Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 45 of 50
Found at i:18693821 original size:23 final size:22
Alignment explanation
Indices: 18693783--18693847 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
18693773 GTGACAAGAT
18693783 ATGGTGAGAATTTGTGACATGGC
1 ATGGTGA-AATTTGTGACATGGC
* *
18693806 ATGTTGAAATTGTGTGAGATGGC
1 ATGGTGAAATT-TGTGACATGGC
*
18693829 ATGGTGAACATATGTGACA
1 ATGGTGAA-ATTTGTGACA
18693848 CGATAGGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 29 0.83
24 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (22 bp):
ATGGTGAAATTTGTGACATGGC
Found at i:18693822 original size:93 final size:93
Alignment explanation
Indices: 18693632--18693801 Score: 232
Period size: 93 Copynumber: 1.8 Consensus size: 93
18693622 ATGACTCGGT
* * * * * *
18693632 TGTGACACGGTAGGGTTTAGAGTTCGTGACACACCGTGGAGGGAATCTGTGACACGGCAGGGTGA
1 TGTGACACGGTAGGGCTTAGACTTCGTGACACACCATGGAGGGAATATGTGACAAGACAGGGTGA
*
18693697 GAATGTGTGAGACGACATTGTGAGAATG
66 GAATGTGTGACACGACATTGTGAGAATG
* * * *
18693725 TGTGACACGGTAGGGCTTAGACTTTGTGACACACCATGGTGGGAATATGTGACAAGATATGGTGA
1 TGTGACACGGTAGGGCTTAGACTTCGTGACACACCATGGAGGGAATATGTGACAAGACAGGGTGA
*
18693790 GAATTTGTGACA
66 GAATGTGTGACA
18693802 TGGCATGTTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 65 1.00
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.25
Consensus pattern (93 bp):
TGTGACACGGTAGGGCTTAGACTTCGTGACACACCATGGAGGGAATATGTGACAAGACAGGGTGA
GAATGTGTGACACGACATTGTGAGAATG
Found at i:18694040 original size:23 final size:23
Alignment explanation
Indices: 18693958--18694041 Score: 57
Period size: 23 Copynumber: 3.7 Consensus size: 23
18693948 GTTTAGAGTT
* *
18693958 TGTGACACACCATGGTG-GAAATG
1 TGTGACACGCCATGGTGAG-AATC
* * * *
18693981 TGTGGCATGGCATGTTGA-AATC
1 TGTGACACGCCATGGTGAGAATC
*
18694003 GTGTGAGACAG-CATGGTGAGAATC
1 -TGTGACAC-GCCATGGTGAGAATC
18694027 TGTGACACGCCATGG
1 TGTGACACGCCATGG
18694042 CTTGAATATG
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
22 4 0.09
23 36 0.80
24 5 0.11
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (23 bp):
TGTGACACGCCATGGTGAGAATC
Found at i:18694048 original size:23 final size:23
Alignment explanation
Indices: 18694022--18694093 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
18694012 AGCATGGTGA
*
18694022 GAATCTGTGACACGCCATGGCTT
1 GAATATGTGACACGCCATGGCTT
** *
18694045 GAATATGTGACATTCCATAGCTT
1 GAATATGTGACACGCCATGGCTT
*
18694068 GAATATGTGACACGCCATGGTTT
1 GAATATGTGACACGCCATGGCTT
18694091 GAA
1 GAA
18694094 ATAGAAAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (23 bp):
GAATATGTGACACGCCATGGCTT
Found at i:18694056 original size:209 final size:209
Alignment explanation
Indices: 18693632--18694041 Score: 464
Period size: 209 Copynumber: 2.0 Consensus size: 209
18693622 ATGACTCGGT
* * * * * * **
18693632 TGTGACACGGTAGGGTTTAGAGTTCGTGACACACCGTGGAGGGAATCTGTGACACGGCAGGGTGA
1 TGTGACACGATAGGGTTCAGAGTTCGTGACACACCATGAAAGGAATCTATGACACGGCAAAGTGA
** * ***
18693697 GAATGTGTGAGACGACATTGTGAGAATGTGTGACACGGTAGGGCTTAGACTTTGTGACACACCAT
66 GAATGTGTGAGACGACACAGTGAGAATATGTGACACAACAGGGCTTAGACTTTGTGACACACCAT
* * * ** * * * *
18693762 GGTGGGAATATGTGACAAGATATGGTGAGAATTTGTGACATGGCATGTTGAAATTGTGTGAGATG
131 GGTGGAAATATGTGACAAGACATGGTGAGAATGTGTGACACAGCATGGTGAAATTCTGTGACACG
*
18693827 GCATGGTGAACATA
196 CCATGGTGAACATA
* ** *
18693841 TGTGACACGATAGGGTTCAGAGTTTGTGACATGCCATGAAAGGAATCTATGACACGGTAAAGTGA
1 TGTGACACGATAGGGTTCAGAGTTCGTGACACACCATGAAAGGAATCTATGACACGGCAAAGTGA
* *
18693906 GAATGTGTGAGACGACACAGTGAGAATATGTGACACAACAGGGTTTAGAGTTTGTGACACACCAT
66 GAATGTGTGAGACGACACAGTGAGAATATGTGACACAACAGGGCTTAGACTTTGTGACACACCAT
* * * * * *
18693971 GGTGGAAATGTGTGGCATGGCATGTTGA-AATCGTGTGAGACAGCATGGTGAGAA-TCTGTGACA
131 GGTGGAAATATGTGACAAGACATGGTGAGAAT-GTGTGACACAGCATGGTGA-AATTCTGTGACA
18694034 CGCCATGG
194 CGCCATGG
18694042 CTTGAATATG
Statistics
Matches: 163, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
208 3 0.02
209 158 0.97
210 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (209 bp):
TGTGACACGATAGGGTTCAGAGTTCGTGACACACCATGAAAGGAATCTATGACACGGCAAAGTGA
GAATGTGTGAGACGACACAGTGAGAATATGTGACACAACAGGGCTTAGACTTTGTGACACACCAT
GGTGGAAATATGTGACAAGACATGGTGAGAATGTGTGACACAGCATGGTGAAATTCTGTGACACG
CCATGGTGAACATA
Found at i:18694782 original size:87 final size:87
Alignment explanation
Indices: 18694637--18694797 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
18694627 GCGTGTCACT
* ** * * *
18694637 ACATTGGGTATTTTAGAGCAGTTTGTGTAACGAGTTAGTAATTATAGTGATTGGCGTGTCACGAC
1 ACATTGGGTATTTTAGAGCAGTTCGTGTAACGAGACAATAATTATAGTAATTGACGTGTCACGAC
*
18694702 ATGGCATGGTTGGCGTGTCGTC
66 ACGGCATGGTTGGCGTGTCGTC
* *
18694724 ACATTGGGTATTTTA-AGGCAGTTCGTGTAATGGGACAATAATTATAGTAATTGACGTGTCACGA
1 ACATTGGGTATTTTAGA-GCAGTTCGTGTAACGAGACAATAATTATAGTAATTGACGTGTCACGA
18694788 CACGGCATGG
65 CACGGCATGG
18694798 CTCAACGTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.02
87 63 0.98
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (87 bp):
ACATTGGGTATTTTAGAGCAGTTCGTGTAACGAGACAATAATTATAGTAATTGACGTGTCACGAC
ACGGCATGGTTGGCGTGTCGTC
Found at i:18694844 original size:30 final size:30
Alignment explanation
Indices: 18694808--18694916 Score: 101
Period size: 31 Copynumber: 3.6 Consensus size: 30
18694798 CTCAACGTTG
*
18694808 GCATGTAACAACATTTGACTTGGTATCTTA
1 GCATGTAACAACATTTGACTTGGTATCATA
* * *
18694838 GCATGTAACAGCATTTTACTTAGTATGCATA
1 GCATGTAACAACATTTGACTTGGTAT-CATA
** * * *
18694869 GTGTGTAACGACATTTTACTTGGTACGCATA
1 GCATGTAACAACATTTGACTTGGTA-TCATA
* *
18694900 ACGTGTAACAACATTTG
1 GCATGTAACAACATTTG
18694917 TTTCTTTCTT
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 23 0.37
31 40 0.63
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (30 bp):
GCATGTAACAACATTTGACTTGGTATCATA
Found at i:18696617 original size:151 final size:151
Alignment explanation
Indices: 18696430--18696737 Score: 395
Period size: 151 Copynumber: 2.0 Consensus size: 151
18696420 GACAGCTCCA
* * * * * *
18696430 CAACGATCAAGAGGTCATTCTCAAATGCATAGTGCTAACAAGCCG-TCGGTAAGAATGGTTCTAA
1 CAACCATCAAGAGGTCATCCTCAAACGCATAATGCTAACAAGCCGCT-AGTAAGAATAGTTCTAA
*
18696494 CGATTTGTGGTCAATATTTTCACATATATTTATCAAATAACATAGTAATATT-TGTTATTGCAGT
65 CGATTTGTGGTCAATATTTTCACATATATTTATCAAATAACATAGTAAT-TTCTGTTATTACAGT
*
18696558 TGATAGAGGCGACGATAGATCCT
129 TGACAGAGGCGACGATAGATCCT
* * * * *
18696581 CAACCATCAAGAGGTCCTCCTCAGACGTATAATGCTAACCAGCCGCTAGTAAGAATAGTTCTAAT
1 CAACCATCAAGAGGTCATCCTCAAACGCATAATGCTAACAAGCCGCTAGTAAGAATAGTTCTAAC
* * * **
18696646 GGTTTGTGTTCAATATTTTCACATATGTTTATTGAATAACATAGTAATTTCTGTTATTACAGTTG
66 GATTTGTGGTCAATATTTTCACATATATTTATCAAATAACATAGTAATTTCTGTTATTACAGTTG
* * *
18696711 ACAGAGGTGATGATAGCTCCT
131 ACAGAGGCGACGATAGATCCT
18696732 CAACCA
1 CAACCA
18696738 CCAACCAGTC
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
150 2 0.01
151 131 0.98
152 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (151 bp):
CAACCATCAAGAGGTCATCCTCAAACGCATAATGCTAACAAGCCGCTAGTAAGAATAGTTCTAAC
GATTTGTGGTCAATATTTTCACATATATTTATCAAATAACATAGTAATTTCTGTTATTACAGTTG
ACAGAGGCGACGATAGATCCT
Found at i:18696776 original size:151 final size:150
Alignment explanation
Indices: 18696464--18696868 Score: 384
Period size: 151 Copynumber: 2.6 Consensus size: 150
18696454 ATGCATAGTG
* * * * * * **
18696464 CTAACAAGCCGTCGGTAAGAATGGTTCTAACGATTTGTGGTCAATATTTTCACATATATTTATCA
1 CTAACCAGCCGTCAGTAAGAATAGTTCTAACGGTTTGTGTTCAATATTTTCACATATGTTTATTG
* * *
18696529 AATAACATAGTAATATTTGTTATTGCAGTTGATAGAGGCGACGATAGATCCTCAACCATCAAGAG
66 AATAACATAGTAAT-TTTGTTATTGCAGTTGACAGAGGCGACGATAGATCCTCAACCACCAACAG
* * *
18696594 GTCCTCCTCAGACGTATAATG
130 GTCCTCCTCAGACGCACAATA
*
18696615 CTAACCAGCCG-CTAGTAAGAATAGTTCTAATGGTTTGTGTTCAATATTTTCACATATGTTTATT
1 CTAACCAGCCGTC-AGTAAGAATAGTTCTAACGGTTTGTGTTCAATATTTTCACATATGTTTATT
* * * *
18696679 GAATAACATAGTAATTTCTGTTATTACAGTTGACAGAGGTGATGATAGCTCCTCAACCACCAACC
65 GAATAACATAGTAATTT-TGTTATTGCAGTTGACAGAGGCGACGATAGATCCTCAACCACCAA-C
* * *
18696744 A-GTCTTGCTTA-ATCGCACAATA
128 AGGTCCTCCTCAGA-CGCACAATA
** * * * * * * *
18696766 CTAATGAGCCGTCAATAAGGATATTAAAGTTCTAACGGTTTATATTCAATAATTCCATATATGGT
1 CTAACCAGCCGTCAGTAA-GA-A-T--AGTTCTAACGGTTTGTGTTCAATATTTTCACATATGTT
* * *
18696831 TATTGAATAACACAGTAATATATGTTATTGTAGTTGAC
61 TATTGAATAACATAGTAAT-TTTGTTATTGCAGTTGAC
18696869 CTATTCGACA
Statistics
Matches: 207, Mismatches: 36, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
150 4 0.02
151 133 0.64
152 4 0.02
153 1 0.00
154 1 0.00
156 63 0.30
157 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (150 bp):
