTCAGT
65 TCACTGCCAATTCAAT
* * **
19872686 AGTAATGTTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATGTCGAAGTGTTTACAGCGT
1 AATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACCGAAGTGTTTACAGCGT
19872751 CACTGCCAATTCAAT
66 CACTGCCAATTCAAT
* * * *
19872766 AATAGTAATGCAATGTTTACAGTGTCATTGCCAGTTCAGT
1 AATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGT
19872806 TGTTCTAAAG
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 100 0.98
81 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (80 bp):
AATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGTAATACCGAAGTGTTTACAGCGT
CACTGCCAATTCAAT
Found at i:19874901 original size:36 final size:37
Alignment explanation
Indices: 19874859--19874932 Score: 100
Period size: 36 Copynumber: 2.0 Consensus size: 37
19874849 AATTATTTTT
19874859 AAATATTTTATT-TTT-AATTA-TAAAAATAATGTAAAA
1 AAATATTTT-TTATTTGAATTATTAAAAATAAT-TAAAA
*
19874895 AAATATTTTTTATTTGAATTATTAAATATAATTAAAA
1 AAATATTTTTTATTTGAATTATTAAAAATAATTAAAA
19874932 A
1 A
19874933 TATAAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
35 2 0.06
36 12 0.35
37 11 0.32
38 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (37 bp):
AAATATTTTTTATTTGAATTATTAAAAATAATTAAAA
Found at i:19880637 original size:38 final size:38
Alignment explanation
Indices: 19880596--19881686 Score: 580
Period size: 38 Copynumber: 28.4 Consensus size: 38
19880586 CCTCTGATTA
* * * *
19880596 GGGTAAAAGATTGGATGCTTCAATTTACCTCATGATCA
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * **
19880634 GGGTAAGAGATTGCCTAT-CTTCAATCTGCC-CTTTGATTA
1 GGGTAAGAGATTG--GATGCTTCAATCTGCCTC-ATGATCG
* * * *
19880673 GGGTAAAAGATTGGAAGCTTCAATTTTCCTCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * * * **
19880711 AGGTAAGAGATTTG-T-CTTCGATCCGCCTTC-TGATTA
1 GGGTAAGAGATTGGATGCTTCAATCTGCC-TCATGATCG
* * * **
19880747 AGATAAGAGATTGGATTCTTCAATCTGCCTTC-TGATTA
1 GGGTAAGAGATTGGATGCTTCAATCTGCC-TCATGATCG
* * * * *
19880785 GGATAAGAGATTAGATTCTTTAATATGTCC-CATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTG-CCTCATGATCG
* ** **
19880823 GGGTAAGAGATTGGTATGTCTTCAATCTGCATTTTGATTA
1 GGGTAAGAGATTGG-ATG-CTTCAATCTGCCTCATGATCG
* * * *
19880863 AGGTAAAAGATTGGATGCTTCAATCTACCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
** * * **
19880901 GGGTAAGAGATTGCTTGTCTTCAATCTACCCTC-TAATTA
1 GGGTAAGAGATTGGATG-CTTCAATCT-GCCTCATGATCG
* * *
19880940 GAGTAAAAGATTGGATGCTTCAATTTGCCTCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* **
19880978 AGGTAAGAGATTGG-TGTCTTCAATCTGCCTTC-TGATTA
1 GGGTAAGAGATTGGATG-CTTCAATCTGCC-TCATGATCG
* * * *
19881016 AGGTAAGAGATTGAATTCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * * * *
19881054 GGGTAAGAGATCAGTGTTTCTTCAAACTGCCTTC-TAAT--
1 GGGTAAGAGAT-TG-GATGCTTCAATCTGCC-TCATGATCG
* * *
19881092 ---TAAGAAATTAGATGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * * * **
19881127 GGGTAAAAGATTGGTGTGTCTTCAATCTACCTTC-TAATTA
1 GGGTAAGAGATTGG-ATG-CTTCAATCTGCC-TCATGATCG
** *
19881167 ATGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * * * * **
19881205 GGGTAAAAGATTGGTGTGTCTTTAATCTACCTTC-TAATTA
1 GGGTAAGAGATTGG-ATG-CTTCAATCTGCC-TCATGATCG
** *
19881245 ATGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* *
19881283 GGGTAAGAGATTGG-TGTACCTTCAATCTGCCCCACGATCG
1 GGGTAAGAGATTGGATG---CTTCAATCTGCCTCATGATCG
* * * * * * * *
19881323 GGGTAAAAGATCGTATACATCTATCTGCCCCATGATCA
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * * * **
19881361 GGCTAAAAAATTGGTGTGTCTTCAATCTG-----TGATTA
1 GGGTAAGAGATTGG-ATG-CTTCAATCTGCCTCATGATCG
*
19881396 AGGTAAGAGATTGGATGCTTCAATCTGCC-CTATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTC-ATGATCG
* * * *
19881434 GGGTGAGAGATTGGTGTGCCTTCAATCTACCCCATGATCG
1 GGGTAAGAGATTGG-ATG-CTTCAATCTGCCTCATGATCG
* * *
19881474 GGGTAAAAGATCGGATGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* * *
19881512 GGGTAAGAGATTGATGATGTCTCCAATATATCC-CATGATCG
1 GGGTAAGAGATTG--GATG-CTTCAATCT-GCCTCATGATCG
* * * * *
19881553 GGGTAAAAGATCGAATGCTTTAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
* *
19881591 GGGTAAGAGATTGGAGTGTCTTCAATCTACCCTC-TGGTCG
1 GGGTAAGAGATTGGA-TG-CTTCAATCT-GCCTCATGATCG
* * * * * *
19881631 GGGCAAAAGATTGGACGGTTATAATATGCCTCATGATCG
1 GGGTAAGAGATTGGATGCTT-CAATCTGCCTCATGATCG
19881670 GGGTAAGAGATTGGATG
1 GGGTAAGAGATTGGATG
19881687 GTAACTTCGG
Statistics
Matches: 791, Mismatches: 201, Indels: 121
0.71 0.18 0.11
Matches are distributed among these distances:
32 1 0.00
33 26 0.03
34 2 0.00
35 22 0.03
36 24 0.03
37 18 0.02
38 363 0.46
39 107 0.14
40 192 0.24
41 34 0.04
42 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (38 bp):
GGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG
Found at i:19880664 original size:77 final size:74
Alignment explanation
Indices: 19880572--19880796 Score: 240
Period size: 77 Copynumber: 3.0 Consensus size: 74
19880562 TCAAATGATG
19880572 TATCTTCAAAT-TGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATTTACCTCATGATCAGG
1 TATCTTC-AATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATTTACCTCATGATCAGG
19880636 GTAAGAGATT
65 GTAAGAGATT
* * *
19880646 GCCTATCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTGGAAGCTTCAATTTTCCTCATGATC-
1 ---TATCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATTTACCTCATGATCA
19880710 GAGGTAAGAGATT
63 G-GGTAAGAGATT
* * * * * * * * * * *
19880723 TGTCTTCGATCCGCCTTCTGATTAAGATAAGAGATTGGATTCTTCAATCTGCCTTC-TGATTAGG
1 TATCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATTTACC-TCATGATCAGG
*
19880787 ATAAGAGATT
65 GTAAGAGATT
19880797 AGATTCTTTA
Statistics
Matches: 127, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
74 55 0.43
75 3 0.02
76 4 0.03
77 65 0.51
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (74 bp):
TATCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATTTACCTCATGATCAGGG
TAAGAGATT
Found at i:19880783 original size:112 final size:115
Alignment explanation
Indices: 19880637--19880888 Score: 280
Period size: 112 Copynumber: 2.2 Consensus size: 115
19880627 ATGATCAGGG
** * * *
19880637 TAAGAGATTGCCTATCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTGGAAGCTTCAAT-TTTC
1 TAAGAGATTGGAT-TCTTCAATCTGCCCTTTGATTAGGATAAAAGATTAGAAGCTTCAATATGTC
* *
19880701 CTCATGATCGAGGTAAGAGA-T-T-TGTCTTCGATCCGCCTTCTGATTAAGA
65 C-CATGATCGAGGTAAGAGATTGTATGTCTTCAATCCGCATTCTGATTAAGA
* ** *
19880750 TAAGAGATTGGATTCTTCAATCTG-CCTTCTGATTAGGATAAGAGATTAGATTCTTTAATATGTC
1 TAAGAGATTGGATTCTTCAATCTGCCCTT-TGATTAGGATAAAAGATTAGAAGCTTCAATATGTC
* * * *
19880814 CCATGATCGGGGTAAGAGATTGGTATGTCTTCAATCTGCATTTTGATTAAGG
65 CCATGATCGAGGTAAGAGATT-GTATGTCTTCAATCCGCATTCTGATTAAGA
* *
19880866 TAAAAGATTGGATGCTTCAATCT
1 TAAGAGATTGGATTCTTCAATCT
19880889 ACCCCATGAT
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
111 4 0.03
112 52 0.45
113 16 0.14
115 1 0.01
116 43 0.37
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (115 bp):
TAAGAGATTGGATTCTTCAATCTGCCCTTTGATTAGGATAAAAGATTAGAAGCTTCAATATGTCC
CATGATCGAGGTAAGAGATTGTATGTCTTCAATCCGCATTCTGATTAAGA
Found at i:19880851 original size:78 final size:78
Alignment explanation
Indices: 19880750--19881618 Score: 828
Period size: 78 Copynumber: 11.3 Consensus size: 78
19880740 CTGATTAAGA
* * * * * *
19880750 TAAGAGATTGG-AT-TCTTCAATCTGCCTTCTGATT-AGGATAAGAGATTAGATTCTTTAATATG
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGG-TAAGAGATTGGATGCTTCAATCTG
*
19880812 TCCCATGATCGGGG
65 CCCCATGATCGGGG
* * * * * *
19880826 TAAGAGATTGGTATGTCTTCAATCTGCATTTTGATTAAGGTAAAAGATTGGATGCTTCAATCTAC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
19880891 CCCATGATCGGGG
66 CCCATGATCGGGG
* * * * *
19880904 TAAGAGATTGCT-TGTCTTCAATCTACCCTCTAATT-AGAGTAAAAGATTGGATGCTTCAATTTG
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAG-GTAAGAGATTGGATGCTTCAATCTG
* *
19880967 CCTCATGATCGAGG
65 CCCCATGATCGGGG
* * *
19880981 TAAGAGATT-G-GTGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTGAATTCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
19881044 CCCATGATCGGGG
66 CCCATGATCGGGG
** * * *
19881057 TAAGAGATCAGTGTTTCTTCAAACTGCCTTCTAATTAA-G--A-A-ATTAGATGCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
19881117 CCCATGATCGGGG
66 CCCATGATCGGGG
* * *
19881130 TAAAAGATTGGTGTGTCTTCAATCTACCTTCTAATTAATGTAAGAGATTGGATGCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
19881195 CCCATGATCGGGG
66 CCCATGATCGGGG
* * * *
19881208 TAAAAGATTGGTGTGTCTTTAATCTACCTTCTAATTAATGTAAGAGATTGGATGCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
19881273 CCCATGATCGGGG
66 CCCATGATCGGGG
** * *** * * * * * *
19881286 TAAGAGATTGGTGTACCTTCAATCTGCC--CCACGATCGGGGTAAAAGATCGTATACATCTATCT
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTA--ATTAAGGTAAGAGATTGGATGCTTCAATCT
* *
19881349 GCCCCATGATCAGGC
64 GCCCCATGATCGGGG
* * *
19881364 TAAAAAATTGGTGTGTCTTCAATCTG-----TGATTAAGGTAAGAGATTGGATGCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
*
19881424 CCTATGATCGGGG
66 CCCATGATCGGGG
* * * * * *** * *
19881437 TGAGAGATTGGTGTGCCTTCAATCTACC-CCATGATCGGGGTAAAAGATCGGATGCTTCAATCTG
1 TAAGAGATTGGTGTGTCTTCAATCTGCCTTC-TAATTAAGGTAAGAGATTGGATGCTTCAATCTG
19881501 CCCCATGATCGGGG
65 CCCCATGATCGGGG
* * * * * *** * * * *
19881515 TAAGAGATTGATGATGTCTCCAATATATCC--CATGATCGGGGTAAAAGATCGAATGCTTTAATC
1 TAAGAGATTGGTG-TGTCTTCAATCT-GCCTTC-TAATTAAGGTAAGAGATTGGATGCTTCAATC
19881578 TGCCCCATGATCGGGG
63 TGCCCCATGATCGGGG
*
19881594 TAAGAGATTGGAGTGTCTTCAATCT
1 TAAGAGATTGGTGTGTCTTCAATCT
19881619 ACCCTCTGGT
Statistics
Matches: 668, Mismatches: 103, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
73 115 0.17
74 2 0.00
75 1 0.00
76 77 0.12
77 69 0.10
78 332 0.50
79 70 0.10
80 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (78 bp):
TAAGAGATTGGTGTGTCTTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGC
CCCATGATCGGGG
Found at i:19881178 original size:40 final size:38
Alignment explanation
Indices: 19881129--19881270 Score: 124
Period size: 40 Copynumber: 3.6 Consensus size: 38
19881119 CATGATCGGG
*
19881129 GTAAAAGATTGGTGTGTCTTCAATCTACCTTCTAATTAAT
1 GTAAAAGATTGG-ATG-CTTCAATCTACCTTCTAATTAAT
* * * * ****
19881169 GTAAGAGATTGGATGCTTCAATCTGCC-CCATGATCGGG
1 GTAAAAGATTGGATGCTTCAATCTACCTTC-TAATTAAT
* *
19881207 GTAAAAGATTGGTGTGTCTTTAATCTACCTTCTAATTAAT
1 GTAAAAGATTGG-ATG-CTTCAATCTACCTTCTAATTAAT
*
19881247 GTAAGAGATTGGATGCTTCAATCT
1 GTAAAAGATTGGATGCTTCAATCT
19881271 GCCCCATGAT
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
37 1 0.01
38 33 0.43
39 6 0.08
40 35 0.46
41 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (38 bp):
GTAAAAGATTGGATGCTTCAATCTACCTTCTAATTAAT
Found at i:19881188 original size:151 final size:151
Alignment explanation
Indices: 19880813--19881683 Score: 793
Period size: 151 Copynumber: 5.7 Consensus size: 151
19880803 TTTAATATGT
* * *
19880813 CCCATGATCGGGGTAAGAGATTGGTATGTCTTCAATCTGCATTTTGATTAAGGTAAAAGATTGGA
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGA
* * *
19880878 TGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGCT-TGTCTTCAATCTACCCTCTAATTAGA
66 TGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTAATTA-A
*
19880942 GTAAAAGATTGGATGCTTCAATTTGC
130 G---AA-ATTGGATGCTTCAATCTGC
* * * *
19880968 CTCATGATCGAGGTAAGAGATT-G-GTGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTGAA
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGA
* ** * * *
19881031 TTCTTCAATCTGCCCCATGATCGGGGTAAGAGATCAGTGTTTCTTCAAACTGCCTTCTAATTAAG
66 TGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTAATTAAG
*
19881096 AAATTAGATGCTTCAATCTGC
131 AAATTGGATGCTTCAATCTGC
* * * * *
19881117 CCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTACCTTCTAATTAATGTAAGAGATTGGA
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGA
* *
19881182 TGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTTAATCTACCTTCTAATTAAT
66 TGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTAATTAA-
19881247 GTAAGAGATTGGATGCTTCAATCTGC
130 G--A-A-ATTGGATGCTTCAATCTGC
** * * *** * *
19881273 CCCATGATCGGGGTAAGAGATTGGTGTACCTTCAATCTGCC-CCACGATCGGGGTAAAAGATCGT
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATTGG
* * * * * * * **** *
19881337 ATACATCTATCTGCCCCATGATCAGGCTAAAAAATTGGTGTGTCTTCAATCTGTGAT-TAAGGTA
65 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTAA-TTA
*
19881401 AGAGATTGGATGCTTCAATCTGC
129 AGAAATTGGATGCTTCAATCTGC
* * * * * *** *
19881424 CCTATGATCGGGGTGAGAGATTGGTGTGCCTTCAATCTACC-CCATGATCGGGGTAAAAGATCGG
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATTGG
* * * *
19881488 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGATGATGTCTCCAATATATCCCATGATCG
65 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTG-TGTCTTCAATCTA--CC-T--TCT
*** * * *
19881553 GGGTAA-AAGATCGAATGCTTTAATCTGC
124 AATTAAGAA-ATTGGATGCTTCAATCTGC
* * * * *** *
19881581 CCCATGATCGGGGTAAGAGATTGGAGTGTCTTCAATCTACCCTCTGGTCGGGGCAAAAGATTGGA
1 CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGA
* * * * *
19881646 CGGTTATAATATGCCTCATGATCGGGGTAAGAGATTGG
66 TGCTT-CAATCTGCCCCATGATCGGGGTAAGAGATTGG
19881684 ATGGTAACTT
Statistics
Matches: 594, Mismatches: 102, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
149 36 0.06
150 3 0.01
151 201 0.34
152 11 0.02
153 71 0.12
154 22 0.04
155 26 0.04
156 116 0.20
157 79 0.13
158 29 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (151 bp):
CCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGA
TGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTAATTAAG
AAATTGGATGCTTCAATCTGC
Found at i:19881404 original size:229 final size:226
Alignment explanation
Indices: 19880750--19881618 Score: 796
Period size: 229 Copynumber: 3.8 Consensus size: 226
19880740 CTGATTAAGA
* * * * * *
19880750 TAAGAGATTGG-AT-TCTTCAATCTGCCTTCTGATT-AGGATAAGAGATTAGATTCTTTAATATG
1 TAAGAGATTGGTGTGTCTTCAATCTACCTTCTGATTAAGG-TAAGAGATTGGATGCTTCAATCTG
* * * **** *** *
19880812 TCCCATGATCGGGGTAAGAGATTGGTATGTCTTCAATCTGCATTTTGATTAAGGTAAAAGATTGG
65 CCCCATGATCGGGGTAAGAGATTGGTGTATCTTCAATCTGC-CCCAGATCGGGGTAAAAGA-TCG
* * * *
19880877 ATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGCT-TGTCTTCAATCTACCCTCTAATT-A
128 ATGC-TCTATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAA--T---CTCTAATTAA
* * * *
19880940 GAGTAAAAGATTGGATGCTTCAATTTGCCTCATGATCGAGG
187 G-GTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGG
* * *
19880981 TAAGAGATT-G-GTGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTGAATTCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAGAGATTGGATGCTTCAATCTGC
** * * * *
19881044 CCCATGATCGGGGTAAGAGATCAGTGTTTCTTCAAACTGCCTTCTA-AT-----TAAGAA-ATTA
66 CCCATGATCGGGGTAAGAGATTGGTGTATCTTCAATCTGCC--CCAGATCGGGGTAA-AAGA-TC
*
19881102 GATGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTACCTTCTAATTA
127 GATGC-TCTATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAA--T--C-TCTAATTA
*
19881167 ATGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGG
186 AGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGG
* * * *
19881208 TAAAAGATTGGTGTGTCTTTAATCTACCTTCTAATTAATGTAAGAGATTGGATGCTTCAATCTGC
1 TAAGAGATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAGAGATTGGATGCTTCAATCTGC
*
19881273 CCCATGATCGGGGTAAGAGATTGGTGTACCTTCAATCTGCCCCACGATCGGGGTAAAAGATCGTA
66 CCCATGATCGGGGTAAGAGATTGGTGTATCTTCAATCTGCCCCA-GATCGGGGTAAAAGATCG-A
* * * * * *
19881338 TACATCTATCTGCCCCATGATCAGGCTAAAAAATTGGTGTGTCTTCAATCTGTGATTAAGGTAAG
129 TGC-TCTATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTCTAATTAAGGTAAG
*
19881403 AGATTGGATGCTTCAATCTGCCCTATGATCGGGG
193 AGATTGGATGCTTCAATCTGCCCCATGATCGGGG
* * * *** * *
19881437 TGAGAGATTGGTGTGCCTTCAATCTACC-CCATGATCGGGGTAAAAGATCGGATGCTTCAATCTG
1 TAAGAGATTGGTGTGTCTTCAATCTACCTTC-TGATTAAGGTAAGAGATTGGATGCTTCAATCTG
* * * * **
19881501 CCCCATGATCGGGGTAAGAGATTGATGATGTCTCCAATATATCCCATGATCGGGGTAAAAGATCG
65 CCCCATGATCGGGGTAAGAGATTGGTG-TATCTTCAATCTGCCCCA-GATCGGGGTAAAAGATCG
* * *
19881566 AATGCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGAGTGTCTTCAATCT
128 -ATGCTCT-ATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCT
19881619 ACCCTCTGGT
Statistics
Matches: 540, Mismatches: 76, Indels: 45
0.82 0.11 0.07
Matches are distributed among these distances:
226 45 0.08
227 66 0.12
228 3 0.01
229 208 0.39
230 75 0.14
231 87 0.16
232 5 0.01
233 4 0.01
234 47 0.09
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (226 bp):
TAAGAGATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAGAGATTGGATGCTTCAATCTGC
CCCATGATCGGGGTAAGAGATTGGTGTATCTTCAATCTGCCCCAGATCGGGGTAAAAGATCGATG
CTCTATCTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTCTAATTAAGGTAAGAGA
TTGGATGCTTCAATCTGCCCCATGATCGGGG
Found at i:19881993 original size:50 final size:50
Alignment explanation
Indices: 19881853--19882515 Score: 253
Period size: 49 Copynumber: 13.4 Consensus size: 50
19881843 TTGATTTTTT
* * * * *
19881853 CCATCACGTCTTT-GAGGTACCA-GGTTCGACGTTACGGCCTTAA-CCTTTC
1 CCATCACATCTTTCAAGGTA-CATGGTTCGCCGTTGCGGCCTCAATCC-TTC
* * * * **
19881902 CCTTCATATCTTT-ATGGTACCA-GATTCGCCGTTGCAACCTCAATCCTTC
1 CCATCACATCTTTCAAGGTA-CATGGTTCGCCGTTGCGGCCTCAATCCTTC
* * *
19881951 TCATCACATCTTTTAAGGTACATGGTTCACCGTTGCGGCCTCAA-CCTTTC
1 CCATCACATCTTTCAAGGTACATGGTTCGCCGTTGCGGCCTCAATCC-TTC
* * * *** * ** * *
19882001 CC-TC-CATATCTCCATGGTACAAAATTCACCGTTATGGCTTCAATCTTTC
1 CCATCACATCT-TTCAAGGTACATGGTTCGCCGTTGCGGCCTCAATCCTTC
** * * * * * * * * *
19882050 TTATTTATATC-TCCATGGTAC-TAGATTCGCCGTTGTGACCTCGATCTTTC
1 CCA-TCACATCTTTCAAGGTACAT-GGTTCGCCGTTGCGGCCTCAATCCTTC
* *
19882100 CCATCACGTCTCT-AAGGTACCA-GGTTCGCCGTTGCGGCCTCAA-CCTTTC
1 CCATCACATCTTTCAAGGTA-CATGGTTCGCCGTTGCGGCCTCAATCC-TTC
* * * * * *
19882149 CCTTCATATC-TTCATGGTAC-CGGATTCTCCGTTGCGCCCTCAATCCTTC
1 CCATCACATCTTTCAAGGTACATGG-TTCGCCGTTGCGGCCTCAATCCTTC
* * * * *
19882198 TCATCATATCTTTTAAGGTATC-GGGTTCGCCGTTGAGGCCTCAA-CCTTTC
1 CCATCACATCTTTCAAGGTA-CATGGTTCGCCGTTGCGGCCTCAATCC-TTC
* * * * * ** *
19882248 CCTTCATA-CCTTCATGGTA-TTGGATTCGCTATTGCAGCCTCAATCCTTC
1 CCATCACATCTTTCAAGGTACATGG-TTCGCCGTTGCGGCCTCAATCCTTC
* ** * * * * *
19882297 CCATCACATCTTTTAAGGTACCGGGTTTGCTGTTACGGCCTAAATCTTTC
1 CCATCACATCTTTCAAGGTACATGGTTCGCCGTTGCGGCCTCAATCCTTC
* * * * *
19882347 CCTTCATATC-TTCATA-GTA-TTGGATTCGTCGTTGTGGCCTCAATCCTTC
1 CCATCACATCTTTCA-AGGTACATGG-TTCGCCGTTGCGGCCTCAATCCTTC
* * * * *
19882396 CCATCACATCTTTTAAGGTACCA-GGTTCGTCGTTACGACCTTAA-CCTTTC
1 CCATCACATCTTTCAAGGTA-CATGGTTCGCCGTTGCGGCCTCAATCC-TTC
** ** *
19882446 CCATCACATCTTTCAAGGTACCGGGTTTACCGTTGCAGCCTCAA-CCTTTC
1 CCATCACATCTTTCAAGGTACATGGTTCGCCGTTGCGGCCTCAATCC-TTC
19882496 CCATCACATC-TTCTAAGGTA
1 CCATCACATCTTTC-AAGGTA
19882516 TCGAGTTAAC
Statistics
Matches: 456, Mismatches: 123, Indels: 69
0.70 0.19 0.11
Matches are distributed among these distances:
48 13 0.03
49 220 0.48
50 213 0.47
51 8 0.02
52 2 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (50 bp):
CCATCACATCTTTCAAGGTACATGGTTCGCCGTTGCGGCCTCAATCCTTC
Found at i:19882132 original size:99 final size:99
Alignment explanation
Indices: 19882056--19882515 Score: 471
Period size: 99 Copynumber: 4.6 Consensus size: 99
19882046 TTTCTTATTT
* * * * * *
19882056 ATATCTCCATGGTACTAGATTCGCCGTTGTGACCTCGATCTTTCCCATCACGTC-TCTAAGGTAC
1 ATATCTTCATGGTACTGGATTCGCCGTTGTGACCTCAATCCTTCCCATCACATCTTTTAAGGTAC
*
19882120 CAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC
66 CAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTC
* * * * * * *
19882154 ATATCTTCATGGTACCGGATTCTCCGTTGCGCCCTCAATCCTTCTCATCATATCTTTTAAGGTAT
1 ATATCTTCATGGTACTGGATTCGCCGTTGTGACCTCAATCCTTCCCATCACATCTTTTAAGGTAC
*
19882219 CGGGTTCGCCGTTGA-GGCCTCAACCTTTCCCTTC
66 CAGGTTCGCCGTT-ACGGCCTCAACCTTTCCCTTC
* * ** *
19882253 ATACCTTCATGGTATTGGATTCGCTATTG-CAGCCTCAATCCTTCCCATCACATCTTTTAAGGTA
1 ATATCTTCATGGTACTGGATTCGCCGTTGTGA-CCTCAATCCTTCCCATCACATCTTTTAAGGTA
* * * * *
19882317 CCGGGTTTGCTGTTACGGCCTAAATCTTTCCCTTC
65 CCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTC
* * * *
19882352 ATATCTTCATAGTATTGGATTCGTCGTTGTGGCCTCAATCCTTCCCATCACATCTTTTAAGGTAC
1 ATATCTTCATGGTACTGGATTCGCCGTTGTGACCTCAATCCTTCCCATCACATCTTTTAAGGTAC
* * * *
19882417 CAGGTTCGTCGTTACGACCTTAACCTTTCCCATC
66 CAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTC
* * * * ** * *
19882451 ACATCTTTCAAGGTACCGGGTTTACCGTTG-CAGCCTCAA-CCTTTCCCATCACATCTTCTAAGG
1 ATATC-TTCATGGTACTGGATTCGCCGTTGTGA-CCTCAATCC-TTCCCATCACATCTTTTAAGG
19882514 TA
63 TA
19882516 TCGAGTTAAC
Statistics
Matches: 297, Mismatches: 57, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
98 44 0.15
99 209 0.70
100 44 0.15
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (99 bp):
ATATCTTCATGGTACTGGATTCGCCGTTGTGACCTCAATCCTTCCCATCACATCTTTTAAGGTAC
CAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTC
Found at i:19882213 original size:247 final size:247
Alignment explanation
Indices: 19881777--19882266 Score: 685
Period size: 247 Copynumber: 2.0 Consensus size: 247
19881767 GAAGCAGAAG
* * * **
19881777 ATTCACCGTTGCGACTTCAATCTTTCCCATTTATATCTCTATGGTACTAGATCCGTCGTTGCGGT
1 ATTCACCGTTACGACTTCAATCTTTCCCATTTATATCTCCATGGTACTAGATCCGCCGTTGCGAC
* * * * * *
19881842 CTTGATTTTTTCCATCACGTCTTTGAGGTACCAGGTTCGACGTTACGGCCTTAACCTTTCCCTTC
66 CTCGATCTTTCCCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTC
*
19881907 ATATCTTTATGGTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTA-