CTAACCAGCCGTCAGTAAGAATAGTTCTAACGGTTTGTGTTCAATATTTTCACATATGTTTATTG
AATAACATAGTAATTTTGTTATTGCAGTTGACAGAGGCGACGATAGATCCTCAACCACCAACAGG
TCCTCCTCAGACGCACAATA
Found at i:18699230 original size:31 final size:31
Alignment explanation
Indices: 18699187--18699247 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
18699177 GTGGCATGTT
* *
18699187 ACCCCATAATACTGCAACCACTCAGCGTGTC
1 ACCCCATAATACTACAACCACTCAACGTGTC
*
18699218 ACCCTATAATACTACAACCACTCAACGTGT
1 ACCCCATAATACTACAACCACTCAACGTGT
18699248 GAGCATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.36, G:0.10, T:0.21
Consensus pattern (31 bp):
ACCCCATAATACTACAACCACTCAACGTGTC
Found at i:18699298 original size:107 final size:106
Alignment explanation
Indices: 18699106--18699326 Score: 300
Period size: 107 Copynumber: 2.1 Consensus size: 106
18699096 AGTAAGCGTG
* *
18699106 GTGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCATAAAATGTCATTGACATCTAACAAT
1 GTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATTGACATCTAACAAT
* *
18699171 TGAGGCGTGGCATGTTACCCCATAATACTGCAACCACTCAGC
66 TGAGGCGTGGCATGTCACCCCATAA-ACTACAACCACTCAGC
* * * *
18699213 GTGTCACCCTATAATACTACAACCACTCAACGTGTGAGCATAAGATGTCATTGACATCTAACAAT
1 GTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATTGACATCTAACAAT
** * **
18699278 TG-GGTTTTGGCGTGTCACCCCATAAACTATTACCACTCAGC
66 TGAGG-CGTGGCATGTCACCCCATAAACTACAACCACTCAGC
18699319 GTGTCACC
1 GTGTCACC
18699327 ATAAAATGTC
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 23 0.23
107 77 0.77
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (106 bp):
GTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATTGACATCTAACAAT
TGAGGCGTGGCATGTCACCCCATAAACTACAACCACTCAGC
Found at i:18699336 original size:75 final size:76
Alignment explanation
Indices: 18699211--18699355 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 76
18699201 CAACCACTCA
* * * * *
18699211 GCGTGTCACCCTATAATACTACAACCACTCAACGTGTGAGCATAAGATGTCATTGACATCTAACA
1 GCGTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATCGACATCTAACA
18699276 ATTGGGTTTTG
66 ATTGGGTTTTG
** * *
18699287 GCGTGTCACCCCATAA-ACTATTACCACTCAGCGTGTCACCATAAAATGTCATCGACATCTAATA
1 GCGTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATCGACATCTAACA
18699351 ATTGG
66 ATTGG
18699356 AGCGTGTGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 45 0.75
76 15 0.25
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (76 bp):
GCGTGTCACCCCATAATACTACAACCACTCAACGTGTCACCATAAAATGTCATCGACATCTAACA
ATTGGGTTTTG
Found at i:18703239 original size:23 final size:23
Alignment explanation
Indices: 18703184--18703357 Score: 142
Period size: 23 Copynumber: 7.7 Consensus size: 23
18703174 TCAGTCATGT
* * *
18703184 TGTTACATGCCATTTTTAAAAAA
1 TGTTACACGCCATGTTCAAAAAA
* * *
18703207 TCTTATACGCTATGTTCAAAAAA
1 TGTTACACGCCATGTTCAAAAAA
18703230 TGTTACACGCCATGTTC-AAAAA
1 TGTTACACGCCATGTTCAAAAAA
**
18703252 TGTTACACGTTACT-TTC-AAAAA
1 TGTTACACGCCA-TGTTCAAAAAA
* * * *
18703274 TGTTACACG-TAAGTTC-TAAAT
1 TGTTACACGCCATGTTCAAAAAA
* * *
18703295 TGTTACATGCCATGTTCACAACA
1 TGTTACACGCCATGTTCAAAAAA
*
18703318 TGTTACACGCCATATTCAATAAAA
1 TGTTACACGCCATGTTCAA-AAAA
18703342 CTGTTACACGCCATGT
1 -TGTTACACGCCATGT
18703358 GCTAACACAT
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
21 16 0.13
22 37 0.31
23 50 0.42
24 3 0.03
25 14 0.12
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (23 bp):
TGTTACACGCCATGTTCAAAAAA
Found at i:18703251 original size:46 final size:44
Alignment explanation
Indices: 18703184--18703282 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
18703174 TCAGTCATGT
* * * *
18703184 TGTTACATGCCATTTTTAAAAAATCTTATACGCTA-TGTTCAAAAAA
1 TGTTACACGCCA-TGTTCAAAAATCTTACACGCTACT-TTC-AAAAA
* *
18703230 TGTTACACGCCATGTTCAAAAATGTTACACGTTACTTTCAAAAA
1 TGTTACACGCCATGTTCAAAAATCTTACACGCTACTTTCAAAAA
18703274 TGTTACACG
1 TGTTACACG
18703283 TAAGTTCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 14 0.30
45 20 0.43
46 12 0.26
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (44 bp):
TGTTACACGCCATGTTCAAAAATCTTACACGCTACTTTCAAAAA
Found at i:18704428 original size:17 final size:16
Alignment explanation
Indices: 18704406--18704455 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
18704396 AACTAATTTT
18704406 TATATATTTATATACTA
1 TATATATTTATATA-TA
*
18704423 TATATATTAATATATA
1 TATATATTTATATATA
*
18704439 TA-ATATTT-TTTATA
1 TATATATTTATATATA
18704453 TAT
1 TAT
18704456 TAAGAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 4 0.14
17 13 0.45
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:18704787 original size:21 final size:21
Alignment explanation
Indices: 18704763--18704815 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
18704753 TATAAATATA
* *
18704763 TTATATATACATGTA-TTTAAT
1 TTATATAAACAT-TACTATAAT
18704784 TTATATAAACATTACTATAAT
1 TTATATAAACATTACTATAAT
18704805 TTATAATAAAC
1 TTAT-ATAAAC
18704816 TTTATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 20 0.71
22 6 0.21
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATATAAACATTACTATAAT
Found at i:18704958 original size:2 final size:2
Alignment explanation
Indices: 18704951--18705007 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
18704941 TATTAATTTC
* *
18704951 AT AT AT AT AT AT AT AT AT A- AT A- AA AT CGT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
*
18704991 AT -T AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT
18705008 TTAATTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
1 4 0.09
2 40 0.89
3 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18728092 original size:19 final size:19
Alignment explanation
Indices: 18728068--18728104 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18728058 CTTCTAAACT
18728068 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
18728087 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
18728105 AGTCAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:18730762 original size:19 final size:19
Alignment explanation
Indices: 18730735--18730772 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18730725 CCATTTGACT
18730735 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
18730754 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
18730773 GTTTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:18734943 original size:19 final size:19
Alignment explanation
Indices: 18734915--18734952 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18734905 CCATTTGACT
*
18734915 TATTGGAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
18734934 TATTGAAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
18734953 GTTTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGAAGTATGATTTGAG
Found at i:18736203 original size:13 final size:13
Alignment explanation
Indices: 18736185--18736209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18736175 GGAAAAATTG
18736185 TGATTTTATAAAA
1 TGATTTTATAAAA
18736198 TGATTTTATAAA
1 TGATTTTATAAA
18736210 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18741121 original size:13 final size:13
Alignment explanation
Indices: 18741099--18741128 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18741089 TGATTTTAAC
18741099 CTAT-TACACTAT
1 CTATATACACTAT
18741111 CTATATACACTAT
1 CTATATACACTAT
18741124 CTATA
1 CTATA
18741129 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (13 bp):
CTATATACACTAT
Found at i:18741655 original size:25 final size:26
Alignment explanation
Indices: 18741598--18741670 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
18741588 TAAATATATT
* * * *
18741598 TTTAATGTCATATTTTTTATTTTTTA
1 TTTAATCTTATATATTTTATTTTTCA
18741624 TTATAATCTTATATATTTTA-TTTTCA
1 TT-TAATCTTATATATTTTATTTTTCA
18741650 TTTAATTCTTAATATAATTTT
1 TTTAA-TCTT-ATAT-ATTTT
18741671 TTATATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.08
26 13 0.33
27 18 0.46
28 5 0.13
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTAATCTTATATATTTTATTTTTCA
Found at i:18741664 original size:27 final size:27
Alignment explanation
Indices: 18741607--18741670 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
18741597 TTTTAATGTC
* *
18741607 ATATTTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTCATTATAATCTT
18741634 ATATATTTTA-TTTTCATT-TAATTCTT
1 ATATATTTTATTTTTCATTATAA-TCTT
18741660 AATATAATTTT
1 -ATAT-ATTTT
18741671 TTATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 3 0.09
26 11 0.34
27 13 0.41
28 5 0.16
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (27 bp):
ATATATTTTATTTTTCATTATAATCTT