131 ATATCTTCATGGTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTAT
* * *
19881971 CATGGTTCACCGTTGCGGCCTCAACCTTTCCCTCCATATCTCCATGGTACAAA
196 C-GGGTTCACCGTTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTACAAA
* * ** * *
19882024 ATTCACCGTTATGGCTTCAATCTTTCTTATTTATATCTCCATGGTACTAGATTCGCCGTTGTGAC
1 ATTCACCGTTACGACTTCAATCTTTCCCATTTATATCTCCATGGTACTAGATCCGCCGTTGCGAC
* *
19882089 CTCGATCTTTCCCATCACGTCTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC
66 CTCGATCTTTCCCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTC
* * ** *
19882154 ATATCTTCATGGTACCGGATTCTCCGTTGCGCCCTCAATCCTTCTCATCATATCTTTTAAGGTAT
131 ATATCTTCATGGTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTAT
* * *
19882219 CGGGTTCGCCGTTGAGGCCTCAACCTTTCCCTTCATACCTTCATGGTA
196 CGGGTTCACCGTTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTA
19882267 TTGGATTCGC
Statistics
Matches: 211, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
247 210 1.00
248 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.36
Consensus pattern (247 bp):
ATTCACCGTTACGACTTCAATCTTTCCCATTTATATCTCCATGGTACTAGATCCGCCGTTGCGAC
CTCGATCTTTCCCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTC
ATATCTTCATGGTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTAT
CGGGTTCACCGTTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTACAAA
Found at i:19882247 original size:148 final size:145
Alignment explanation
Indices: 19881882--19882609 Score: 367
Period size: 148 Copynumber: 4.9 Consensus size: 145
19881872 CCAGGTTCGA
* * ** * * * *
19881882 CGTTACGGCCTTAA-CCTTTCCCTTCATATCTTTATGGTACCAGATTCGCCGTTGCA-ACCTCAA
1 CGTTACGGCCTCAATCC-TTCCCATCATATCTCCAAGGTATCGGATTCGCCGTTG-AGGCCTCAA
* * * *
19881945 TCC-TTCTCATCACATCTTTTAAGGTACATGGTTCACCGTTGCGGCCTCAACCTTTCCC-TCCAT
64 -CCTTTCCCATCAC-TC-TCTAAGGTACA-GGTTCGCCGTTGCGGCCTCAACCTTTCCCAT-CAC
* *** *
19882008 ATCTCCATGGTACAAAATTCAC
124 ATCTTCATGGTACCGGATTTAC
* * * ** * * * * * *
19882030 CGTTATGGCTTCAATCTTTCTTATTTATATCTCCATGGTA-CTAGATTCGCCGTTGTGACCTCGA
1 CGTTACGGCCTCAATCCTTCCCA-TCATATCTCCAAGGTATC-GGATTCGCCGTTGAGGCCTCAA
* * *
19882094 TCTTTCCCATCACGTCTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
64 CCTTTCCCATCAC-TCTCTAAGGTA-CAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
19882159 TTCATGGTACCGGATTCT-C
127 TTCATGGTACCGGATT-TAC
* * * ** *
19882178 CGTTGCGCCCTCAATCCTTCTCATCATATCTTTTAAGGTATCGGGTTCGCCGTTGAGGCCTCAAC
1 CGTTACGGCCTCAATCCTTCCCATCATATC-TCCAAGGTATCGGATTCGCCGTTGAGGCCTCAAC
* * ** ** *
19882243 CTTTCCCTTCA-TAC-CTTCATGGTATTGGATTCGCTATTGCAGCCTCAATCC-TTCCCATCACA
65 CTTTCCCATCACT-CTC-T-AAGGTACAGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACA
* * * *
19882305 TCTTTTAAGGTACCGGGTTTGC
125 TC-TTCATGGTACCGGATTTAC
* * * * * * * *
19882327 TGTTACGGCCTAAATCTTTCCCTTCATATCTTCATA-GTATTGGATTCGTCGTTGTGGCCTCAAT
1 CGTTACGGCCTCAATCCTTCCCATCATATCTCCA-AGGTATCGGATTCGCCGTTGAGGCCTCAA-
* * * * *
19882391 CC-TTCCCATCACATCTTTTAAGGTACCAGGTTCGTCGTTACGACCTTAACCTTTCCCATCACAT
64 CCTTTCCCATCAC-TC-TCTAAGGTA-CAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACAT
* *
19882455 CTTTCAAGGTACCGGGTTTAC
126 C-TTCATGGTACCGGATTTAC
* * * * ** *
19882476 CGTTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTATC-GAGTTAACCATTGCA-GCCTC
1 CGTTACGGCCTCAATCC-TTCCCATCATATC-TCCAAGGTATCGGA-TTCGCCGTTG-AGGCCTC
** * * ** *
19882538 AACCTTTCCTTTCA-TCT-TATGATATTGGGTTCACCGTTGCGGCCTCAACCTTTCCCAT--CAT
62 AACCTTTCCCATCACTCTCTAAGGTA-CAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACAT
19882599 CTTCATGGTAC
126 CTTCATGGTAC
19882610 AGGGTTCACC
Statistics
Matches: 445, Mismatches: 104, Indels: 67
0.72 0.17 0.11
Matches are distributed among these distances:
143 9 0.02
144 4 0.01
146 33 0.07
147 11 0.02
148 193 0.43
149 165 0.37
150 30 0.07
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.35
Consensus pattern (145 bp):
CGTTACGGCCTCAATCCTTCCCATCATATCTCCAAGGTATCGGATTCGCCGTTGAGGCCTCAACC
TTTCCCATCACTCTCTAAGGTACAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCA
TGGTACCGGATTTAC
Found at i:19882346 original size:247 final size:247
Alignment explanation
Indices: 19881853--19882497 Score: 550
Period size: 247 Copynumber: 2.6 Consensus size: 247
19881843 TTGATTTTTT
* * * *
19881853 CCATCACGTCTTTGAGGTACCAGGTTCGACGTTACGGCCTTAACCTTTCCCTTCATATCTTTATG
1 CCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTCATATCTTCATG
*
19881918 GTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTACATGGTTCACCG
66 GTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTACAGGGTTCACCG
* * * ** * *
19881983 TTGCGGCCTCAACCTTTCCCTCCATATCTCCATGGTACAAAATTCACCGTTATGGCTTCAATCTT
131 TTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTACAAAATTCACCATTACAGCCTCAATCCT
** * * * * ** **
19882048 TCTTATTTATATCTCCATGGTACTAGATTCGCCGTTGTGACCTCGATCTTTC
196 TCCCATTCACATCTCCAAGGTACCAGATTCGCCGTTACGACCTAAATCTTTC
* *
19882100 CCATCACGTCTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATG
1 CCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTCATATCTTCATG
* * ** * *
19882165 GTACCGGATTCTCCGTTGCGCCCTCAATCCTTCTCATCATATCTTTTAAGGTATC-GGGTTCGCC
66 GTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTA-CAGGGTTCACC
* * **** * * *
19882229 GTTGAGGCCTCAACCTTTCCCTTCATACCTTCATGGTATTGGATTCGCTATTGCAGCCTCAATCC
130 GTTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTACAAAATTCACCATTACAGCCTCAATCC
** * * * * *
19882294 TTCCCA-TCACATCTTTTAAGGTACCGGGTTTGCTGTTACGGCCTAAATCTTTC
195 TTCCCATTCACATC-TCCAAGGTACCAGATTCGCCGTTACGACCTAAATCTTTC
* ** ** * ** * *
19882347 CCTTCATATCT-TCATA-GTA-TTGGATTCGTCGTTGTGGCCTCAATCC-TTCCCATCACATCTT
1 CCATCACGTCTCT-A-AGGTACCAGG-TTCGACGTTACGGCCTCAA-CCTTTCCCTTCATATC-T
* * * * * * * * * *
19882408 TTAAGGTACCAGGTTCGTCGTTACGACCTTAA-CCTTTCCCATCACATCTTTCAAGGTACCGGGT
61 TCATGGTACCAGATTCGCCGTTGCAACCTCAATCC-TTCTCATCACATCTTTTAAGGTACAGGGT
*
19882472 TTACCGTTGCA-GCCTCAACCTTTCCC
125 TCACCGTTG-AGGCCTCAACCTTTCCC
19882498 ATCACATCTT
Statistics
Matches: 319, Mismatches: 69, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
246 8 0.03
247 236 0.74
248 74 0.23
249 1 0.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.35
Consensus pattern (247 bp):
CCATCACGTCTCTAAGGTACCAGGTTCGACGTTACGGCCTCAACCTTTCCCTTCATATCTTCATG
GTACCAGATTCGCCGTTGCAACCTCAATCCTTCTCATCACATCTTTTAAGGTACAGGGTTCACCG
TTGAGGCCTCAACCTTTCCCTCCATACCTCCATGGTACAAAATTCACCATTACAGCCTCAATCCT
TCCCATTCACATCTCCAAGGTACCAGATTCGCCGTTACGACCTAAATCTTTC
Found at i:19882532 original size:50 final size:50
Alignment explanation
Indices: 19882095--19882651 Score: 281
Period size: 50 Copynumber: 11.4 Consensus size: 50
19882085 TGACCTCGAT
* * * * * *
19882095 CTTTCCCATCACGTC-TCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAAC
* * * * * * *
19882144 CTTTCCCTTCATATCTTC-ATGGTACCGGATTCTCCGTTGC-GCCCTCAATC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAG-CCTCAA-C
* * * * *
19882194 C-TTCTCATCATATCTTTTAAGGTATCGGGTTCGCCGTTG-AGGCCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCA-GCCTCAAC
* * * * * * * *
19882243 CTTTCCCTTCATACCTTC-ATGGTATTGGATTCGCTATTGCAGCCTCAATC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAA-C
* * ** ** * * * *
19882293 C-TTCCCATCACATCTTTTAAGGTACCGGGTTTGCTGTTACGGCCTAAAT
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAAC
* * * * ** * **
19882342 CTTTCCCTTCATATCTTC-ATA-GTATTGGATTCGTCGTTGTGGCCTCAATC
1 CTTTCCCATCACATCTTCTA-AGGTATCGGGTTCACCATTGCAGCCTCAA-C
* * * ** * * *
19882392 C-TTCCCATCACATCTTTTAAGGTACCAGGTTCGTCGTTAC-GACCTTAAC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAG-CCTCAAC
* * *
19882441 CTTTCCCATCACATCTT-TCAAGGTACCGGGTTTACCGTTGCAGCCTCAAC
1 CTTTCCCATCACATCTTCT-AAGGTATCGGGTTCACCATTGCAGCCTCAAC
* *
19882491 CTTTCCCATCACATCTTCTAAGGTATCGAGTTAACCATTGCAGCCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAAC
** * * * * *
19882541 CTTT-CC-TTTCATC-T-TATGATATTGGGTTCACCGTTGCGGCCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAAC
* *
19882587 CTTTCCCAT--CATCTTC-ATGGTA-CAGGGTTCACCATTGCAACCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTATC-GGGTTCACCATTGCAGCCTCAAC
*
19882634 CTTTCCCATTACATCTTC
1 CTTTCCCATCACATCTTC
19882652 ATGTTTCCTT
Statistics
Matches: 397, Mismatches: 84, Indels: 54
0.74 0.16 0.10
Matches are distributed among these distances:
46 33 0.08
47 38 0.10
48 7 0.02
49 133 0.34
50 183 0.46
51 3 0.01
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.34
Consensus pattern (50 bp):
CTTTCCCATCACATCTTCTAAGGTATCGGGTTCACCATTGCAGCCTCAAC
Found at i:19882596 original size:96 final size:93
Alignment explanation
Indices: 19882468--19882639 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
19882458 TCAAGGTACC
*
19882468 GGGTTTACCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC-GAGTTAACCATTGC
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCCAT--CATCTTC-AAGGTA-CAGAGTTAACCATTGC
*
19882532 AGCCTCAACCTTTCCTTTCATCTTATGATATT
62 AACCTCAACCTTTCCTTTCATCTTATGATATT
* * * *
19882564 GGGTTCACCGTTGCGGCCTCAACCTTTCCCATCATCTTCATGGTACAGGGTTCACCATTGCAACC
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCCATCATCTTCAAGGTACAGAGTTAACCATTGCAACC
19882629 TCAACCTTTCC
66 TCAACCTTTCC
19882640 CATTACATCT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
92 1 0.01
93 31 0.45
94 7 0.10
96 30 0.43
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (93 bp):
GGGTTCACCGTTGCAGCCTCAACCTTTCCCATCATCTTCAAGGTACAGAGTTAACCATTGCAACC
TCAACCTTTCCTTTCATCTTATGATATT
Found at i:19882599 original size:46 final size:46
Alignment explanation
Indices: 19882468--19882642 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
19882458 TCAAGGTACC
* * * *
19882468 GGGTTTACCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC
1 GGGTTCACCATTGCAGCCTCAACCTTTCCCAT--CATC-T-TATGGTATA
* * ** * *
19882518 GAGTTAACCATTGCAGCCTCAACCTTTCCTTTCATCTTATGATATT
1 GGGTTCACCATTGCAGCCTCAACCTTTCCCATCATCTTATGGTATA
* * *
19882564 GGGTTCACCGTTGCGGCCTCAACCTTTCCCATCATCTTCATGGTACA
1 GGGTTCACCATTGCAGCCTCAACCTTTCCCATCATCTT-ATGGTATA
*
19882611 GGGTTCACCATTGCAACCTCAACCTTTCCCAT
1 GGGTTCACCATTGCAGCCTCAACCTTTCCCAT
19882643 TACATCTTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
46 38 0.37
47 35 0.34
48 4 0.04
50 27 0.26
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.33
Consensus pattern (46 bp):
GGGTTCACCATTGCAGCCTCAACCTTTCCCATCATCTTATGGTATA
Found at i:19891128 original size:26 final size:26
Alignment explanation
Indices: 19891064--19891128 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
19891054 GGGTTAAATT
*
19891064 TATTTTTTATT-TTATAATTCTCATTA
1 TATTTTTT-TTATTATAATTATCATTA