Found at i:18743996 original size:653 final size:652
Alignment explanation
Indices: 18742753--18744708 Score: 3524
Period size: 652 Copynumber: 3.0 Consensus size: 652
18742743 AATAATTTAA
* **
18742753 TTCGATTTGAAGTGAGAGTTCGGACAGTTTGATTTGAAATTTGAATTTTTTTTAAAAAAAAAAGG
1 TTCGATTTGACGTGAGAGTTCGGACAGTTTGATTTGAAATTTGAATTTTTTTT-TGAAAAAAAGG
*
18742818 TAGAGAGATTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTG
65 TAGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTG
18742883 ATTTATATAGAGCTGGAAATGAATAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTC
130 ATTTATATAGAGCTGGAAATGAATAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTC
* * *
18742948 TATTGAAAAAGATATTCCAACGATTTTTATAAGATTGTTAGACTTAAGAAATCCGACCGGTATG-
195 TATTGAGAAAGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCCGACCGGTATGT
18743012 TTTTCTAAAAAGTGTTTTAGAA-TTATATTATTTATATTAATATTATATATTAGT-TTTTTTGAA
260 TTTTCTAAAAAGTGTTTTA-AAGTTATATTATTTATATTAATATTATATATTAGTGTTTTTTGAA
*
18743075 GAAAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTAGAT
324 GAAAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGAT
*
18743140 GTGACAAGCAAAAATGTAAAAAAGAAAAAATCAATTCTACATGGAAGAGATATCGGTTCTTGAAG
389 GTGACAAGCAAAAATGTAAAAAAGAAAAAATCGATTCTACATGGAAGAGATATCGGTTCTTGAAG
18743205 CATCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGA
454 CATCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGA
*
18743270 GCGGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAAATCATAGTGAAAAACCGACACCTTAAG
519 GCGGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAGATCATAGTGAAAAACCGACACCTTAAG
18743335 GCAAAAGAATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAA
584 GCAAAAGAATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAA
18743400 CACC
649 CACC
*
18743404 TTCGATTTGACGTGAGAGTTCGGACAGTTTGATTTAAAATTTGAATTTTTTTTTGAAAAAATAGG
1 TTCGATTTGACGTGAGAGTTCGGACAGTTTGATTTGAAATTTGAATTTTTTTTTGAAAAAA-AGG
* *
18743469 TAGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCAATAAGTTAGGTATTTCATAGTTGTTTG
65 TAGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTG
* *
18743534 ATTTATATAGAGTTGGAAATGAATAAAGCAACCCAAATTTACATATTTTAGGCTTCACCATTCTC
130 ATTTATATAGAGCTGGAAATGAATAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTC
*
18743599 TATTGAGAAAGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCTGACCGGTATGT
195 TATTGAGAAAGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCCGACCGGTATGT
18743664 TTTTCTAAAAAGTGTTTTAAAGTTATATTATTTATATTAATATTATATATTAGTGTTTTTTGAAG
260 TTTTCTAAAAAGTGTTTTAAAGTTATATTATTTATATTAATATTATATATTAGTGTTTTTTGAAG
*
18743729 AAAAATATATTTTTTTAAGTCGAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGATG
325 AAAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGATG
* *
18743794 TGACAAGAAAAAATGTAAAAAAGAAAAAACCGATTCTACATGGAAGAGATATCGGTTCTTGAAGC
390 TGACAAGCAAAAATGTAAAAAAGAAAAAATCGATTCTACATGGAAGAGATATCGGTTCTTGAAGC
18743859 ATCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGAG
455 ATCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGAG
* * * *
18743924 CGGCAAAAATAAGCTTAAATTCAAATTTTGGTGCTAGACCATAGTGAAAAATCGACATCTTAAGG
520 CGGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAGATCATAGTGAAAAACCGACACCTTAAGG
*
18743989 CAAAAGAATCGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAAC
585 CAAAAGAATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAAC
18744054 ACC
650 ACC
* *
18744057 TTCGATTTGACATGAGAGTTTGGACAGTTTGATTTGAAATTTGAATTTTTTTTTGAAAAAAAGGT
1 TTCGATTTGACGTGAGAGTTCGGACAGTTTGATTTGAAATTTGAATTTTTTTTTGAAAAAAAGGT
18744122 AGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTGA
66 AGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTGA
* *
18744187 TTTATATAGAGCTAGAAATGAGTAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTCT
131 TTTATATAGAGCTGGAAATGAATAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTCT
* * * *
18744252 ATTGAGAAGGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCCGACTGATATGTG
196 ATTGAGAAAGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCCGACCGGTATGTT
*
18744317 TTTCTAAAAAGTGTTTTAAAGTTATATTAGTTATATTAATATTATATATTAGTGTTTTTTGAAGA
261 TTTCTAAAAAGTGTTTTAAAGTTATATTATTTATATTAATATTATATATTAGTGTTTTTTGAAGA
18744382 AAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGATGT
326 AAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGATGT
*
18744447 GACAAGCAAAAATGTAAAAAAGAAAAAATCGATTCTACATGGAAGAGATATTGGTTCTTGAAGCA
391 GACAAGCAAAAATGTAAAAAAGAAAAAATCGATTCTACATGGAAGAGATATCGGTTCTTGAAGCA
* *
18744512 TCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAG-TGGTGCAGTTAGACAAGAGTGGAGT
456 TCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGAGC
18744576 GGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAGATCATAGTGAAAAACCGACACCTTAAGGC
521 GGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAGATCATAGTGAAAAACCGACACCTTAAGGC
*
18744641 AAAAGCATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAACA
586 AAAAGAATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAACA
18744706 CC
651 CC
18744708 T
1 T
18744709 CAAAATAGAA
Statistics
Matches: 1250, Mismatches: 51, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
650 6 0.00
651 391 0.31
652 468 0.37
653 385 0.31
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (652 bp):
TTCGATTTGACGTGAGAGTTCGGACAGTTTGATTTGAAATTTGAATTTTTTTTTGAAAAAAAGGT
AGAGAGCTTTTATTAATTATTAATCAATAAAAGCTCGATAAGTTAGGTATTTCATAGCTGTTTGA
TTTATATAGAGCTGGAAATGAATAAAGCAACCCAAATCTACATATTTTAGGCTTCACCATTCTCT
ATTGAGAAAGATATTCCAACGATTTTCATAGGATTGTTAGACTTAAGAAATCCGACCGGTATGTT
TTTCTAAAAAGTGTTTTAAAGTTATATTATTTATATTAATATTATATATTAGTGTTTTTTGAAGA
AAAATATATTTTTTTAAGTCTAACAGGAATGAAAATCATGAATTAGTATTACATTGGTTGGATGT
GACAAGCAAAAATGTAAAAAAGAAAAAATCGATTCTACATGGAAGAGATATCGGTTCTTGAAGCA
TCAAAAGTATAATTTAAAAACTTGGTGACCAAGAAAGAGATGGTGCAGTTGGACAAGAGTGGAGC
GGCAAAAATAAGCTTAAATTCAAATTTTGGTGCCAGATCATAGTGAAAAACCGACACCTTAAGGC
AAAAGAATTGATTCTCCAATATTACAAAGGTTTCATCTTTGAACCTAGTTGTAGAAAAACCAACA
CC
Found at i:18745341 original size:35 final size:35
Alignment explanation
Indices: 18745302--18745368 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
18745292 AGGTTATGCC
* *
18745302 TGATCCTATAAAAAGCATATTGTAGAGGTTACACT
1 TGATCCTACAAAAAGCATATTGTAAAGGTTACACT
* * *
18745337 TGATCCTGCAGAAGGCATATTGTAAAGGTTAC
1 TGATCCTACAAAAAGCATATTGTAAAGGTTAC
18745369 GCCTAATCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (35 bp):
TGATCCTACAAAAAGCATATTGTAAAGGTTACACT
Found at i:18766305 original size:2 final size:2
Alignment explanation
Indices: 18766298--18766336 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18766288 TGTTGACCTT
18766298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18766337 TGTNTTACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18766825 original size:543 final size:544
Alignment explanation
Indices: 18765797--18766884 Score: 2153
Period size: 543 Copynumber: 2.0 Consensus size: 544
18765787 AATTGATGTT
18765797 TTTACTCACCTTGACAAAAGCGTGCTTCTAAGCTTTGCTTCATTAAACCTCACTCGTTTTACAAT
1 TTTACTCACCTTGACAAAAGCGTGCTTCTAAGCTTTGCTTCATTAAACCTCACTCGTTTTACAAT
18765862 TCATGAGCTCAACATAACCTAACATAACAATTTCTAATATAAATTTCTTATCTTTCCAACAAACC
66 TCATGAGCTCAACATAACCTAACATAACAATTTCTAATATAAATTTCTTATCTTTCCAACAAACC
18765927 CATTTATTCAAAACTAACCGATTAAACTCATATTTTCATTTCAAACCAATAATCCACAAGTACTT
131 CATTTATTCAAAACTAACCGATTAAACTCATATTTTCATTTCAAACCAATAATCCACAAGTACTT
18765992 TAAACTTAAATCATATATAATGAAACCTTAATCATTCTTACCTCCACAACTTTGTTGAAGAATAA
196 TAAACTTAAATCATATATAATGAAACCTTAATCATTCTTACCTCCACAACTTTGTTGAAGAATAA
18766057 AAACTCCCAAATTCCTAGCTCAAATTCGAGCTAAAATAGCTAAAAATAATAGATTCCTAGAGTTA
261 AAACTCCCAAATTCCTAGCTCAAATTCGAGCTAAAATAGCTAAAAATAATAGATTCCTAGAGTTA
18766122 GGCACAAATTTGTGATTAAAATCCAATAATTATAAATCTTACTTTAGATTTAAGTTTGGAAGGTT
326 GGCACAAATTTGTGATTAAAATCCAATAATTATAAATCTTACTTTAGATTTAAGTTTGGAAGGTT
18766187 GAATCCTAGTCCAATGGGGATTTGAGAGGTTGGGAAAGGGTTTGGTGGTTGTTGGGGATGAGTTG
391 GAATCCTAGTCCAATGGGGATTTGAGAGGTTGGGAAAGGGTTTGGTGGTTGTTGGGGATGAGTTG
18766252 GAGGCTAAGAAAATGAAACATGAAGGCTAGGGCTCGTGTTGACC-T-TTATATATATATATATAT
456 GAGGCTAAGAAAATGAAACATGAAGGCTAGGGCTCGTGTTGACCTTCTTATATATATATATATAT
18766315 ATATATATATATATATATATATTG
521 ATATATATATATATATATATATTG
18766339 TNTTACTCACCTTGACAAAAGCGTGCTTCTAAGCTTTGCTTCATTAAACCTCACTCGTTTTACAA
1 T-TTACTCACCTTGACAAAAGCGTGCTTCTAAGCTTTGCTTCATTAAACCTCACTCGTTTTACAA
18766404 TTCATGAGCTCAACATAACCTAACATAACAATTTCTAATATAAATTTCTTATCTTTCCAACAAAC
65 TTCATGAGCTCAACATAACCTAACATAACAATTTCTAATATAAATTTCTTATCTTTCCAACAAAC
18766469 CCATTTATTCAAAACTAACCGATTAAACTCATATTTTCATTTCAAACCAATAATCCACAAGTACT
130 CCATTTATTCAAAACTAACCGATTAAACTCATATTTTCATTTCAAACCAATAATCCACAAGTACT
18766534 TTAAACTTAAATCATATATAATGAAACCTTAATCATTCTTACCTCCACAACTTTGTTGAAGAATA
195 TTAAACTTAAATCATATATAATGAAACCTTAATCATTCTTACCTCCACAACTTTGTTGAAGAATA
18766599 AAAACTCCCAAATTCCTAGCTCAAATTCGAGCTAAAATAGCTAAAAATAATAGATTCCTAGAGTT
260 AAAACTCCCAAATTCCTAGCTCAAATTCGAGCTAAAATAGCTAAAAATAATAGATTCCTAGAGTT
18766664 AGGCACAAATTTGTGATTAAAATCCAATAATTATAAATCTTACTTTAGATTTAAGTTTGGAAGGT
325 AGGCACAAATTTGTGATTAAAATCCAATAATTATAAATCTTACTTTAGATTTAAGTTTGGAAGGT
18766729 TGAATCCTAGTCCAATGGGGATTTGAGAGGTTGGGAAAGGGTTTGGTGGTTGTTGGGGATGAGTT
390 TGAATCCTAGTCCAATGGGGATTTGAGAGGTTGGGAAAGGGTTTGGTGGTTGTTGGGGATGAGTT
18766794 GGAGGCTAAGAAAATGAAACATGAAGGCTAGGGCTCGTGTTGACCTTCTTATATATATATATATA
455 GGAGGCTAAGAAAATGAAACATGAAGGCTAGGGCTCGTGTTGACCTTCTTATATATATATATATA
18766859 TATATATATATATATATATATATTG
520 TATATATATATATATATATATATTG
18766884 T
1 T
18766885 CAAAAGGTGC
Statistics
Matches: 543, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
542 1 0.00
543 498 0.92
544 1 0.00
545 43 0.08
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (544 bp):
TTTACTCACCTTGACAAAAGCGTGCTTCTAAGCTTTGCTTCATTAAACCTCACTCGTTTTACAAT
TCATGAGCTCAACATAACCTAACATAACAATTTCTAATATAAATTTCTTATCTTTCCAACAAACC
CATTTATTCAAAACTAACCGATTAAACTCATATTTTCATTTCAAACCAATAATCCACAAGTACTT
TAAACTTAAATCATATATAATGAAACCTTAATCATTCTTACCTCCACAACTTTGTTGAAGAATAA
AAACTCCCAAATTCCTAGCTCAAATTCGAGCTAAAATAGCTAAAAATAATAGATTCCTAGAGTTA
GGCACAAATTTGTGATTAAAATCCAATAATTATAAATCTTACTTTAGATTTAAGTTTGGAAGGTT
GAATCCTAGTCCAATGGGGATTTGAGAGGTTGGGAAAGGGTTTGGTGGTTGTTGGGGATGAGTTG
GAGGCTAAGAAAATGAAACATGAAGGCTAGGGCTCGTGTTGACCTTCTTATATATATATATATAT
ATATATATATATATATATATATTG
Found at i:18766850 original size:2 final size:2
Alignment explanation
Indices: 18766843--18766881 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18766833 TTGACCTTCT
18766843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18766882 TGTCAAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18773731 original size:33 final size:32
Alignment explanation
Indices: 18773692--18773793 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 32
18773682 TTAATGTGGC
*
18773692 TTGTGCTTGCTCTCGTGAAAAGCCAATTGTAGG
1 TTGTGCTTACTCTCGTGAAAAG-CAATTGTAGG
* * *
18773725 TTGTGCTTTCTCTTGTGAGAAAGCAATTGTATG
1 TTGTGCTTACTCTCGTGA-AAAGCAATTGTAGG
* *
18773758 TTGTGCTTACT-TCCATGAAAAGGCAATTGTGGG
1 TTGTGCTTACTCT-CGTGAAAA-GCAATTGTAGG
18773791 TTG
1 TTG
18773794 CACTTAAGCC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
32 4 0.07
33 50 0.86
34 4 0.07
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (32 bp):
TTGTGCTTACTCTCGTGAAAAGCAATTGTAGG
Found at i:18780025 original size:19 final size:19
Alignment explanation
Indices: 18780001--18780038 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18779991 CTGCCAAACC
*
18780001 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
18780020 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18780039 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:18791209 original size:26 final size:26
Alignment explanation
Indices: 18791123--18791214 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 26
18791113 TTCTTTATAG
18791123 GCATTACGTGACTGAATATATGTTGA
1 GCATTACGTGACTGAATATATGTTGA
* * *
18791149 GCATTACGTGGCAGTTAATACATGATTGA
1 GCATTACGT-G-ACTGAATATATG-TTGA
** * *
18791178 ATATTACCTGACTGAATATTTGTTGA
1 GCATTACGTGACTGAATATATGTTGA
18791204 GCATTACGTGA
1 GCATTACGTGA
18791215 GTTCTTTATA
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
26 21 0.42
27 9 0.18
28 10 0.20
29 10 0.20
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (26 bp):
GCATTACGTGACTGAATATATGTTGA
Found at i:18791332 original size:102 final size:102
Alignment explanation
Indices: 18791088--18791316 Score: 302
Period size: 102 Copynumber: 2.2 Consensus size: 102
18791078 ATTAGGTGCT
*
18791088 TGAATATTTGTTGAGCATTCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCAT
1 TGAATATTTGTTGAGCATTCGTGAGTTCTTTATAAGCATTACGTGACTGAATATATGTTGAGCAT
* *
18791153 TACGTGGCAGTTAATACATGATTGAATATTACCTGAC
66 TACGTGACAGTCAATACATGATTGAATATTACCTGAC
* * *
18791190 TGAATATTTGTTGAGCATTACGTGAGTTCTTTATAAGCATTACGTGACTGAGTATTTGTT-AGCG
1 TGAATATTTGTTGAGCATT-CGTGAGTTCTTTATAAGCATTACGTGACTGAATATATGTTGAGCA
* * * *
18791254 TTGCGTGACA-TGCATTACGTGAATT-AATATTACGTGAC
65 TTACGTGACAGT-CAATACATG-ATTGAATATTACCTGAC
*
18791292 TGAATATTTGTTGAGTATTGCGTGA
1 TGAATATTTGTTGAGCATT-CGTGA
18791317 CCTATTTGTA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 1 0.01
102 71 0.63
103 40 0.36
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (102 bp):
TGAATATTTGTTGAGCATTCGTGAGTTCTTTATAAGCATTACGTGACTGAATATATGTTGAGCAT
TACGTGACAGTCAATACATGATTGAATATTACCTGAC
Found at i:18791899 original size:30 final size:30
Alignment explanation
Indices: 18791863--18791922 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
18791853 GGAGATGCCT
*
18791863 TTGAGTGTGAGGGACTAGTTGCACATATTC
1 TTGAGTGTGAGGGACGAGTTGCACATATTC
18791893 TTGAGTGTGAGGGACGAGTTGCACATATTC
1 TTGAGTGTGAGGGACGAGTTGCACATATTC
18791923 CAGCAGGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (30 bp):
TTGAGTGTGAGGGACGAGTTGCACATATTC
Found at i:18792761 original size:109 final size:110
Alignment explanation
Indices: 18792551--18792960 Score: 416
Period size: 109 Copynumber: 3.6 Consensus size: 110
18792541 GACTAGCCTA
* * * *
18792551 TGCAATTCATGTGTTCCTTT-GAGGCTATTGTTCAATAGTTTTTTAGGCAGTGCGTGACTGATTT
1 TGCAATTCATGTGTT-GTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGG-ATTGCGTGACTGATTT
*
18792615 TTATATATTGCGTTAGC-TGTTGTAGC-TAGAGTAGTGGCGCGTGACTTG
63 TTATATATTGCGTTA-CTTGTTGTAGCGT-GAGTGGTGGCGCGTGACTTG
* * * * *
18792663 TGCAATTCATGTATTGTTTTGAGGCTTTTGTTCAGTAG-TTTTAGGTTTGCATGACTGGTTTTTA
1 TGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGATTGCGTGACTGATTTTTA
18792727 TATATTGCGTTACTTGTTGTAGCGTGAGTGGTGGCGCGTGACTTG
66 TATATTGCGTTACTTGTTGTAGCGTGAGTGGTGGCGCGTGACTTG
* * * * * * *
18792772 TGCAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTAGGGTTGTGTGACCGAATTTGA
1 TGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGATTGCGTGACTGATTTTTA
* * * * ** *
18792837 TATATTGCGTGACGTGTTGTTATGTATTACGAGAGTGATTACACGTGACTTG
66 TATATTGCGTTAC---TTG-T-TGTA--GCGTGAGTGGTGGCGCGTGACTTG
* *
18792889 TGTAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGCT-ACTGGTTTT
1 TGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGATTGCG-TGACTGATTTT
*
18792953 TATGTATT
64 TATATATT
18792961 ACGTGATCTG
Statistics
Matches: 248, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
108 1 0.00
109 89 0.36
110 39 0.16
111 3 0.01
112 30 0.12
113 3 0.01
114 1 0.00
115 4 0.02
117 53 0.21
118 24 0.10
119 1 0.00
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (110 bp):
TGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGATTGCGTGACTGATTTTTA
TATATTGCGTTACTTGTTGTAGCGTGAGTGGTGGCGCGTGACTTG
Found at i:18793007 original size:118 final size:117
Alignment explanation
Indices: 18792756--18793010 Score: 291
Period size: 118 Copynumber: 2.2 Consensus size: 117
18792746 TAGCGTGAGT
* * *
18792756 GGTGGCGCGTGACTTGTGCAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTAGGGTT
1 GGTGGAGCGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGATT
* * * *
18792821 GTGTGACCGAATTTGATATATTGCGTGACGTGTTGTTATGTATTACGAGAGT
66 GCGTGACCGAATTTGATATATTACGTGACGTGTTGTTATATATTACGAGAGC
* * * * *
18792873 GAT-TACACGTGACTTGTGTAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGA
1 GGTGGA-GCGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGA
* ** * * *
18792937 TTGCGCT-ACTGGTTTTTATGTATTACGTGATC-TGTTGTTATATATTGCGAGAGC
64 TTGCG-TGACCGAATTTGATATATTACGTGA-CGTGTTGTTATATATTACGAGAGC
18792991 GGTGGAGCGTGACTTGTGCA
1 GGTGGAGCGTGACTTGTGCA
18793011 CTTCGCCTCT
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
117 46 0.41
118 62 0.56
119 3 0.03
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.41
Consensus pattern (117 bp):
GGTGGAGCGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGATT
GCGTGACCGAATTTGATATATTACGTGACGTGTTGTTATATATTACGAGAGC
Found at i:18797257 original size:25 final size:26
Alignment explanation
Indices: 18797199--18797265 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
18797189 AATGCCTACC
* * *
18797199 AACTACTCACGTAATGCCTTAACAAA
1 AACTAGTCACGCAATGACTTAACAAA
*
18797225 AACTAGTCACGCAATGACTTATC-AA
1 AACTAGTCACGCAATGACTTAACAAA
18797250 AACTAGTCACGCAATG
1 AACTAGTCACGCAATG
18797266 TTCAGAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 18 0.49