*** * *
19891090 TAAAATTTGTATTATAGTTATCATTA
1 TATTTTTTTTATTATAATTATCATTA
19891116 TATTTTTTTTATT
1 TATTTTTTTTATT
19891129 TTTGATAATG
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (26 bp):
TATTTTTTTTATTATAATTATCATTA
Found at i:19895395 original size:16 final size:16
Alignment explanation
Indices: 19895376--19895427 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19895366 AATAGGGATA
*
19895376 TAATAGAATAAAGCTG
1 TAATAGAATAAAGTTG
*
19895392 TAAT-GAAAAATAGTTG
1 TAATAGAATAA-AGTTG
* *
19895408 TAATAAAATAGAGTTG
1 TAATAGAATAAAGTTG
19895424 TAAT
1 TAAT
19895428 CAGTAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 21 0.72
17 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (16 bp):
TAATAGAATAAAGTTG
Found at i:19901016 original size:40 final size:40
Alignment explanation
Indices: 19900972--19901221 Score: 166
Period size: 40 Copynumber: 6.2 Consensus size: 40
19900962 GTTAATAATT
* * * *
19900972 GATATTACAATCGAACTAGTAGTGACACTGTAAACACTGC
1 GATATTACAATCAAACTGGCAGTGACACTGTAAACACTAC
* * ** * *
19901012 GATATTATCACT-GAACTGGCAGTGACTTTATAAACACTGC
1 GATATTA-CAATCAAACTGGCAGTGACACTGTAAACACTAC
* * * * * *
19901052 GATACTATCACT-AAATTGGCAGTGGCACTATAAACACCAC
1 GATATTA-CAATCAAACTGGCAGTGACACTGTAAACACTAC
* * * * *
19901092 GGTACTACCATTAAACTGGCAGTGACATTGTAAACACTAC
1 GATATTACAATCAAACTGGCAGTGACACTGTAAACACTAC
* * * *
19901132 GATATTACAA-CTAAATTGGTAGTGGCACTGTAAACACTGC
1 GATATTACAATC-AAACTGGCAGTGACACTGTAAACACTAC
* * * * *
19901172 GATACTACCA-CTAAATTGGTAGTGACATTGTAAACACTAC
1 GATATTACAATC-AAACTGGCAGTGACACTGTAAACACTAC
19901212 GATATTACAA
1 GATATTACAA
19901222 CTGAAGTGAC
Statistics
Matches: 169, Mismatches: 38, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
39 2 0.01
40 164 0.97
41 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (40 bp):
GATATTACAATCAAACTGGCAGTGACACTGTAAACACTAC
Found at i:19901135 original size:80 final size:80
Alignment explanation
Indices: 19900992--19901223 Score: 268
Period size: 80 Copynumber: 2.9 Consensus size: 80
19900982 TCGAACTAGT
* * ** * * * * * *
19900992 AGTGACACTGTAAACACTGCGATATTATCACTGAACTGGCAGTGACTTTATAAACACTGCGATAC
1 AGTGGCACTATAAACACCACGATACTACCACTAAACTGGCAGTGACATTGTAAACACTACGATAC
19901057 TATC-ACTAAATTGGC
66 TA-CAACTAAATTGGC
* * *
19901072 AGTGGCACTATAAACACCACGGTACTACCATTAAACTGGCAGTGACATTGTAAACACTACGATAT
1 AGTGGCACTATAAACACCACGATACTACCACTAAACTGGCAGTGACATTGTAAACACTACGATAC
*
19901137 TACAACTAAATTGGT
66 TACAACTAAATTGGC
* ** * * *
19901152 AGTGGCACTGTAAACACTGCGATACTACCACTAAATTGGTAGTGACATTGTAAACACTACGATAT
1 AGTGGCACTATAAACACCACGATACTACCACTAAACTGGCAGTGACATTGTAAACACTACGATAC
19901217 TACAACT
66 TACAACT
19901224 GAAGTGACAC
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
79 1 0.01
80 129 0.99
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (80 bp):
AGTGGCACTATAAACACCACGATACTACCACTAAACTGGCAGTGACATTGTAAACACTACGATAC
TACAACTAAATTGGC
Found at i:19901206 original size:120 final size:120
Alignment explanation
Indices: 19900992--19901208 Score: 292
Period size: 120 Copynumber: 1.8 Consensus size: 120
19900982 TCGAACTAGT
* * **
19900992 AGTGACACTGTAAACACTGCGATATTATCACTGAACTGGCAGTGACTTTATAAACACTGCGATAC
1 AGTGACACTGTAAACACTACGATATTATCACTAAACTGGCAGTGACACTATAAACACTGCGATAC
* *
19901057 TATCACTAAATTGGCAGTGGCACTATAAACACCACGGTACTACCATTAAACTGGC
66 TACCACTAAATTGGCAGTGACACTATAAACACCACGGTACTACCATTAAACTGGC
* * * * *
19901112 AGTGACATTGTAAACACTACGATATTA-CAACTAAATTGGTAGTGGCACTGTAAACACTGCGATA
1 AGTGACACTGTAAACACTACGATATTATC-ACTAAACTGGCAGTGACACTATAAACACTGCGATA
* * *
19901176 CTACCACTAAATTGGTAGTGACATTGTAAACAC
65 CTACCACTAAATTGGCAGTGACACTATAAACAC
19901209 TACGATATTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 1 0.01
120 81 0.99
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (120 bp):
AGTGACACTGTAAACACTACGATATTATCACTAAACTGGCAGTGACACTATAAACACTGCGATAC
TACCACTAAATTGGCAGTGACACTATAAACACCACGGTACTACCATTAAACTGGC
Found at i:19906730 original size:43 final size:43
Alignment explanation
Indices: 19906661--19906742 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
19906651 ACAGCCTGAG
* *
19906661 CACACTGGCGTGTGTCAGACCATGTGTGCATACTGTTTTGTAA
1 CACACTAGCGTGTGTCAGACCATGTGTGCATACAGTTTTGTAA
* * *
19906704 CACACTAGCGTGTTTCTGACCTTGTGTGCATACAGTTTT
1 CACACTAGCGTGTGTCAGACCATGTGTGCATACAGTTTT
19906743 AGATTTGTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (43 bp):
CACACTAGCGTGTGTCAGACCATGTGTGCATACAGTTTTGTAA
Found at i:19909080 original size:17 final size:17
Alignment explanation
Indices: 19909025--19909081 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
19909015 AATATATATG
*
19909025 GAAATGAAATGAC-AAT
1 GAAATGCAATGACAAAT
* *
19909041 GAAGATGCAGTGACAAAA
1 GAA-ATGCAATGACAAAT
*
19909059 AAAATGCAATGACAAAT
1 GAAATGCAATGACAAAT
19909076 GAAATG
1 GAAATG
19909082 TGATGACAGC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 3 0.09
17 25 0.78
18 4 0.12
ACGTcount: A:0.54, C:0.09, G:0.21, T:0.16
Consensus pattern (17 bp):
GAAATGCAATGACAAAT
Found at i:19918202 original size:30 final size:30
Alignment explanation
Indices: 19918166--19918222 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
19918156 GAGCATATTA
19918166 CGAGAACGGAAGCAATTGTTCAAGGAAATT
1 CGAGAACGGAAGCAATTGTTCAAGGAAATT
19918196 CGAGAACGGAAGCAATTGTTCAAGGAA
1 CGAGAACGGAAGCAATTGTTCAAGGAA
19918223 GTTCTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (30 bp):
CGAGAACGGAAGCAATTGTTCAAGGAAATT
Found at i:19924578 original size:17 final size:17
Alignment explanation
Indices: 19924556--19924598 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
19924546 GTGCATATCA
19924556 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
*
19924573 TTTAATTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
19924590 TTTACTTGT
1 TTTAATTGT
19924599 TAGTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:19925216 original size:8 final size:8
Alignment explanation
Indices: 19925181--19925227 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
19925171 TCACATTTAT
19925181 AAAAAAA-
1 AAAAAAAG
19925188 AAAAAAAG
1 AAAAAAAG
19925196 AAAGAAAAG
1 AAA-AAAAG
*
19925205 AAAAAGAG
1 AAAAAAAG
**
19925213 AAAAGCAG
1 AAAAAAAG
19925221 AAAAAAA
1 AAAAAAA
19925228 ATATTGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
7 7 0.21
8 18 0.55
9 8 0.24
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:19931982 original size:23 final size:23
Alignment explanation
Indices: 19931952--19931996 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
19931942 TATCAATGAT
19931952 TAGCAAAGACATGAAGAGAAAAA
1 TAGCAAAGACATGAAGAGAAAAA
*
19931975 TAGCAAAGACGTGAAGAGAAAA
1 TAGCAAAGACATGAAGAGAAAA
19931997 TCATAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.24, T:0.09
Consensus pattern (23 bp):
TAGCAAAGACATGAAGAGAAAAA
Found at i:19936212 original size:26 final size:26
Alignment explanation
Indices: 19936183--19936234 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19936173 TTTCTAAAAG
* *
19936183 ATTTAATATTTATTAGTATAATTTAT
1 ATTTAACATTTATTAGAATAATTTAT
**
19936209 ATTTTGCATTTATTAGAATAATTTAT
1 ATTTAACATTTATTAGAATAATTTAT
19936235 TTAACCTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (26 bp):
ATTTAACATTTATTAGAATAATTTAT
Found at i:19939478 original size:15 final size:15
Alignment explanation
Indices: 19939458--19939491 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19939448 TACTCTCATC
19939458 TCTTCACTCACACTT
1 TCTTCACTCACACTT
*
19939473 TCTTCACTCTCACTT
1 TCTTCACTCACACTT
19939488 TCTT
1 TCTT
19939492 TTTCCTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTTCACTCACACTT
Found at i:19940853 original size:15 final size:15
Alignment explanation
Indices: 19940833--19940866 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19940823 TACTCTCATC
19940833 TCTTCACTCACACTT
1 TCTTCACTCACACTT
*
19940848 TCTTCACTCTCACTT
1 TCTTCACTCACACTT
19940863 TCTT
1 TCTT
19940867 TTTCCTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTTCACTCACACTT
Found at i:19941039 original size:27 final size:29
Alignment explanation
Indices: 19940999--19941054 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
19940989 TCTCTTTTTA
19940999 TTTTCTCTCAATTTCTTTT-TCCTTTTCT
1 TTTTCTCTCAATTTCTTTTCTCCTTTTCT
*
19941027 TTTTCTCTC-ATTTCTTTTCTTCTTTTCT
1 TTTTCTCTCAATTTCTTTTCTCCTTTTCT
19941055 CTATTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTCTCTCAATTTCTTTTCTCCTTTTCT
Found at i:19941045 original size:20 final size:20
Alignment explanation
Indices: 19941020--19941072 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
19941010 TTTCTTTTTC
19941020 CTTTTC-TTTTTCTCTCATTT
1 CTTTTCTTTTTTCTCT-ATTT
19941040 CTTTTCTTCTTTTCTCTATTT
1 CTTTTCTT-TTTTCTCTATTT
*
19941061 CTTTTATTTTTT
1 CTTTTCTTTTTT
19941073 ACTTATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.33
21 12 0.40
22 8 0.27
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTTCTTTTTTCTCTATTT
Found at i:19941060 original size:21 final size:20
Alignment explanation
Indices: 19941020--19941071 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
19941010 TTTCTTTTTC
19941020 CTTTTCTTTTTCTCTCATTT
1 CTTTTCTTTTTCTCTCATTT
19941040 CTTTTCTTCTTT-TCTCTATTT
1 CTTTTCTT-TTTCTCTC-ATTT
*
19941061 CTTTTATTTTT
1 CTTTTCTTTTT
19941072 TACTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTTCTTTTTCTCTCATTT
Found at i:19941083 original size:21 final size:21
Alignment explanation
Indices: 19941027--19941080 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
19941017 TTCCTTTTCT
*
19941027 TTTTCTCTCATTTCTTTTCTTC
1 TTTTCTCT-ATTTCTTTTATTC
19941049 TTTTCTCTATTTCTTTTATT-
1 TTTTCTCTATTTCTTTTATTC
19941069 TTTTACT-TATTT
1 TTTT-CTCTATTT
19941081 TCTCTCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 8 0.27
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTCTATTTCTTTTATTC
Found at i:19943261 original size:18 final size:18
Alignment explanation
Indices: 19943238--19943282 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
19943228 CATTGCATGG
19943238 AATGCATGAGTTGCAAGA
1 AATGCATGAGTTGCAAGA
* * * *
19943256 AGTGCACGAGTTGTATGA
1 AATGCATGAGTTGCAAGA
19943274 AATGCATGA
1 AATGCATGA
19943283 AGTGTTTTCC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (18 bp):
AATGCATGAGTTGCAAGA
Found at i:19943908 original size:19 final size:18
Alignment explanation
Indices: 19943882--19943946 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
19943872 TACAAAATAA
19943882 TCAAAATATTTTCAAAAAT
1 TCAAAATATTTT-AAAAAT
* *
19943901 TGAAAATAATTTTTAAAAT
1 TCAAAAT-ATTTTAAAAAT
*
19943920 TCTAAATATTTATAAAAAT
1 TCAAAATATTT-TAAAAAT
19943939 TCTAAAAT
1 TC-AAAAT
19943947 TTGTATTCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 4 0.11