26 19 0.51
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.22
Consensus pattern (26 bp):
AACTAGTCACGCAATGACTTAACAAA
Found at i:18797296 original size:21 final size:21
Alignment explanation
Indices: 18797254--18797307 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
18797244 TATCAAAACT
* *
18797254 AGTCACGCAATGTTCAGAGTA
1 AGTCTCGCAATGTCCAGAGTA
18797275 AGTCTCGCAATGTCCA-AGGTA
1 AGTCTCGCAATGTCCAGA-GTA
18797296 AGTCAT-GCAATG
1 AGTC-TCGCAATG
18797308 CCTTATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
AGTCTCGCAATGTCCAGAGTA
Found at i:18797472 original size:17 final size:18
Alignment explanation
Indices: 18797441--18797477 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
18797431 TAAAGAATAC
18797441 AAGAAGAAGATAAAA-AA
1 AAGAAGAAGATAAAAGAA
18797458 AAGAAGAAAGA-AAAAGAA
1 AAGAAG-AAGATAAAAGAA
18797476 AA
1 AA
18797478 ATGGGAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAGAAGAAGATAAAAGAA
Found at i:18797474 original size:24 final size:24
Alignment explanation
Indices: 18797432--18797478 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18797422 AATTCAGATT
* *
18797432 AAAGAATACAAGAAGAAGATAAAAA
1 AAAGAAGACAAGAAAAAGA-AAAAA
18797457 AAAGAAGA-AAGAAAAAGAAAAA
1 AAAGAAGACAAGAAAAAGAAAAA
18797479 TGGGAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAGAAGACAAGAAAAAGAAAAAA
Found at i:18801678 original size:23 final size:23
Alignment explanation
Indices: 18801646--18801706 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
18801636 TTATCACATG
*
18801646 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
18801670 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
18801696 AATGATACAAA
1 AATGATACAAA
18801707 ATAATGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 4 0.12
26 22 0.67
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:18801684 original size:26 final size:26
Alignment explanation
Indices: 18801653--18801705 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
18801643 ATGAATGAAT
*
18801653 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
18801679 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
18801705 A
1 A
18801706 AATAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:18803266 original size:24 final size:23
Alignment explanation
Indices: 18803239--18803292 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
18803229 GCGTCTGCAT
18803239 CTGCATCATCCGCTGGATCTCCAA
1 CTGCATCAT-CGCTGGATCTCCAA
* * *
18803263 CTGCATTGATTGTTGGATCTCCAA
1 CTGCA-TCATCGCTGGATCTCCAA
18803287 CTGCAT
1 CTGCAT
18803293 TGACTACATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.85
25 3 0.12
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (23 bp):
CTGCATCATCGCTGGATCTCCAA
Found at i:18803313 original size:45 final size:45
Alignment explanation
Indices: 18803276--18803399 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
18803266 CATTGATTGT
* * *
18803276 TGGATCTCCAACTGCATTGACTACATCTGCATCTGCATCGCCAAC
1 TGGATCTCCAACTGCATTGACTACATCTGCATCTGCATTGACAGC
* * * * *
18803321 TGGATCTCTAATTGCATTGACTACATCTACATTTGCA-TCACCAGC
1 TGGATCTCCAACTGCATTGACTACATCTGCATCTGCATTGA-CAGC
*
18803366 TGGATCTCCAACTGCATTGACTGCATCTGCATCT
1 TGGATCTCCAACTGCATTGACTACATCTGCATCT
18803400 ATATTCATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (45 bp):
TGGATCTCCAACTGCATTGACTACATCTGCATCTGCATTGACAGC
Found at i:18809353 original size:11 final size:11
Alignment explanation
Indices: 18809337--18809369 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18809327 ACATATAGAG
18809337 ATATTTTTGTT
1 ATATTTTTGTT
*
18809348 ATATTTTTATT
1 ATATTTTTGTT
18809359 ATATTTTTGTT
1 ATATTTTTGTT
18809370 TTCAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (11 bp):
ATATTTTTGTT
Found at i:18812133 original size:29 final size:29
Alignment explanation
Indices: 18812081--18812148 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
18812071 AAGGAAAATT
* *
18812081 AGAGAGAGAAAGAGAGAAGTAGATGAAGA
1 AGAGAGAGAAAGAGAGAAGCAGATCAAGA
* * *
18812110 AGAGAGAGAAAGAGCGAGGCAGATCATGA
1 AGAGAGAGAAAGAGAGAAGCAGATCAAGA
18812139 AGAGAG-GAAA
1 AGAGAGAGAAA
18812149 ACGAGGGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.51, C:0.04, G:0.38, T:0.06
Consensus pattern (29 bp):
AGAGAGAGAAAGAGAGAAGCAGATCAAGA
Found at i:18824739 original size:15 final size:15
Alignment explanation
Indices: 18824719--18824765 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18824709 TAAAATAACC
18824719 TTAAAATCAAAAATT
1 TTAAAATCAAAAATT
* **
18824734 TTAAAATCCAAAGCT
1 TTAAAATCAAAAATT
18824749 TTAAAATCAAAATATT
1 TTAAAATCAAAA-ATT
18824765 T
1 T
18824766 GATCTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (15 bp):
TTAAAATCAAAAATT
Found at i:18826167 original size:13 final size:13
Alignment explanation
Indices: 18826149--18826173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18826139 TTTCAGAAAA
18826149 TTTATAAAATCAT
1 TTTATAAAATCAT
18826162 TTTATAAAATCA
1 TTTATAAAATCA
18826174 CAATTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:18829495 original size:12 final size:12
Alignment explanation
Indices: 18829478--18829504 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18829468 AATACAAAAT
18829478 AAGCTTCCTTCA
1 AAGCTTCCTTCA
18829490 AAGCTTCCTTCA
1 AAGCTTCCTTCA
18829502 AAG
1 AAG
18829505 TTTCTTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (12 bp):
AAGCTTCCTTCA
Found at i:18833395 original size:21 final size:21
Alignment explanation
Indices: 18833369--18833423 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
18833359 ATGGCGTCAT
* * *
18833369 TCTTTGTCGTGTAGGCATCAG
1 TCTTTGTCATGAAGCCATCAG
18833390 TCTTTGTCATGAAGCCATCAG
1 TCTTTGTCATGAAGCCATCAG
18833411 TCTTTGTCATGAA
1 TCTTTGTCATGAA
18833424 TTACATGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (21 bp):
TCTTTGTCATGAAGCCATCAG
Found at i:18839236 original size:22 final size:23
Alignment explanation
Indices: 18839208--18839254 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
18839198 ATTTCTATAT
18839208 ATTACTA-CAAGAACTAAGCT-AA
1 ATTACTATCAA-AACTAAGCTCAA
*
18839230 ATTACTATCAAAATTAAGCTCAA
1 ATTACTATCAAAACTAAGCTCAA
18839253 AT
1 AT
18839255 AACTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (23 bp):
ATTACTATCAAAACTAAGCTCAA
Found at i:18853759 original size:26 final size:25
Alignment explanation
Indices: 18853730--18853780 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
18853720 ATATTACTTA
18853730 ATATTATTATTTAAATATAAAAAAT
1 ATATTATTATTTAAATATAAAAAAT
* *
18853755 NATATTATTATTTGAATATAATAAAT
1 -ATATTATTATTTAAATATAAAAAAT
18853781 GTAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
ATATTATTATTTAAATATAAAAAAT
Found at i:18864558 original size:18 final size:20
Alignment explanation
Indices: 18864537--18864574 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18864527 GGTATGTGTG
18864537 GATGAG-TGGACGG-TGGGA
1 GATGAGATGGACGGCTGGGA
18864555 GATGAGATGGACGGCTGGGA
1 GATGAGATGGACGGCTGGGA
18864575 TTGGAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (20 bp):
GATGAGATGGACGGCTGGGA
Found at i:18867830 original size:28 final size:29
Alignment explanation
Indices: 18867797--18867851 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
18867787 AAAATACCAT
18867797 GCCATATCTAT-AAAAGATAGCTAGAGTA
1 GCCATATCTATGAAAAGATAGCTAGAGTA
**
18867825 GCCATATCTATGAAACTATAGCTAGAG
1 GCCATATCTATGAAAAGATAGCTAGAG
18867852 CACACAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (29 bp):
GCCATATCTATGAAAAGATAGCTAGAGTA
Found at i:18878602 original size:21 final size:21
Alignment explanation
Indices: 18878560--18878602 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18878550 CTTGTACCGG
*
18878560 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
18878581 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
18878602 T
1 T
18878603 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:18887025 original size:21 final size:19
Alignment explanation
Indices: 18886999--18887039 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
18886989 AATTTAAAAC
18886999 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
18887020 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
18887039 A
1 A
18887040 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:18890767 original size:40 final size:40
Alignment explanation
Indices: 18890710--18890829 Score: 195
Period size: 40 Copynumber: 3.0 Consensus size: 40
18890700 GTAAGGATGA
* *
18890710 AATTAAAGCATAGCACTCTACATATAAGACAACCTGGTGT
1 AATTAAAGCATAACACTCCACATATAAGACAACCTGGTGT
* *