19 24 0.65
20 9 0.24
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
TCAAAATATTTTAAAAAT
Found at i:19958442 original size:5 final size:5
Alignment explanation
Indices: 19958432--19958470 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
19958422 GTAAGAAGAT
19958432 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAA
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAA
19958471 CGTAAGAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (5 bp):
GGAAG
Found at i:19961224 original size:28 final size:29
Alignment explanation
Indices: 19961193--19961252 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
19961183 AAACAGGACC
*
19961193 TTTAGA-TACCCGGGGGC-AAAATAGTAAT
1 TTTAGACT-CCCGAGGGCAAAAATAGTAAT
* *
19961221 TTTAGACTCTCGAGGGCAAAAATGGTAAT
1 TTTAGACTCCCGAGGGCAAAAATAGTAAT
19961250 TTT
1 TTT
19961253 GGAAAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (29 bp):
TTTAGACTCCCGAGGGCAAAAATAGTAAT
Found at i:19961325 original size:29 final size:27
Alignment explanation
Indices: 19961239--19961472 Score: 109
Period size: 29 Copynumber: 8.0 Consensus size: 27
19961229 CTCGAGGGCA
*
19961239 AAAATGGTAATTTTGGAAAGATTTGGGGTT
1 AAAAT-GTAATTTTGGAAAGA-TCGGGG-T
* * *
19961269 AGAAATG-ACATTTTGG-ATGTTTGTGGGT
1 A-AAATGTA-ATTTTGGAAAGATCG-GGGT
19961297 AAAATAGTAATTTTTGGTAAA-ATCGGGGT
1 AAAAT-GTAA-TTTTGG-AAAGATCGGGGT
* * *
19961326 CAAAGATGGAATTTTAGAAAGTTCAGGGGT
1 -AAA-ATGTAATTTTGGAAAGATC-GGGGT
*
19961356 AAAATGGTAATTTTGGAAAGTTCGAGGGT
1 AAAAT-GTAATTTTGGAAAGATCG-GGGT
* * *
19961385 AAAATGGTAAATTTTAGTAAA-ATTGAGGT
1 AAAAT-GT-AATTTT-GGAAAGATCGGGGT
* *
19961414 CAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 --AAAATGTAATTTTGGAAAGATC-GGGGT
19961444 AAAATGATAATTTTTGGTAAA-ATCGGGGT
1 AAAATG-TAA-TTTTGG-AAAGATCGGGGT
19961473 CAAAGTTAGA
Statistics
Matches: 160, Mismatches: 21, Indels: 47
0.70 0.09 0.21
Matches are distributed among these distances:
27 4 0.03
28 23 0.14
29 71 0.44
30 43 0.27
31 19 0.12
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (27 bp):
AAAATGTAATTTTGGAAAGATCGGGGT
Found at i:19961386 original size:88 final size:88
Alignment explanation
Indices: 19961230--19961457 Score: 255
Period size: 88 Copynumber: 2.6 Consensus size: 88
19961220 TTTTAGACTC
* * * * * *
19961230 TCGAGGGCAAAAATGGTAATTTTGGAAAGATT-TGGGGTTAGAAATGA-CATTTTGG-ATGTTTG
1 TCGAGGTCAAAAATGG-AATTTTAGAAAG-TTCAGGGG-TA-AAATGATAATTTTGGAAAGTTCG
* * *
19961292 TGGGTAAAATAGTAATTTTTGGTAAAA
62 AGGGTAAAATAGTAAATTTTAGTAAAA
* * *
19961319 TCGGGGTCAAAGATGGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTGGAAAGTTCGAGGG
1 TCGAGGTCAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGATAATTTTGGAAAGTTCGAGGG
*
19961384 TAAAATGGTAAATTTTAGTAAAA
66 TAAAATAGTAAATTTTAGTAAAA
* * *
19961407 TTGAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGATAATTTT
1 TCGAGGTCAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGATAATTTT
19961458 TGGTAAAATC
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
86 5 0.04
87 11 0.09
88 88 0.75
89 13 0.11
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (88 bp):
TCGAGGTCAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGATAATTTTGGAAAGTTCGAGGG
TAAAATAGTAAATTTTAGTAAAA
Found at i:19961398 original size:59 final size:59
Alignment explanation
Indices: 19961293--19961466 Score: 169
Period size: 59 Copynumber: 2.9 Consensus size: 59
19961283 GGATGTTTGT
* * *
19961293 GGGTAAAATAGTAATTTTTGGTAAA-ATCGGGGTCAAAGATGG--AATTTTAG-AAAGTTCAG
1 GGGTAAAATGGTAA-TTTTGG-AAAGTTCGGGGT-AAA-ATGGTAAATTTTAGTAAAATTCAG
*
19961352 GGGTAAAATGGTAATTTTGGAAAGTTCGAGGGTAAAATGGTAAATTTTAGTAAAATTGAG
1 GGGTAAAATGGTAATTTTGGAAAGTTCG-GGGTAAAATGGTAAATTTTAGTAAAATTCAG
*** * * *
19961412 GTCAAAAATGG-AATTTTGGAAAGTTCGGGGGTAAAATGATAATTTTTGGTAAAAT
1 GGGTAAAATGGTAATTTTGGAAAGTTC-GGGGTAAAATGGTAAATTTTAGTAAAAT
19961467 CGGGGTCAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
57 7 0.07
58 12 0.12
59 64 0.65
60 16 0.16
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTGGAAAGTTCGGGGTAAAATGGTAAATTTTAGTAAAATTCAG
Found at i:19961474 original size:59 final size:58
Alignment explanation
Indices: 19961356--19961524 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 58
19961346 GTTCAGGGGT
* * *
19961356 AAAATGGTAATTTTGGAAAGTTCGAGGGTAAAATGGTAAATTTTAGTAAAATTGAGGTCA
1 AAAATGG-AATTTTGGAAAGTTCGGGGGTAAAAT-GTAATTTTTAGTAAAATCGAGGTCA
* *
19961416 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGATAATTTTTGGTAAAATCGGGGTCA
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATG-TAATTTTTAGTAAAATCGAGGTCA
** * * *
19961475 AAGTTAGAATTATGGAAAACTT-GGGGGTCAAAATGTAATTTTTAG-AAAAT
1 AAAATGGAATTTTGG-AAAGTTCGGGGGT-AAAATGTAATTTTTAGTAAAAT
19961525 TTTAGGGTTA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
58 6 0.06
59 71 0.75
60 18 0.19
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGTAATTTTTAGTAAAATCGAGGTCA
Found at i:19961508 original size:88 final size:87
Alignment explanation
Indices: 19961293--19961569 Score: 224
Period size: 88 Copynumber: 3.1 Consensus size: 87
19961283 GGATGTTTGT
* * * *
19961293 GGGTAAAATAGT-AATTTTTGGTAAAATCGGGGTCAAAGATGGAATTTTAGAAAGTTCAGGGGTA
1 GGGTAAAATGGTAAATTATAGG-AAAATTGGGGTCAAA-ATGGAATTTTAGAAAGTTCAGGGGTA
* *
19961357 AAATGGTAATTTTGGAAAGTTCGA
64 AAATGATAATTTTGGAAAGATCGA
* * * * *
19961381 GGGTAAAATGGTAAATTTTAGTAAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAA
1 GGGTAAAATGGTAAATTATAGGAAAATTGGGGTC-AAAATGGAATTTTAGAAAGTTCAGGGGTAA
19961446 AATGATAATTTTTGGTAAA-ATCG-
65 AATGATAA-TTTTGG-AAAGATCGA
* * * * *
19961469 GGGTCAAA-GTTAGAATTAT-GGAAAACTTGGGGGTCAAAATGTAATTTTTAGAAAATTTTAGGG
1 GGGTAAAATGGTA-AATTATAGGAAAA-TT-GGGGTCAAAATGGAA-TTTTAG-AAAGTTCAGGG
* * * *
19961532 TTAAAAT-ATAATTTTAGAAAAGTTTGA
61 GTAAAATGATAATTTT-GGAAAGATCGA
19961559 GGGTCAAAATG
1 GGGT-AAAATG
19961570 TAATTTTAAA
Statistics
Matches: 151, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
87 8 0.05
88 82 0.54
89 36 0.24
90 21 0.14
91 3 0.02
92 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (87 bp):
GGGTAAAATGGTAAATTATAGGAAAATTGGGGTCAAAATGGAATTTTAGAAAGTTCAGGGGTAAA
ATGATAATTTTGGAAAGATCGA
Found at i:19961523 original size:30 final size:30
Alignment explanation
Indices: 19961288--19961576 Score: 124
Period size: 30 Copynumber: 9.8 Consensus size: 30
19961278 ATTTTGGATG
* *
19961288 TTTGTGGGT-AAAATAGTAATTTTTGGTAAAA
1 TTTGAGGGTCAAAAT-GTAATTTTTAG-AAAA
* *
19961319 -TCG-GGGTCAAAGATGGAA-TTTTAG-AAA
1 TTTGAGGGTCAAA-ATGTAATTTTTAGAAAA
* * * *
19961346 GTTCAGGGGT-AAAATGGTAA-TTTTGGAAAG
1 TTTGA-GGGTCAAAAT-GTAATTTTTAGAAAA
* *
19961376 TTCGAGGGT-AAAATGGTAAATTTTAGTAAAA
1 TTTGAGGGTCAAAAT-GTAATTTTTAG-AAAA
* * *
19961407 -TTGA-GGTCAAAAATGGAA-TTTTGGAAAG
1 TTTGAGGGTC-AAAATGTAATTTTTAGAAAA
* * *
19961435 TTCGGGGGT-AAAATGATAATTTTTGGTAAAA
1 TTTGAGGGTCAAAATG-TAATTTTTAG-AAAA
* * * * *
19961466 -TCG-GGGTCAAAGT-TAGAATTATGGAAAA
1 TTTGAGGGTCAAAATGTA-ATTTTTAGAAAA
* *
19961494 CTTGGGGGTCAAAATGTAATTTTTAGAAAA
1 TTTGAGGGTCAAAATGTAATTTTTAGAAAA
* * *
19961524 TTTTAGGGTTAAAATATAA-TTTTAGAAAA
1 TTTGAGGGTCAAAATGTAATTTTTAGAAAA
19961553 GTTTGAGGGTCAAAATGTAATTTT
1 -TTTGAGGGTCAAAATGTAATTTT
19961577 AAAAAGTTTT
Statistics
Matches: 198, Mismatches: 37, Indels: 46
0.70 0.13 0.16
Matches are distributed among these distances:
27 3 0.02
28 18 0.09
29 68 0.34
30 91 0.46
31 18 0.09
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (30 bp):
TTTGAGGGTCAAAATGTAATTTTTAGAAAA
Found at i:19961577 original size:30 final size:30
Alignment explanation
Indices: 19961322--19961585 Score: 130
Period size: 30 Copynumber: 8.9 Consensus size: 30
19961312 GGTAAAATCG
* *
19961322 GGGTCAAAGATGGAATTTTAG-AAAG-TTCA
1 GGGTCAAA-ATGTAATTTTAGAAAAGTTTGA
* *
19961351 GGGGT-AAAATGGTAATTTT-GGAAAGTTCGA
1 -GGGTCAAAAT-GTAATTTTAGAAAAGTTTGA
19961381 GGGT-AAAATGGTAAATTTTAGTAAAA--TTGA
1 GGGTCAAAAT-GT-AATTTTAG-AAAAGTTTGA
* * * *
19961411 -GGTCAAAAATGGAATTTT-GGAAAGTTCGG
1 GGGTC-AAAATGTAATTTTAGAAAAGTTTGA
* *
19961440 GGGT-AAAATGATAATTTTTGGTAAAA--TCG-
1 GGGTCAAAATG-TAA-TTTTAG-AAAAGTTTGA
* * * * *
19961469 GGGTCAAAGT-TAGAATTATGGAAAA-CTTGG
1 GGGTCAAAATGT--AATTTTAGAAAAGTTTGA
*
19961499 GGGTCAAAATGTAATTTTTAGAAAA-TTTTA
1 GGGTCAAAATGTAA-TTTTAGAAAAGTTTGA
* *
19961529 GGGTTAAAATATAATTTTAGAAAAGTTTGA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTGA
19961559 GGGTCAAAATGTAATTTTA-AAAAGTTT
1 GGGTCAAAATGTAATTTTAGAAAAGTTT
19961586 TGGGGAAAAT
Statistics
Matches: 186, Mismatches: 25, Indels: 47
0.72 0.10 0.18
Matches are distributed among these distances:
27 3 0.02
28 15 0.08
29 70 0.38
30 84 0.45
31 8 0.04
32 6 0.03
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTGA
Found at i:19961605 original size:72 final size:72
Alignment explanation
Indices: 19961519--19961663 Score: 204
Period size: 72 Copynumber: 2.0 Consensus size: 72
19961509 GTAATTTTTA
*
19961519 GAAAATTTTAGGGTTAAAATATAATTTT-AGAAAAGTTTGAGGGTCAAAATGTAATTTT-AAAAA
1 GAAAATTTTAGGGTTAAAATATAATTTTCA-AAAAGTTTGAGGGTCAAAATATAATTTTGAAAAA
*
19961582 GTTTTGGG
65 GTTTAGGG
* * * *
19961590 GAAAATTTTGGGGGTTAAAATGTAATTTTCAAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAA
1 GAAAATTTT-AGGGTTAAAATATAATTTTCAAAAAGTTTGAGGGTCAAAATATAATTTTGAAAAA
19961655 GTTTAGGG
65 GTTTAGGG
19961663 G
1 G
19961664 TCAAATGTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
71 9 0.14
72 43 0.66
73 13 0.20
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (72 bp):
GAAAATTTTAGGGTTAAAATATAATTTTCAAAAAGTTTGAGGGTCAAAATATAATTTTGAAAAAG
TTTAGGG
Found at i:19961610 original size:42 final size:43
Alignment explanation
Indices: 19961548--19961629 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
19961538 TATAATTTTA
19961548 GAAAAGTTTGAGGGTCAAAATGTAATTTT-AAAAAGTTTTGGG
1 GAAAAGTTTGAGGGTCAAAATGTAATTTTCAAAAAGTTTTGGG
* * *
19961590 GAAAATTTTGGGGGTTAAAATGTAATTTTCAAAAAGTTTT
1 GAAAAGTTTGAGGGTCAAAATGTAATTTTCAAAAAGTTTT
19961630 AGGGTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (43 bp):
GAAAAGTTTGAGGGTCAAAATGTAATTTTCAAAAAGTTTTGGG
Found at i:19961640 original size:30 final size:30
Alignment explanation
Indices: 19961591--19961677 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
19961581 AGTTTTGGGG
* * *
19961591 AAAATTTTGGGGGTTAAAATGTAATTTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTCA
* **
19961621 AAAAGTTTTA-GGGTCAAAATATAATTTTGG
1 AAAAG-TTTAGGGGTCAAAATGTAATTTTCA
*
19961651 AAAAGTTTAGGGGTC-AAATGTCATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTT
19961678 TGGATAGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
29 14 0.30
30 30 0.64
31 3 0.06
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTCA
Found at i:19961669 original size:29 final size:29
Alignment explanation
Indices: 19961589--19961691 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
19961579 AAAGTTTTGG
* * *
19961589 GGAAAATTTTGGGGGTTAAAATGTAATTTT
1 GGAAAAGTTTAGGGG-TCAAATGTAATTTT
** *
19961619 CAAAAAGTTTTA-GGGTCAAAATATAATTTT
1 GGAAAAG-TTTAGGGGTC-AAATGTAATTTT
*
19961649 GGAAAAGTTTAGGGGTCAAATGTCATTTTT
1 GGAAAAGTTTAGGGGTCAAATGT-AATTTT
*
19961679 GG-ATAGTTTAGGG
1 GGAAAAGTTTAGGG
19961692 ACTTTTAAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
29 20 0.34
30 35 0.60
31 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (29 bp):
GGAAAAGTTTAGGGGTCAAATGTAATTTT
Found at i:19961687 original size:102 final size:102
Alignment explanation
Indices: 19961495--19961677 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
19961485 TATGGAAAAC
* *
19961495 TTGGGGGTCAAAATGTAATTTTTAGAAAATTTTAGGGTTAAAATATAATTTTAGAAAAGTTTGAG
1 TTGGGGGTCAAAATGTAATTTTCAGAAAATTTTAGGGTCAAAATATAATTTTAGAAAAGTTTGAG
19961560 GGTCAAAATGTAATTTTAAAAAGTTTTGGGGAAAATT
66 GGTCAAAATGTAATTTTAAAAAGTTTTGGGGAAAATT
* *
19961597 TTGGGGGTTAAAATGTAATTTTCA-AAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTT-A
1 TTGGGGGTCAAAATGTAATTTTCAGAAAA-TTTTAGGGTCAAAATATAATTTTAGAAAAGTTTGA
*
19961660 GGGGTC-AAATGTCATTTT
65 -GGGTCAAAATGTAATTTT
19961678 TGGATAGTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 16 0.22
102 58 0.78
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (102 bp):
TTGGGGGTCAAAATGTAATTTTCAGAAAATTTTAGGGTCAAAATATAATTTTAGAAAAGTTTGAG
GGTCAAAATGTAATTTTAAAAAGTTTTGGGGAAAATT
Found at i:19963559 original size:11 final size:12
Alignment explanation
Indices: 19963542--19963613 Score: 66
Period size: 11 Copynumber: 6.5 Consensus size: 12
19963532 ATATAATAAT
*
19963542 TTTAAATTTATA
1 TTTAAATTTAAA
*
19963554 -TTAAATCTAAA
1 TTTAAATTTAAA
19963565 TTTAAA-TTAAA
1 TTTAAATTTAAA
19963576 TTTAAATTT-AA
1 TTTAAATTTAAA
*
19963587 --TAAATTTAAT
1 TTTAAATTTAAA
*
19963597 TTTAAA-ATAAA
1 TTTAAATTTAAA
19963608 TTTAAA
1 TTTAAA
19963614 ATGATTTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 30 0.61
12 11 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:19963564 original size:6 final size:6
Alignment explanation
Indices: 19963542--19963613 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
19963532 ATATAATAAT
* *
19963542 TTTAAA TTTATA -TTAAA TCTAAA TTTAAA -TTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
19963587 --TAAA TTTAAT TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19963614 ATGATTTGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 15 0.29
6 34 0.65
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:19963564 original size:17 final size:17
Alignment explanation
Indices: 19963544--19963613 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
19963534 ATAATAATTT
*
19963544 TAAATTTATATTAAATC
1 TAAATTTAAATTAAATC
*
19963561 TAAATTTAAATTAAATT
1 TAAATTTAAATTAAATC
*
19963578 TAAATTT-AA-TAAATT
1 TAAATTTAAATTAAATC
* * *
19963593 TAATTTTAAAATAAATT
1 TAAATTTAAATTAAATC
19963610 TAAA
1 TAAA
19963614 ATGATTTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
15 12 0.26
16 4 0.09
17 31 0.66
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTAAATC
Found at i:19963615 original size:11 final size:11
Alignment explanation
Indices: 19963520--19963613 Score: 63
Period size: 11 Copynumber: 8.6 Consensus size: 11
19963510 TTTGGACTTC
19963520 ATTT-AATTAA
1 ATTTAAATTAA
*
19963530 ATATATAA-TAA
1 ATTTA-AATTAA
* *
19963541 TTTTAAATT-T
1 ATTTAAATTAA
19963551 ATATTAAATCTAA
1 AT-TTAAAT-TAA
19963564 ATTTAAATTAA
1 ATTTAAATTAA
*
19963575 ATTTAAATTTA
1 ATTTAAATTAA
19963586 A--TAAATTTAA
1 ATTTAAA-TTAA
* *
19963596 TTTTAAAATAA
1 ATTTAAATTAA
19963607 ATTTAAA
1 ATTTAAA
19963614 ATGATTTGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
9 4 0.06
10 9 0.14
11 36 0.56
12 13 0.20
13 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:19964195 original size:50 final size:50
Alignment explanation
Indices: 19964141--19964618 Score: 311
Period size: 50 Copynumber: 9.5 Consensus size: 50
19964131 TAGAATTGGA
* * *
19964141 TCCGCCGTTGCAGTCTTAGATCCTTT-CCTTCCTGTTTCTGTGGTACACGG
1 TCCGCCATTGC-GACTTAGATCCTTTCCCTTCCTGTTTCTGAGGTACACGG
* * * * * *
19964191 TCCGCCGTTGCGACTTA-AACCTTTCCCTT-TTGTATCTTTGCGGTACTA-GA
1 TCCGCCATTGCGACTTAGATCCTTTCCCTTCCTGT-T-TCTGAGGTAC-ACGG
* * * * *
19964241 TCCGCCATTGCGGTCTTAGAT-CTTTCTCGTCTTGTTTTTGAGGTACACGG
1 TCCGCCATTGC-GACTTAGATCCTTTCCCTTCCTGTTTCTGAGGTACACGG
* ** * * *
19964291 TCCGCCATTGCGACTTAGA-CCTTTCTCTTTTGTGTTTTTGTGGTACTA-GA
1 TCCGCCATTGCGACTTAGATCCTTTC-CCTTCCTGTTTCTGAGGTAC-ACGG
* * * * *
19964341 TCTGCCATTGTGGTCTTAGAT-CTTTCCCTTCATGCTTCTGAGGTACACGG
1 TCCGCCATTG-CGACTTAGATCCTTTCCCTTCCTGTTTCTGAGGTACACGG
* * * * * * *
19964391 TCTGCCGTTACGACTTAGA-CCTTTCCCTTTTCTGTTTTTGCGGTACTA-GA
1 TCCGCCATTGCGACTTAGATCCTTTCCC-TTCCTGTTTCTGAGGTAC-ACGG
* * *
19964441 TCTGCCATTGCGATCTTAGAT-CTTTCCCTTCCATGCTTCTGAAGTACACGG
1 TCCGCCATTGCGA-CTTAGATCCTTTCCCTTCC-TGTTTCTGAGGTACACGG
* * * *
19964492 TCCGCCGTTGCGACTTAGA-CCTTTCCCTTTTCTGTTTCTGCGGTACTA-GA
1 TCCGCCATTGCGACTTAGATCCTTTCCC-TTCCTGTTTCTGAGGTAC-ACGG
* * *
19964542 TCTGCCATTGCGGTCTTAGAT-CTTTCCCTTCCATGCTTCTGAGGTACACGG
1 TCCGCCATTGC-GACTTAGATCCTTTCCCTTCC-TGTTTCTGAGGTACACGG
**
19964593 TCCGCTGTTGCGACTTAGA-CCTTTCC
1 TCCGCCATTGCGACTTAGATCCTTTCC
19964619 TTTTTGTGTT
Statistics
Matches: 332, Mismatches: 67, Indels: 58
0.73 0.15 0.13
Matches are distributed among these distances:
48 9 0.03
49 38 0.11
50 178 0.54
51 102 0.31
52 5 0.02
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.38
Consensus pattern (50 bp):
TCCGCCATTGCGACTTAGATCCTTTCCCTTCCTGTTTCTGAGGTACACGG
Found at i:19964521 original size:101 final size:101
Alignment explanation
Indices: 19964139--19964645 Score: 716
Period size: 100 Copynumber: 5.0 Consensus size: 101
19964129 CGTAGAATTG
* * * * *
19964139 GATCCGCCGTTGCAGTCTTAGATCCTTT-CCTTCC-TGTTTCTGTGGTACACGGTCCGCCGTTGC
1 GATCTGCCATTGCGGTCTTAGAT-CTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGC
* * *
19964202 GACTTAAACCTTTCCCTTTTGTATCTTTGCGGTACTA
65 GACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
* * * * * * *
19964239 GATCCGCCATTGCGGTCTTAGATCTTTCTCGT-CTTGTTTTTGAGGTACACGGTCCGCCATTGCG
1 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCG
* *
19964303 ACTTAGACCTTTCTCTTTTGTGTTTTTGTGGTACTA
66 ACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
* * *
19964339 GATCTGCCATTGTGGTCTTAGATCTTTCCCTT-CATGCTTCTGAGGTACACGGTCTGCCGTTACG
1 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCG
*
19964403 ACTTAGACCTTTCCCTTTTCTGTTTTTGCGGTACTA
66 ACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
* *
19964439 GATCTGCCATTGCGATCTTAGATCTTTCCCTTCCATGCTTCTGAAGTACACGGTCCGCCGTTGCG
1 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCG
* *
19964504 ACTTAGACCTTTCCCTTTTCTGTTTCTGCGGTACTA
66 ACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
*
19964540 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCTGTTGCG
1 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCG
* * *
19964605 ACTTAGACCTTTCCTTTTTGTGTTTTTGCAGTACTG
66 ACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
19964641 GATCT
1 GATCT
19964646 CTCGTGGAAG
Statistics
Matches: 365, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
99 5 0.01
100 198 0.54
101 162 0.44
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.39
Consensus pattern (101 bp):
GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCG
ACTTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTA
Found at i:19965358 original size:8 final size:8
Alignment explanation
Indices: 19965347--19965400 Score: 62
Period size: 7 Copynumber: 7.2 Consensus size: 8
19965337 TCTTGACTTC
*
19965347 TTCTTTCT
1 TTCTTTTT
19965355 TTCTTTTT
1 TTCTTTTT
*
19965363 TT-TCTTT
1 TTCTTTTT
19965370 TT-TTTTT
1 TTCTTTTT
19965377 TT-TTTTT
1 TTCTTTTT
19965384 TTCTTTTT
1 TTCTTTTT
19965392 TT-TTTTT
1 TTCTTTTT
19965399 TT
1 TT
19965401 TGATAACACG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
7 26 0.62
8 16 0.38
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTCTTTTT
Found at i:19965364 original size:1 final size:1
Alignment explanation
Indices: 19965358--19965401 Score: 70
Period size: 1 Copynumber: 44.0 Consensus size: 1
19965348 TCTTTCTTTC
* *
19965358 TTTTTTTTCTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19965402 GATAACACGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:19965381 original size:20 final size:20
Alignment explanation
Indices: 19965344--19965401 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
19965334 TCATCTTGAC
* * *
19965344 TTCTTCTTTCTTTCTTTTTT
1 TTCTTTTTTTTTTTTTTTTT
19965364 TTCTTTTTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTTTTTT
19965384 TTCTTTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTTTT
19965402 GATAACACGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTCTTTTTTTTTTTTTTTTT
Found at i:19970076 original size:28 final size:30
Alignment explanation
Indices: 19970005--19970224 Score: 76
Period size: 29 Copynumber: 7.5 Consensus size: 30
19969995 TCTCGGGGGC
19970005 AAAAATGGTAATTTTGGAAAGATTTGGGGTT
1 AAAAA-GGTAATTTTGGAAAGATTTGGGGTT
*
19970036 AAAAAGG-ACATTTTGG-ATG-TTTGTGGG-T
1 AAAAAGGTA-ATTTTGGAAAGATTTG-GGGTT
* * *
19970064 AAAACGGTAATTTTTGGTAAA-A-TCGGGGTC
1 AAAAAGGTAA-TTTTGG-AAAGATTTGGGGTT
* * *
19970094 AAAGATGG-AATTTTAGAAAG-TTTAAGGG-T
1 AAA-AAGGTAATTTTGGAAAGATTT-GGGGTT
* * *
19970123 AAAATGGTAATTTTGAAAAG-TTCAGGGG-T
1 AAAAAGGTAATTTTGGAAAGATT-TGGGGTT
* * *
19970152 AAAATA-GTAAATTTTAGTAAA-A-TTGAGGTC
1 AAAA-AGGT-AATTTT-GGAAAGATTTGGGGTT
* *
19970182 AAAAATGG-AATTTTGGAAAG-TTCGGGGGT
1 AAAAA-GGTAATTTTGGAAAGATTTGGGGTT
*
19970211 AAAATGGTAATTTT
1 AAAAAGGTAATTTT
19970225 TAGTAAAATC
Statistics
Matches: 140, Mismatches: 25, Indels: 50
0.65 0.12 0.23
Matches are distributed among these distances:
28 25 0.18
29 71 0.51
30 30 0.21
31 14 0.10
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (30 bp):
AAAAAGGTAATTTTGGAAAGATTTGGGGTT
Found at i:19970134 original size:29 final size:30
Alignment explanation
Indices: 19970089--19970224 Score: 99
Period size: 29 Copynumber: 4.6 Consensus size: 30
19970079 GGTAAAATCG
*
19970089 GGGTCAAAGATGG-AATTTTAG-AAAGTTTAA
1 GGGT-AAA-ATGGTAATTTTAGAAAAGTTCAA
*
19970119 GGGTAAAATGGTAATTTT-GAAAAGTTCAG
1 GGGTAAAATGGTAATTTTAGAAAAGTTCAA
* *
19970148 GGGTAAAATAGTAAATTTTAGTAAAA-TT-GA
1 GGGTAAAATGGT-AATTTTAG-AAAAGTTCAA
* **
19970178 -GGTCAAAAATGG-AATTTT-GGAAAGTTCGG
1 GGGT--AAAATGGTAATTTTAGAAAAGTTCAA
19970207 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