18890750 AATTAAAGCATAACACTCCACATATAAGATAACCTGGTGC
1 AATTAAAGCATAACACTCCACATATAAGACAACCTGGTGT
*
18890790 AATTAAAGCATAACACTCCACATATAAGACAACCTAGTGT
1 AATTAAAGCATAACACTCCACATATAAGACAACCTGGTGT
18890830 CTCAAGTCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.23
Consensus pattern (40 bp):
AATTAAAGCATAACACTCCACATATAAGACAACCTGGTGT
Found at i:18894990 original size:21 final size:19
Alignment explanation
Indices: 18894964--18895004 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
18894954 AATTTAAAAC
18894964 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
18894985 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
18895004 A
1 A
18895005 CTCAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:18895864 original size:21 final size:21
Alignment explanation
Indices: 18895816--18895864 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
18895806 AGAATGATAA
*
18895816 CATC-ATTCAAACTCACGTGG
1 CATCTATTCAAACTCAAGTGG
*
18895836 C-TCTTATTCAAAGTCAAGTGG
1 CATC-TATTCAAACTCAAGTGG
18895857 CATCTATT
1 CATCTATT
18895865 TATAACCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 19 0.79
22 2 0.08
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
CATCTATTCAAACTCAAGTGG
Found at i:18899280 original size:23 final size:23
Alignment explanation
Indices: 18899254--18899308 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
18899244 TTGACTTGCT
18899254 CAAGGCTGCAGCGCTT-AGGAAAC
1 CAAGGCTGCAGCG-TTGAGGAAAC
* * *
18899277 CAAGGTTGCAGCGTTGAGGAGAG
1 CAAGGCTGCAGCGTTGAGGAAAC
18899300 CAAGGCTGC
1 CAAGGCTGC
18899309 GACGCTAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.27, C:0.22, G:0.36, T:0.15
Consensus pattern (23 bp):
CAAGGCTGCAGCGTTGAGGAAAC
Found at i:18901284 original size:16 final size:17
Alignment explanation
Indices: 18901255--18901287 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18901245 GTAAATGGTT
18901255 ATATAGAAAACTAACAA
1 ATATAGAAAACTAACAA
*
18901272 ATAT-GAAAGCTAACAA
1 ATATAGAAAACTAACAA
18901288 GAAGTATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (17 bp):
ATATAGAAAACTAACAA
Found at i:18902427 original size:17 final size:17
Alignment explanation
Indices: 18902397--18902429 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18902387 TTCTTGATAA
18902397 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
18902414 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
18902430 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:18902632 original size:28 final size:27
Alignment explanation
Indices: 18902589--18902788 Score: 152
Period size: 28 Copynumber: 7.0 Consensus size: 27
18902579 TAATTAAAAC
*
18902589 AAAAATATTTTATCTTGTCTAAATTGAG
1 AAAAATATTTT-TCTTGTCTAAATTAAG
* *
18902617 GAAAATATGTTTTCTTGTCTAGATTAAG
1 AAAAATAT-TTTTCTTGTCTAAATTAAG
*
18902645 ACAAAAAATATTTTTCTTGTCTTTAATTAAG
1 ---AAAAATATTTTTCTTGTC-TAAATTAAG
18902676 ACAAACATATTTTT-TTGTCTAAATTAAG
1 A-AAA-ATATTTTTCTTGTCTAAATTAAG
*
18902704 ACAAAACATGTTTTCTTGTCTAAATTAA-
1 A-AAAATAT-TTTTCTTGTCTAAATTAAG
* * *
18902732 AACAAACATGTTTTTTTGTCTAAACTAAG
1 AA-AAATAT-TTTTCTTGTCTAAATTAAG
* * * *
18902761 TCATAACATGTTTTCTTATCTAAATTAA
1 -AAAAATAT-TTTTCTTGTCTAAATTAA
18902789 CACAAACATG
Statistics
Matches: 145, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.03
28 63 0.43
29 45 0.31
30 19 0.13
31 14 0.10
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAAATATTTTTCTTGTCTAAATTAAG
Found at i:18902746 original size:57 final size:57
Alignment explanation
Indices: 18902601--18902800 Score: 240
Period size: 57 Copynumber: 3.5 Consensus size: 57
18902591 AAATATTTTA
* * * * * *
18902601 TCTTGTCTAAATTGAGGA-AAATATGTTTTCTTGTCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATT-AAGACAAACATGTTTTTTTGTCTAAATTAAGACAAAACAT-GTTT
* *
18902659 TCTTGTCTTTAATTAAGACAAACATATTTTTTTGTCTAAATTAAGACAAAACATGTTT
1 TCTTGTC-TAAATTAAGACAAACATGTTTTTTTGTCTAAATTAAGACAAAACATGTTT
* * * *
18902717 TCTTGTCTAAATTAAAACAAACATGTTTTTTTGTCTAAACTAAGTCATAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTTTTTTGTCTAAATTAAGACAAAACATGTTT
* *
18902774 TCTTATCTAAATTAACACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
18902801 AAAGTTGCTA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
57 69 0.56
58 20 0.16
59 35 0.28
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAACATGTTTTTTTGTCTAAATTAAGACAAAACATGTTT
Found at i:18902797 original size:28 final size:28
Alignment explanation
Indices: 18902601--18902800 Score: 213
Period size: 29 Copynumber: 7.0 Consensus size: 28
18902591 AAATATTTTA
* *
18902601 TCTTGTCTAAATTGAGGA-AAATATGTTT
1 TCTTGTCTAAATT-AAGACAAACATGTTT
* * *
18902629 TCTTGTCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACAT-GTTT
* *
18902659 TCTTGTCTTTAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
*
18902688 TTTTGTCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
*
18902717 TCTTGTCTAAATTAAAACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
18902745 TTTTGTCTAAACTAAGTCATAACATGTTT
1 TCTTGTCTAAATTAAGACA-AACATGTTT
* *
18902774 TCTTATCTAAATTAACACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
18902801 AAAGTTGCTA
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.02
28 55 0.38
29 62 0.43
30 15 0.10
31 9 0.06
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:18907348 original size:50 final size:48
Alignment explanation
Indices: 18907289--18907406 Score: 155
Period size: 50 Copynumber: 2.4 Consensus size: 48
18907279 ATCCACTATC
*
18907289 AAGGATTCTTGCTTTTTAATGAAAAGCGGTAACCCTCACACAATCCACA
1 AAGGATTCTT-CTTTTTAATGAAAAGCGATAACCCTCACACAATCCACA
** * *
18907338 AAGGGATTCTTACTTTTTAATGGGAAGCGATAACCTTTACACAATCCACA
1 AA-GGATTCTT-CTTTTTAATGAAAAGCGATAACCCTCACACAATCCACA
18907388 AAGGATTCTTCTATTTTAA
1 AAGGATTCTTCT-TTTTAA
18907407 CAAGATCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 2 0.03
49 16 0.26
50 43 0.70
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (48 bp):
AAGGATTCTTCTTTTTAATGAAAAGCGATAACCCTCACACAATCCACA
Found at i:18914698 original size:16 final size:16
Alignment explanation
Indices: 18914657--18914690 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18914647 AATCCAAAGG
18914657 CTGAAAGATTGCAAAA
1 CTGAAAGATTGCAAAA
18914673 CTGAAAGATTGCAAAA
1 CTGAAAGATTGCAAAA
18914689 CT
1 CT
18914691 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (16 bp):
CTGAAAGATTGCAAAA
Found at i:18922000 original size:2 final size:2
Alignment explanation
Indices: 18921993--18922033 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
18921983 GTTGGATGAT
*
18921993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18922034 TCTTATGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18927527 original size:42 final size:42
Alignment explanation
Indices: 18927431--18927605 Score: 237
Period size: 42 Copynumber: 4.1 Consensus size: 42
18927421 ACCATCCCAC
* *
18927431 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCACACT-ACACATAGCTGGGT
* *
18927474 CATAATCAGCTCATGTGCACTCCACACTACACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCACACTACACATAGCTGGGT
* * * *
18927516 CATCATTAGCTCATGTGCACTCC-CACATGCACAAAGCTAGGT
1 CATCATCAGCTCATGTGCACTCCACAC-TACACATAGCTGGGT
18927558 CATCATCAGCTCATGTGCACTCCCACAC-ACACATAGCTGGGT
1 CATCATCAGCTCATGTGCACT-CCACACTACACATAGCTGGGT
18927600 CATCAT
1 CATCAT
18927606 TATCACATAA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.03
42 81 0.70
43 28 0.24
44 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCACACTACACATAGCTGGGT
Found at i:18927573 original size:84 final size:85
Alignment explanation
Indices: 18927431--18927607 Score: 270
Period size: 84 Copynumber: 2.1 Consensus size: 85
18927421 ACCATCCCAC
* * *
18927431 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGTCATAATCAGCTCATGTGCACT-
1 CATCATTAGCTCATGTGCACTCCCCACTCGCACAAAGCTAGGTCATAATCAGCTCATGTGCACTC
*
18927495 CCACACTACACATAGTTGGGT
66 CCACAC-ACACATAGCTGGGT
*
18927516 CATCATTAGCTCATGTGCACT-CCCACAT-GCACAAAGCTAGGTCATCATCAGCTCATGTGCACT
1 CATCATTAGCTCATGTGCACTCCCCAC-TCGCACAAAGCTAGGTCATAATCAGCTCATGTGCACT
18927579 CCCACACACACATAGCTGGGT
65 CCCACACACACATAGCTGGGT
18927600 CATCATTA
1 CATCATTA
18927608 TCACATAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
84 58 0.68
85 27 0.32
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (85 bp):
CATCATTAGCTCATGTGCACTCCCCACTCGCACAAAGCTAGGTCATAATCAGCTCATGTGCACTC
CCACACACACATAGCTGGGT
Found at i:18930270 original size:47 final size:47
Alignment explanation
Indices: 18930216--18930306 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