19970225 TAGTAAAATC
Statistics
Matches: 87, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
27 3 0.03
28 15 0.17
29 43 0.49
30 13 0.15
31 9 0.10
32 4 0.05
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (30 bp):
GGGTAAAATGGTAATTTTAGAAAAGTTCAA
Found at i:19970155 original size:88 final size:88
Alignment explanation
Indices: 19970060--19970224 Score: 231
Period size: 88 Copynumber: 1.9 Consensus size: 88
19970050 GGATGTTTGT
* * * * * *
19970060 GGGTAAAACGGTAATTTTTGGTAAAATCGGGGTCAAAGATGGAATTTTAGAAAGTTTAAGGGTAA
1 GGGTAAAACAGTAAATTTTAGTAAAATCGAGGTCAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
19970125 AATGGTAATTTTGAAAAGTTCAG
66 AATGGTAATTTTGAAAAGTTCAG
* * * **
19970148 GGGTAAAATAGTAAATTTTAGTAAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAA
1 GGGTAAAACAGTAAATTTTAGTAAAATCGAGGTCAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
19970213 AATGGTAATTTT
66 AATGGTAATTTT
19970225 TAGTAAAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.32
Consensus pattern (88 bp):
GGGTAAAACAGTAAATTTTAGTAAAATCGAGGTCAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
AATGGTAATTTTGAAAAGTTCAG
Found at i:19970165 original size:59 final size:58
Alignment explanation
Indices: 19970102--19970252 Score: 162
Period size: 59 Copynumber: 2.6 Consensus size: 58
19970092 TCAAAGATGG
*
19970102 AATTTTAG-AAAGTTTAAGGGT-AAAATGGTAATTTTGAAAAGTTCAGGGGTAAAATAGTA
1 AATTTTAGTAAA-ATTAA-GGTAAAAATGG-AATTTTGAAAAGTTCAGGGGTAAAATAGTA
* * * *
19970161 AATTTTAGTAAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTA
1 AATTTTAGTAAAATTAAGGT-AAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATAGTA
* ** *
19970220 ATTTTTAGTAAAATCGAGGTTAAAGATGGAATT
1 AATTTTAGTAAAATTAAGG-TAAAAATGGAATT
19970253 ATGGAAAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
58 3 0.04
59 66 0.82
60 11 0.14
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (58 bp):
AATTTTAGTAAAATTAAGGTAAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATAGTA
Found at i:19970258 original size:59 final size:57
Alignment explanation
Indices: 19970122--19970283 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 57
19970112 AGTTTAAGGG
* * * *
19970122 TAAAATGGTAATTTTGAAAAGTTCAGGGGTAAAATAGTAAATTTTAGTAAAATTGAGGT
1 TAAAATGG-AATTTTGGAAAGTTCGGGGGTAAAAT-GTAATTTTTAGTAAAATCGAGGT
*
19970181 CAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAGTAAAATCGAGGT
1 -TAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAT-GTAATTTTTAGTAAAATCGAGGT
* *
19970240 TAAAGATGGAATTATGGAAAACTT-GGGGGTAAAAATGTAATTTT
1 TAAA-ATGGAATTTTGG-AAAGTTCGGGGGT-AAAATGTAATTTT
19970284 AAAAAGTTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
58 3 0.03
59 70 0.78
60 17 0.19
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (57 bp):
TAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGTAATTTTTAGTAAAATCGAGGT
Found at i:19970334 original size:147 final size:146
Alignment explanation
Indices: 19970006--19970373 Score: 363
Period size: 147 Copynumber: 2.5 Consensus size: 146
19969996 CTCGGGGGCA
* * * * * *
19970006 AAAATGGTAATTTTGG-AAAGATTTGGGGTTAAAAAGGACATTTTGG-ATGTTTGTGGGTAAAAC
1 AAAATAGTAATTTTGGAAAAG-TTTGGGGTCAAAATGGA-ATTTTGGAAAGTTTGGGGGTAAAAT
* * * **
19970069 GGTAATTTTTGGTAAAATCGGGGTCAAAGATGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAAT
64 GGTAATTTTTAGTAAAATCGAGGTCAAAGATGGAATTATAGAAAACTTAAGGGTAAAATGGTAAT
*
19970134 TTTGAAAAGTTCAGGGGT
129 TTTAAAAAGTTCAGGGGT
* * *
19970152 AAAATAGTAAATTTTAGTAAAA--TTGAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAA
1 AAAATAGT-AATTTT-GGAAAAGTTTGGGGTC-AAAATGGAATTTTGGAAAGTTTGGGGGTAAAA
* * **
19970215 TGGTAATTTTTAGTAAAATCGAGGTTAAAGATGGAATTATGGAAAACTTGGGGGTAAAAAT-GTA
63 TGGTAATTTTTAGTAAAATCGAGGTCAAAGATGGAATTATAGAAAACTTAAGGGT-AAAATGGTA
** *
19970279 ATTTTAAAAAGTTTTGGTGT
127 ATTTTAAAAAGTTCAGGGGT
** *
19970299 CAAAATA-TAATTTTGGAAAAGTTTGGGGGTCAAAATATAATTTTGAAAAAGTTTGGGGGTTAAA
1 -AAAATAGTAATTTTGGAAAAGTTT-GGGGTCAAAATGGAATTTTG-GAAAGTTTGGGGG-TAAA
*
19970363 AT-GTCATTTTT
62 ATGGTAATTTTT
19970374 GGATAGTTTA
Statistics
Matches: 181, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
145 5 0.03
146 26 0.14
147 105 0.58
148 36 0.20
149 9 0.05
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (146 bp):
AAAATAGTAATTTTGGAAAAGTTTGGGGTCAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGG
TAATTTTTAGTAAAATCGAGGTCAAAGATGGAATTATAGAAAACTTAAGGGTAAAATGGTAATTT
TAAAAAGTTCAGGGGT
Found at i:19970372 original size:30 final size:30
Alignment explanation
Indices: 19970262--19970364 Score: 145
Period size: 30 Copynumber: 3.5 Consensus size: 30
19970252 TATGGAAAAC
* *
19970262 TTGGGGGTAAAAATGTAATTTT-AAAAAGT
1 TTGGGGGTCAAAATATAATTTTGAAAAAGT
* * *
19970291 TTTGGTGTCAAAATATAATTTTGGAAAAGT
1 TTGGGGGTCAAAATATAATTTTGAAAAAGT
19970321 TTGGGGGTCAAAATATAATTTTGAAAAAGT
1 TTGGGGGTCAAAATATAATTTTGAAAAAGT
*
19970351 TTGGGGGTTAAAAT
1 TTGGGGGTCAAAAT
19970365 GTCATTTTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
29 18 0.28
30 46 0.72
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (30 bp):
TTGGGGGTCAAAATATAATTTTGAAAAAGT
Found at i:19972243 original size:17 final size:17
Alignment explanation
Indices: 19972221--19972263 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19972211 CTTCATTTAA
*
19972221 TTAAATTTATAATAATT
1 TTAAATTTATAATAAAT
*
19972238 TTAAATTTATATTAAAT
1 TTAAATTTATAATAAAT
*
19972255 CTAAATTTA
1 TTAAATTTA
19972264 AATTTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTTATAATAAAT
Found at i:19974661 original size:6 final size:6
Alignment explanation
Indices: 19974650--19974675 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19974640 AGTAGAATCC
19974650 TTGTAA TTGTAA TTGTAA TTGTAA TT
1 TTGTAA TTGTAA TTGTAA TTGTAA TT
19974676 ATATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTGTAA
Found at i:19975582 original size:20 final size:20
Alignment explanation
Indices: 19975559--19975604 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
19975549 TAATCAACGT
*
19975559 AATAAATATT-TAATAAATAA
1 AATAAAT-TTCTAATAAAAAA
19975579 AAT-AATTTCTAATAAAAAA
1 AATAAATTTCTAATAAAAAA
19975598 ACATAAA
1 A-ATAAA
19975605 ATAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 5 0.23
21 2 0.09
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAATTTCTAATAAAAAA
Found at i:19977484 original size:9 final size:9
Alignment explanation
Indices: 19977470--19977494 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19977460 ACATAAATGA
19977470 GACTGACTG
1 GACTGACTG
19977479 GACTGACTG
1 GACTGACTG
19977488 GACTGAC
1 GACTGAC
19977495 AGTGCATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (9 bp):
GACTGACTG
Found at i:19978824 original size:23 final size:23
Alignment explanation
Indices: 19978793--19979054 Score: 330
Period size: 23 Copynumber: 11.3 Consensus size: 23
19978783 TCTTATATCA
*
19978793 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19978816 TG-TTCAAATATTAATATGATTTG
1 TGCTT-AAATATTAATGTGATTTG
* * *
19978839 CGCTCAAATATTAATGT-ATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19978861 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19978884 TGCTTAAAAATATTAATATGATTTG
1 TGCTT--AAATATTAATGTGATTTG
* *
19978909 TGCTCAAATATTAATGTGACTTG
1 TGCTTAAATATTAATGTGATTTG
*
19978932 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
19978955 TGCTCAAATATTAATGTAATTTA
1 TGCTTAAATATTAATGTGATTTG
19978978 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
19979001 TGCTTAAATATTAATATAATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19979024 TGATTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
19979047 TGCTTAAA
1 TGCTTAAA
19979055 AAATTAAGAT
Statistics
Matches: 205, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
22 21 0.10
23 163 0.80
24 1 0.00
25 20 0.10
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:19981320 original size:13 final size:13
Alignment explanation
Indices: 19981302--19981366 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
19981292 TTAAACCAAC
*
19981302 CTTTTCAAAAGTA
1 CTTTTCAAAAGCA
* *
19981315 CTTTTCAAAATCG
1 CTTTTCAAAAGCA
*
19981328 CTTTTCCAAAGCA
1 CTTTTCAAAAGCA
* *
19981341 ATTTTTAAAAGCA
1 CTTTTCAAAAGCA
*
19981354 CTTCTCAAAAGCA
1 CTTTTCAAAAGCA
19981367 ATACTAAACT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (13 bp):
CTTTTCAAAAGCA
Found at i:19982477 original size:38 final size:38
Alignment explanation
Indices: 19982410--19982494 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
19982400 CTTCAAGGTA
* *
19982410 ACACCGTGTTGGTGGTTATAAACTGGTCCTTCGGGGTG
1 ACACCGTGTTGGTGGTTATAAACTAGTCCTTCGGGGCG
* ** *
19982448 ACACTGTGTTGGTGGTTATGTACTAGTCCTTTGGGGCG
1 ACACCGTGTTGGTGGTTATAAACTAGTCCTTCGGGGCG
*
19982486 ACATCGTGT
1 ACACCGTGT
19982495 GAACGGTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.34
Consensus pattern (38 bp):
ACACCGTGTTGGTGGTTATAAACTAGTCCTTCGGGGCG
Found at i:19983884 original size:27 final size:28
Alignment explanation
Indices: 19983818--19983884 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
19983808 CAACACGCCT
* * *
19983818 TTGTGGCTATATTTTTTTAAGGATACAT
1 TTGTGGCTATCTTTGTTTAAGGATACAC
* *
19983846 TTATGGCTATCTTTGTTTAAGGATGC-C
1 TTGTGGCTATCTTTGTTTAAGGATACAC
19983873 TTGTGGCTATCT
1 TTGTGGCTATCT
19983885 GCGTTAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (28 bp):
TTGTGGCTATCTTTGTTTAAGGATACAC
Found at i:19985161 original size:42 final size:44
Alignment explanation
Indices: 19985115--19985205 Score: 100
Period size: 43 Copynumber: 2.1 Consensus size: 44
19985105 GCATCATTAA
** *
19985115 ATAAACCGAAA-G-AATATATT-GCCACATTTAGTGCATCATCGG
1 ATAAACCGAAAGGAAATATATTCG-CACACGTAGTGCATCATCCG
* *
19985157 ATAAA-CTAAAGGAAATATATTCGCACACGTAGTGTATCATCCG
1 ATAAACCGAAAGGAAATATATTCGCACACGTAGTGCATCATCCG
19985200 ATAAAC
1 ATAAAC
19985206 TTAATCAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.10
42 6 0.15
43 29 0.73
44 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (44 bp):
ATAAACCGAAAGGAAATATATTCGCACACGTAGTGCATCATCCG
Found at i:19991080 original size:23 final size:23
Alignment explanation
Indices: 19990370--19991072 Score: 857
Period size: 23 Copynumber: 31.0 Consensus size: 23
19990360 CTTATATCTA
* *
19990370 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
* **
19990393 TGATTAAATATTAATGCAATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19990416 TGCTTAAGTATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19990439 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990462 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990485 TGCTTAAATA-T-ATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
19990506 TGCTTAAATATTTATGTAATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19990529 TGCTTAAATATTGATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
19990552 TGCTTAAATATTAAT-TG---T-
1 TGCTTAAATATTAATGTGATTTG
*
19990570 T-CTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19990592 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
19990615 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19990638 TGCTTAAATATTAATTTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * * *
19990661 TACTTAAGTATTAATGTGATCTA
1 TGCTTAAATATTAATGTGATTTG
* **
19990684 TGTTTAAATATTAATAAGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19990707 TGCTCAAATATTAATGTAATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19990730 TGCTTAACTATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
19990753 TG-TTGAATATTAATGTAATTTA
1 TGCTTAAATATTAATGTGATTTG
19990775 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990798 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990821 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19990844 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
19990867 TGCTTAATTATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
19990890 TACTTAAATATCAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990913 TGCTTAAATATTAATGTGACTTG
1 TGCTTAAATATTAATGTGATTTG
* ** *
19990936 TCCTTAAATATTAATACGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19990959 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19990982 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19991005 TGCTCAAATATTAATGTGATTTT
1 TGCTTAAATATTAATGTGATTTG
*
19991028 TGCTTAAATATTAATGTTATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19991051 TACTTAAATATTAATATGATTT
1 TGCTTAAATATTAATGTGATTT
19991073 ATTGTTAACT
Statistics
Matches: 576, Mismatches: 95, Indels: 18
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.02
18 3 0.01
19 1 0.00
21 20 0.03
22 22 0.04
23 518 0.90
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:19992090 original size:20 final size:20
Alignment explanation
Indices: 19992043--19992090 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
19992033 ATTTAAAAGT
*
19992043 GTTAAAATGATTTTGACTTA
1 GTTAAAATGATTTTGACATA
* *
19992063 GTTCAAATTATTTTGACAT-
1 GTTAAAATGATTTTGACATA
19992082 GTTTAAAAT
1 G-TTAAAAT
19992091 CGTTTTAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (20 bp):
GTTAAAATGATTTTGACATA
Found at i:19992480 original size:36 final size:36
Alignment explanation
Indices: 19992381--19992480 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
19992371 TGTAAAAGTG
*
19992381 AATATGT-AGGTATGTTTTTCATGCCAAGAGAAAGAA
1 AATATGTGA-GTATGTTTTTCATGCCATGAGAAAGAA
* * * * **
19992417 AATATTTGGGTATGTTCTTCATTCCATGAGACCGAA
1 AATATGTGAGTATGTTTTTCATGCCATGAGAAAGAA
*
19992453 AATATGTGAGTCTGTTTTTCATGCCATG
1 AATATGTGAGTATGTTTTTCATGCCATG
19992481 TGACTAATTA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (36 bp):
AATATGTGAGTATGTTTTTCATGCCATGAGAAAGAA
Found at i:19997054 original size:30 final size:26
Alignment explanation
Indices: 19997020--19997077 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 26
19997010 TTAATATTTA
19997020 CAATTTAATCCTAAACTTTGCAATTTCATT
1 CAATTTAATCC-AAAC-TTG-AATTTC-TT
*
19997050 CAATTTAGTCCAAACTTGAATTTCTT
1 CAATTTAATCCAAACTTGAATTTCTT
19997076 CA
1 CA
19997078 TGCTTACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 6 0.22
28 3 0.11
29 4 0.15
30 10 0.37
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (26 bp):
CAATTTAATCCAAACTTGAATTTCTT
Found at i:20000234 original size:17 final size:17
Alignment explanation
Indices: 20000184--20000234 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
20000174 TTAGAAGGTG
* *
20000184 ATCTTCGAAGGTATGTA
1 ATCTTAGAAGATATGTA
*
20000201 ATATTAGATATGATATGTA
1 ATCTTAGA-A-GATATGTA
20000220 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
20000235 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 14 0.50
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (17 bp):
ATCTTAGAAGATATGTA
Found at i:20000234 original size:22 final size:23
Alignment explanation
Indices: 20000206--20000250 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20000196 ATGTAATATT
20000206 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
20000228 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
20000251 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:20000260 original size:22 final size:23
Alignment explanation
Indices: 20000216--20000260 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20000206 AGATATGATA
*
20000216 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
20000239 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
20000261 GTAGATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:20009061 original size:21 final size:21
Alignment explanation
Indices: 20009037--20009085 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
20009027 GTGTTGTGAC
20009037 TGCATCTGA-TTCTGGTGAGGA
1 TGCATCTGACTT-TGGTGAGGA
* *
20009058 TGCATCTGACTTTGTTGTGGA
1 TGCATCTGACTTTGGTGAGGA
20009079 TGCATCT
1 TGCATCT
20009086 AAGTGTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (21 bp):
TGCATCTGACTTTGGTGAGGA
Found at i:20012088 original size:21 final size:21
Alignment explanation
Indices: 20012043--20012082 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20012033 GTCTATGGGA
20012043 GATGTCAATGAGAGGCTCAAT
1 GATGTCAATGAGAGGCTCAAT
*
20012064 GATGTCGATGA-AGGACTCA
1 GATGTCAATGAGAGG-CTCA
20012083 TCGATGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (21 bp):
GATGTCAATGAGAGGCTCAAT
Found at i:20018952 original size:21 final size:22
Alignment explanation
Indices: 20018909--20018953 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
20018899 TCATCACACC
**
20018909 ATAATTTTTATTAAGTAGTTAA
1 ATAATTTTTATTAAGTAACTAA
*
20018931 ATAA-TTTTATTAATTAACTAA
1 ATAATTTTTATTAAGTAACTAA
20018952 AT
1 AT
20018954 TTGTTAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATAATTTTTATTAAGTAACTAA
Found at i:20020828 original size:45 final size:45
Alignment explanation
Indices: 20020717--20020830 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
20020707 CTGCATATTG
* * * * *
20020717 ACATAAGTGAGCTATCGTTATCAGGCAACCCAGGGTTGCAATTCG
1 ACATAAGTGAGCTATCATTTTCGGGCAACCCAGGGTAGCAATTCA
* *
20020762 ACATAAGTGAGCTTTCATTTTCGGGCAACCCGGGGTAGCAATTCA
1 ACATAAGTGAGCTATCATTTTCGGGCAACCCAGGGTAGCAATTCA
* * *
20020807 ATATAAGTGAGCCATCTTTTTCGG
1 ACATAAGTGAGCTATCATTTTCGG
20020831 ATAGCCTGGG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (45 bp):
ACATAAGTGAGCTATCATTTTCGGGCAACCCAGGGTAGCAATTCA
Found at i:20021084 original size:19 final size:19
Alignment explanation
Indices: 20021042--20021102 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
20021032 GAGATATTAA
*
20021042 AATATGTGATATT--TGTG
1 AATATGTGAAATTGATGTG
20021059 AAATATGTGAAATTGATGTG
1 -AATATGTGAAATTGATGTG
* *
20021079 AATATGAGACATTGATGTG
1 AATATGTGAAATTGATGTG
20021098 AATAT
1 AATAT
20021103 CAAATGTGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.32
19 22 0.58
20 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (19 bp):
AATATGTGAAATTGATGTG
Found at i:20027139 original size:19 final size:18
Alignment explanation
Indices: 20027114--20027176 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
20027104 GATATTTTTG
20027114 GAATATGTGAAGTTGATGT
1 GAATATGTGAA-TTGATGT
* *
20027133 AAATATGTGGCATTGATGT
1 GAATATGT-GAATTGATGT
*
20027152 GAATATGTTAAATTGATGT
1 GAATATG-TGAATTGATGT
20027171 GAATAT
1 GAATAT
20027177 CAAATTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 34 0.92
20 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (18 bp):
GAATATGTGAATTGATGT
Found at i:20028302 original size:30 final size:28
Alignment explanation
Indices: 20028247--20028303 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
20028237 TGTTCACTTC
*
20028247 TCCCAGATTGATACCTATATCTTTTTTA
1 TCCCAGATTGATACCTAAATCTTTTTTA
*
20028275 TCCCAGATTGGTACCTAAACTTCTTTTTT
1 TCCCAGATTGATACCTAAA--TCTTTTTT
20028304 GTTCACTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.68
30 8 0.32
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (28 bp):
TCCCAGATTGATACCTAAATCTTTTTTA
Found at i:20029246 original size:40 final size:40
Alignment explanation
Indices: 20029179--20029256 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
20029169 AGATGACTAA
20029179 AATAATTTTTAACAAAAAATAAAAGAAAAAATAATTAAAAC
1 AATAATTTTTAACAAAAAATAAAAG-AAAAATAATTAAAAC
** * *
20029220 AATAATTTTTAA-GGAAAATGAAAGAAAAATGATTAAA
1 AATAATTTTTAACAAAAAATAAAAGAAAAATAATTAAA
20029257 GGTGTTTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 12 0.36
40 9 0.27
41 12 0.36
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (40 bp):
AATAATTTTTAACAAAAAATAAAAGAAAAATAATTAAAAC
Found at i:20031895 original size:17 final size:17
Alignment explanation
Indices: 20031873--20031906 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20031863 TGTTAGTAAG
*
20031873 CATTGTCGTTGCATTTT
1 CATTGTCATTGCATTTT
20031890 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
20031907 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.53
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:20050275 original size:14 final size:15
Alignment explanation
Indices: 20050256--20050289 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20050246 AACCAAGCAT
20050256 GATTTC-ACTAACTC
1 GATTTCTACTAACTC
*
20050270 GATTTCTTCTAACTC
1 GATTTCTACTAACTC
20050285 GATTT
1 GATTT
20050290 TTGGGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (15 bp):
GATTTCTACTAACTC
Found at i:20051130 original size:10 final size:10
Alignment explanation
Indices: 20051115--20051145 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
20051105 CAAAACCAAA
20051115 AATAATAAAT
1 AATAATAAAT
20051125 AATAATAAAT
1 AATAATAAAT
20051135 AATAAATAAAT
1 AAT-AATAAAT
20051146 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAATAAAT
Found at i:20052395 original size:30 final size:30
Alignment explanation
Indices: 20052354--20052452 Score: 121
Period size: 30 Copynumber: 3.3 Consensus size: 30
20052344 CCCTCGACCT
20052354 TTTCCAAAAATTATGTTTTAA-CCCTCAAAC
1 TTTCCAAAAATTATGTTTTAACCCCT-AAAC
*
20052384 TTTCTAAAAATTATGTTTTAACCCCTAAAC
1 TTTCCAAAAATTATGTTTTAACCCCTAAAC
*** *
20052414 TTTCCAAAAATTCA-AAATTAGCCCCTAAAC
1 TTTCCAAAAATT-ATGTTTTAACCCCTAAAC
20052444 TTTCCAAAA
1 TTTCCAAAA
20052453 TTTTATTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 56 0.92
31 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTCCAAAAATTATGTTTTAACCCCTAAAC
Done.