18930206 CTGAAAGAAG
* *
18930216 ATTGGGAGGCTAAAGATCGAAGCTTGGTTGTGGAGCACCTCTAAACA
1 ATTGGGAGGCTAAAGATCGAAGCTTGGCTATGGAGCACCTCTAAACA
*
18930263 ATTGGGAGGCTAAAGATCGAAGCTTGGCTATGGAGCACGTCTAA
1 ATTGGGAGGCTAAAGATCGAAGCTTGGCTATGGAGCACCTCTAA
18930307 TTTGTCACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (47 bp):
ATTGGGAGGCTAAAGATCGAAGCTTGGCTATGGAGCACCTCTAAACA
Found at i:18931413 original size:36 final size:36
Alignment explanation
Indices: 18931398--18931475 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
18931388 TTGACATGCA
18931398 CATGATCTAACTCTCCACCCATTGCTTTGGCACATG
1 CATGATCTAACTCTCCACCCATTGCTTTGGCACATG
* * * *
18931434 CATGATCTAACTCTTCGCCCATTCCTTTGGCACGTG
1 CATGATCTAACTCTCCACCCATTGCTTTGGCACATG
*
18931470 AATGAT
1 CATGAT
18931476 TTATTTCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (36 bp):
CATGATCTAACTCTCCACCCATTGCTTTGGCACATG
Found at i:18933237 original size:283 final size:283
Alignment explanation
Indices: 18932714--18933281 Score: 805
Period size: 283 Copynumber: 2.0 Consensus size: 283
18932704 TGGCCTCGAG
*
18932714 TAGTGTGGTGTCGGCCATGACCCTCATTAAATTCATGAGACACGGATGCCAAGGATTTTTGGCAA
1 TAGTGTAGTGTCGGCCATGACCCTCATTAAATTCATGAGACACGGATGCCAAGGATTTTTGGCAA
* * ** *
18932779 CAGTCTTGGATATCTTGGTGGATGTGGGTAATGTGGCAAATATGCCAATTTTGGGAGATTATGTT
66 CAGTATTGGATACCCAGGTGGATGTGGGTAATGTGGCAAATATGCCAATTTTGAGAGATTATGTT
* ** * * *
18932844 TATGTGTTTCCGTAGGAGTTACCTGAATTACTTCAAAAAAAAGTTGTCAATTTTGCATACGTAAA
131 GATGTGTTTCCGTAGGAGTTACCCAAATTACTTCAAAAAAAAGTTATCAATTTTGCACACGCAAA
* * *
18932909 TATACGTATCGAACAAGTAATACAGTGATGAAGTAGAGTATCGTTCACATGAAAATTTGTTCCTA
196 TATACGTATCAAACAAATAATACAGTGATGAAGTAGAGTATCGTTCACACGAAAATTTGTTCCTA
* **
18932974 ATTCTTTACTAAGGGCTAAAATT
261 AATCTTTACTAAGAACTAAAATT
* *
18932997 TAGTGTAGTGTTGGCTATGACCCTCATTAAATTCATGAGACACGGATGCCAAGGATTTTTGGCAA
1 TAGTGTAGTGTCGGCCATGACCCTCATTAAATTCATGAGACACGGATGCCAAGGATTTTTGGCAA
* *
18933062 TAGTATTGGATACCCAGGTGGATGTGGGTAATGTGGCAAATGTGCCAATTTTGAGAGATTATGTT
66 CAGTATTGGATACCCAGGTGGATGTGGGTAATGTGGCAAATATGCCAATTTTGAGAGATTATGTT
* * * * *
18933127 GATGTGTTTCTGTAGGAGTTACCCAAATTACTTTC-AAAAAGAGTTATCGATTTTGCACATGCCA
131 GATGTGTTTCCGTAGGAGTTACCCAAATTAC-TTCAAAAAAAAGTTATCAATTTTGCACACGCAA
* * * * * * *
18933191 GTATATGTATCAAACAAATAATATAGTGATGAAGTAGAGTATCGTTCTCACGGAGATTTGTTCTT
195 ATATACGTATCAAACAAATAATACAGTGATGAAGTAGAGTATCGTTCACACGAAAATTTGTTCCT
*
18933256 AAATCTTTACTGAGAACTAAAATT
260 AAATCTTTACTAAGAACTAAAATT
18933280 TA
1 TA
18933282 TAAAACAAAT
Statistics
Matches: 249, Mismatches: 35, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
283 246 0.99
284 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (283 bp):
TAGTGTAGTGTCGGCCATGACCCTCATTAAATTCATGAGACACGGATGCCAAGGATTTTTGGCAA
CAGTATTGGATACCCAGGTGGATGTGGGTAATGTGGCAAATATGCCAATTTTGAGAGATTATGTT
GATGTGTTTCCGTAGGAGTTACCCAAATTACTTCAAAAAAAAGTTATCAATTTTGCACACGCAAA
TATACGTATCAAACAAATAATACAGTGATGAAGTAGAGTATCGTTCACACGAAAATTTGTTCCTA
AATCTTTACTAAGAACTAAAATT
Found at i:18934034 original size:12 final size:13
Alignment explanation
Indices: 18934008--18934042 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
18933998 ATCATTTTAC
18934008 TCAAAAATTATTT
1 TCAAAAATTATTT
18934021 TCAAAAATTA-TT
1 TCAAAAATTATTT
*
18934033 TCATAAATTA
1 TCAAAAATTA
18934043 CCTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (13 bp):
TCAAAAATTATTT
Found at i:18947093 original size:2 final size:2
Alignment explanation
Indices: 18947088--18947146 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
18947078 TGTGTGTGTC
18947088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
18947129 TG TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
18947147 CCATATGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18947775 original size:2 final size:2
Alignment explanation
Indices: 18947768--18947806 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18947758 ACAACACAAT
18947768 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18947807 TACATTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18951776 original size:69 final size:68
Alignment explanation
Indices: 18951652--18951787 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 68
18951642 ACACTGAGAT
* * *
18951652 TCATAAAGAAGGAAAAAGTGGTATAATGCCCAACTTAACCTTGCAATGTTTTTACCCTCACATCA
1 TCATAAAGAAGGAAAAAGTGGTATAATGCCCAACTTAACCTTGCAATATTCTTACCCCCACA-CA
18951717 AGAA
65 AGAA
* * * ***
18951721 TCATAAAGAGAGGAAAAA-TGGTATGATGCCCAATTTGACCTTGTGGTATTCTTACCCCCACACA
1 TCATAAAGA-AGGAAAAAGTGGTATAATGCCCAACTTAACCTTGCAATATTCTTACCCCCACACA
18951785 AGA
65 AGA
18951788 CTAGAACTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
68 5 0.09
69 44 0.77
70 8 0.14
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (68 bp):
TCATAAAGAAGGAAAAAGTGGTATAATGCCCAACTTAACCTTGCAATATTCTTACCCCCACACAA
GAA
Found at i:18955384 original size:81 final size:80
Alignment explanation
Indices: 18955241--18955418 Score: 212
Period size: 81 Copynumber: 2.2 Consensus size: 80
18955231 TCGTGACAGG
* * * **
18955241 TATTCTTACCCCCACACCTAGACTAGAGCTAACATACAAAAAAAGAAAACGTGGCATGTTGGCCA
1 TATTCTTACCCCCACACCGAGACTAGAGCCAACATACAAAAAAAGAAAACGTGGAAAATTGGCCA
*
18955306 TGCTTAACCTTGTGC
66 AGCTTAACCTTGTGC
* * * ** * *
18955321 TATTCTTACCCCCACATCGGGGACTAGGGCCAACATACAAAAAGGGAAAAGGTGGAAAATTGGCT
1 TATTCTTACCCCCACA-CCGAGACTAGAGCCAACATACAAAAAAAGAAAACGTGGAAAATTGGCC
*
18955386 AAGCTTAACCTTGTGG
65 AAGCTTAACCTTGTGC
*
18955402 TATTTTTACCCCCACAC
1 TATTCTTACCCCCACAC
18955419 AAGGACTAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 17 0.21
81 65 0.79
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (80 bp):
TATTCTTACCCCCACACCGAGACTAGAGCCAACATACAAAAAAAGAAAACGTGGAAAATTGGCCA
AGCTTAACCTTGTGC
Found at i:18956473 original size:21 final size:21
Alignment explanation
Indices: 18956447--18956495 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
18956437 AAATGGCGTC
18956447 ATCTATCGATAGATTGGGACT
1 ATCTATCGATAGATTGGGACT
18956468 ATCTATCGATAGATTGGGACT
1 ATCTATCGATAGATTGGGACT
18956489 ATCTATC
1 ATCTATC
18956496 AATCTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (21 bp):
ATCTATCGATAGATTGGGACT
Found at i:18967870 original size:39 final size:37
Alignment explanation
Indices: 18967811--18967915 Score: 119
Period size: 39 Copynumber: 2.8 Consensus size: 37
18967801 ATCCTTGTAA
18967811 AGGTTATACCTT-ACCTTTGAAAAGGTAGAGTGTTTAGAGT
1 AGGTTATACCTTAACC-TTGAAAAGGTAGAGTG-TT-GA-T
18967851 -GGTTATACCTTAACCTTGAAAAGGTA-A-TGTTGAT
1 AGGTTATACCTTAACCTTGAAAAGGTAGAGTGTTGAT
* *
18967885 AGGTTATAACTTAGCCTGTGAAAAGGTAGAG
1 AGGTTATACCTTAACCT-TGAAAAGGTAGAG
18967916 AGGTTGTGCT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
34 1 0.02
35 16 0.28
36 12 0.21
37 3 0.05
38 1 0.02
39 22 0.38
40 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.32
Consensus pattern (37 bp):
AGGTTATACCTTAACCTTGAAAAGGTAGAGTGTTGAT
Found at i:18968758 original size:26 final size:27
Alignment explanation
Indices: 18968721--18968783 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 27
18968711 AAACATCATC
* *
18968721 CAAATAAAATTAGCTATTAATCCAAGT
1 CAAAGAAAATTAGCCATTAATCCAAGT
*
18968748 CAAA-AAAATTATCCATTAATCCAAGT
1 CAAAGAAAATTAGCCATTAATCCAAGT
18968774 CAAAGAAAAT
1 CAAAGAAAAT
18968784 AAAAGAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.25
Consensus pattern (27 bp):
CAAAGAAAATTAGCCATTAATCCAAGT
Found at i:18969492 original size:19 final size:19
Alignment explanation
Indices: 18969468--18969505 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18969458 TGAAATAAAG
18969468 CCAACTATCATCCAAATGA
1 CCAACTATCATCCAAATGA
18969487 CCAACTATCATCCAAATGA
1 CCAACTATCATCCAAATGA
18969506 TCCAGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (19 bp):
CCAACTATCATCCAAATGA
Found at i:18975105 original size:11 final size:12
Alignment explanation
Indices: 18975077--18975126 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
18975067 ACTTCTTTTC
18975077 TTCTCTTTAATTA
1 TTCT-TTTAATTA
18975090 TTCTTTTAATTA
1 TTCTTTTAATTA
* *
18975102 -TC-TTTATTTG
1 TTCTTTTAATTA
18975112 TTCTTTTAAATTA
1 TTCTTTT-AATTA
18975125 TT
1 TT
18975127 TTTCATAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.20
11 4 0.13
12 11 0.37
13 9 0.30
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (12 bp):
TTCTTTTAATTA
Found at i:18975115 original size:22 final size:23
Alignment explanation
Indices: 18975080--18975125 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
18975070 TCTTTTCTTC
18975080 TCTTTAATTATTCTTTT-AATTA
1 TCTTTAATTATTCTTTTAAATTA
* *
18975102 TCTTTATTTGTTCTTTTAAATTA
1 TCTTTAATTATTCTTTTAAATTA
18975125 T
1 T
18975126 TTTTCATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (23 bp):
TCTTTAATTATTCTTTTAAATTA
Found at i:18981310 original size:11 final size:12
Alignment explanation
Indices: 18981283--18981315 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18981273 CCAAAAATTG
18981283 TTTTTTCTCTTCA
1 TTTTTTCTCTT-A
18981296 TTTTTTCTCTT-
1 TTTTTTCTCTTA
18981307 TTTTTTCTC
1 TTTTTTCTC
18981316 AAAAAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
13 11 0.55
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCTCTTA
Found at i:18982963 original size:30 final size:30
Alignment explanation
Indices: 18982929--18982992 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
18982919 AGAATCAAAT
18982929 TAGGAATAAAACTAAGTTCTCATCATTGGA
1 TAGGAATAAAACTAAGTTCTCATCATTGGA
* *
18982959 TAGGAATGAACCTAAGTTCTCATCATTGGA
1 TAGGAATAAAACTAAGTTCTCATCATTGGA
18982989 TAGG
1 TAGG
18982993 TAAATTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (30 bp):
TAGGAATAAAACTAAGTTCTCATCATTGGA
Found at i:18983109 original size:16 final size:15
Alignment explanation
Indices: 18983088--18983136 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
18983078 CTAAAATATC
18983088 ATAAAAATGAATAACA
1 ATAAAAAT-AATAACA
18983104 ATAAAAA-AAT--C-
1 ATAAAAATAATAACA
18983115 ATAAAAACTAATAACA
1 ATAAAAA-TAATAACA
18983131 ATAAAA
1 ATAAAA
18983137 CCCTCCCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 7 0.25
12 1 0.04
13 3 0.11
14 3 0.11
15 1 0.04
16 13 0.46
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (15 bp):
ATAAAAATAATAACA
Found at i:18983110 original size:27 final size:27
Alignment explanation
Indices: 18983080--18983136 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
18983070 AAACTAACCT
*
18983080 AAAATATCATAAAAA-TGAATAACAATA
1 AAAAAATCATAAAAACT-AATAACAATA
18983107 AAAAAATCATAAAAACTAATAACAATA
1 AAAAAATCATAAAAACTAATAACAATA
18983134 AAA
1 AAA
18983137 CCCTCCCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (27 bp):
AAAAAATCATAAAAACTAATAACAATA
Found at i:18991691 original size:68 final size:66
Alignment explanation
Indices: 18991566--18991702 Score: 177
Period size: 68 Copynumber: 2.0 Consensus size: 66
18991556 TCATGTTTTA
** * *
18991566 AATGGGAATAATAATACATGACTTAGCTGGAAACATTTGTCTTTTGGTCTGGAATAACAATGTAT
1 AATGGGAATAATAATACATGACTTAGCTGGAAACAAATGTCTTTTGCTCTGGAATAACAATGTAG
18991631 G
66 G
* * *
18991632 AATGGGAATAATAGTATATGATTTGAGCTGGGAAA-AAATGTCTTTTGCTGCTGGAATAACAATG
1 AATGGGAATAATAATACATGACTT-AGCT-GGAAACAAATGTCTTTTGCT-CTGGAATAACAATG
18991696 TAGG
63 TAGG
18991700 AAT
1 AAT
18991703 TAATGTTGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
66 21 0.34
67 15 0.25
68 25 0.41
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (66 bp):
AATGGGAATAATAATACATGACTTAGCTGGAAACAAATGTCTTTTGCTCTGGAATAACAATGTAG
G
Found at i:18997559 original size:20 final size:20
Alignment explanation
Indices: 18997508--18997563 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
18997498 AATAACTTTA
*
18997508 CAAACTCTATTCAATTTTACT
1 CAAACTCT-TTAAATTTTACT
*
18997529 CAAACTC-TTAAATTTTTCT
1 CAAACTCTTTAAATTTTACT
*
18997548 CTAACTCTTTAAATTT
1 CAAACTCTTTAAATTT
18997564 CTCACCACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.52
20 8 0.26
21 7 0.23
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.46
Consensus pattern (20 bp):
CAAACTCTTTAAATTTTACT
Found at i:18997686 original size:20 final size:20
Alignment explanation
Indices: 18997663--18997701 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18997653 TTTATCTATA
* *
18997663 TTATTATTATTTTTATTTTT
1 TTATTATTAATTCTATTTTT
*
18997683 TTATTTTTAATTCTATTTT
1 TTATTATTAATTCTATTTT
18997702 ATTTGTTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTATTAATTCTATTTTT
Found at i:18997701 original size:17 final size:15
Alignment explanation
Indices: 18997637--18997705 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
18997627 AAGAGTAAAG
*
18997637 TTTTTTTTTTAATTT-
1 TTTTATTTTT-ATTTA
* *
18997652 TTTTATCTATA-TTA
1 TTTTATTTTTATTTA
18997666 TTATTATTTTTATTT-
1 TT-TTATTTTTATTTA
18997681 TTTTATTTTTAATTCTA
1 TTTTATTTTT-ATT-TA
18997698 TTTTATTT
1 TTTTATTT
18997706 GTTCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.05
14 11 0.26
15 19 0.44
16 3 0.07
17 8 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:19005137 original size:18 final size:21
Alignment explanation
Indices: 19005099--19005143 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
19005089 GCTTAAATTA
19005099 TAAAATATTATGTTTTCTAAT
1 TAAAATATTATGTTTTCTAAT
19005120 TAAAATATT-T-TTTT-TAAT
1 TAAAATATTATGTTTTCTAAT
*
19005138 AAAAAT
1 TAAAAT
19005144 GATATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 1 0.04
21 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TAAAATATTATGTTTTCTAAT
Found at i:19005621 original size:129 final size:129
Alignment explanation
Indices: 19005391--19005651 Score: 405
Period size: 129 Copynumber: 2.0 Consensus size: 129
19005381 GGTATATTAA
* * *
19005391 ACGGTCACTGCAGTGGTGGGGGTTTCCGTGGACTGCTTATGAGAGGGGCACGGTAACCCAATTAT
1 ACGGTCACTGCAGTGGTGGGGGTTTCCATGGACTGCCTATGAGAGGAGCACGGTAACCCAATTAT
* * *
19005456 ATATTTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTC
66 ATATTTACCTCAGGGGGGAGATGTTGGATGAAGTATCTCCTAAGGTAAGATTTGAATACACCTC
* * *
19005520 ACGGTCATTGCAGTGGTGGGGGTTTCCATGGGCTGCCTATGAGAGGAGCACGGTAACTCAATTAT
1 ACGGTCACTGCAGTGGTGGGGGTTTCCATGGACTGCCTATGAGAGGAGCACGGTAACCCAATTAT
* * * *
19005585 ATATTTACCTCAGGGGGGAGATGTTGGGTGAAGTATCTTCTAAGGTATGATTTGAGTACACCTC
66 ATATTTACCTCAGGGGGGAGATGTTGGATGAAGTATCTCCTAAGGTAAGATTTGAATACACCTC
19005649 ACG
1 ACG
19005652 TTCGGGCCAC
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (129 bp):
ACGGTCACTGCAGTGGTGGGGGTTTCCATGGACTGCCTATGAGAGGAGCACGGTAACCCAATTAT
ATATTTACCTCAGGGGGGAGATGTTGGATGAAGTATCTCCTAAGGTAAGATTTGAATACACCTC
Found at i:19009590 original size:65 final size:64
Alignment explanation
Indices: 19009521--19009671 Score: 153
Period size: 65 Copynumber: 2.3 Consensus size: 64
19009511 AAGAAAAGGG
* *
19009521 TTATACTTTAGCCTTTAAAAGGTAATGTTTAGAGG-TTCTGCTTGATAATTGAAAAGACATAGAG
1 TTATAC-TTAGCCTTAAAAAGGTAATGTTAAG-GGATTCTGCTTGATAATTGAAAAGACATAGAG
19009585 T
64 T
* * * * ** *
19009586 TTATACATCAGCCTTCAGAAA-GTAGTGTTAAGGGATTGTGCTTGATCCTTGAAAAGGCATAGAG
1 TTATAC-TTAGCCTT-AAAAAGGTAATGTTAAGGGATTCTGCTTGATAATTGAAAAGACATAGAG
19009650 T
64 T
*
19009651 TTCTAACTTAGCCTTAAAAAG
1 TTAT-ACTTAGCCTTAAAAAG
19009672 TTAGGGAGGT
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
64 6 0.09
65 58 0.84
66 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (64 bp):
TTATACTTAGCCTTAAAAAGGTAATGTTAAGGGATTCTGCTTGATAATTGAAAAGACATAGAGT
Found at i:19018849 original size:26 final size:26
Alignment explanation
Indices: 19018819--19018868 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
19018809 AATCCAAGAT
* *
19018819 GAAGATTATGATAAGAAGGAAGATAG
1 GAAGATTATGAAAACAAGGAAGATAG
19018845 GAAGATTATGAAAACAAGGAAGAT
1 GAAGATTATGAAAACAAGGAAGAT
19018869 TCAGAAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.28, T:0.18
Consensus pattern (26 bp):
GAAGATTATGAAAACAAGGAAGATAG
Found at i:19019082 original size:113 final size:113
Alignment explanation
Indices: 19018882--19019091 Score: 273
Period size: 113 Copynumber: 1.9 Consensus size: 113
19018872 GAAGAGCAAA
* * * *
19018882 GTCTCCAGTACTCCCACAAGTTCAAGAAGGAAGATCCGAATAACCAAAGACTCTTCAAAATTCCA
1 GTCTCCAGAACTCCCACAAGTTCAAAAAGGAAGATCCAAAGAACCAAAGACTCTTCAAAATTCCA
* * *
19018947 ACCCATAAGTCCAAAAAGGGAGATTTGAAGAAGGATATGAACAACAAT
66 ACCCACAAGTCCAAAAAAGGAGATCTGAAGAAGGATATGAACAACAAT
* * * *
19018995 GTCTCCAGAACTCCCACAAGTTCAAAAAGGAATG-TCTAAAGAAGCAAAGCCTC-TCTAGAATTC
1 GTCTCCAGAACTCCCACAAGTTCAAAAAGGAA-GATCCAAAGAACCAAAGACTCTTC-AAAATTC
19019058 CAACCCACAAGT-CAAAGAAAGGAGATCTGAAGAA
64 CAACCCACAAGTCCAAA-AAAGGAGATCTGAAGAA
19019092 ATAAAGCCCC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
112 6 0.07
113 76 0.92
114 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (113 bp):
GTCTCCAGAACTCCCACAAGTTCAAAAAGGAAGATCCAAAGAACCAAAGACTCTTCAAAATTCCA
ACCCACAAGTCCAAAAAAGGAGATCTGAAGAAGGATATGAACAACAAT
Found at i:19019281 original size:105 final size:107
Alignment explanation
Indices: 19019008--19019287 Score: 245
Period size: 105 Copynumber: 2.6 Consensus size: 107
19018998 TCCAGAACTC
* * * *
19019008 CCACAAGTTCAAAAAGGAATG-TCTAAAGAAGCAAAGCCTCTCTAGAATTCCAACCCACAAG-TC
1 CCACAAG-TCCAAAAGGAAAGAT-TAAAGAACCAAAGTCTCTCTAGAATTCCAACCCACAAGTTC
* *
19019071 AAAGAAAGGAGATCTGAAGAAATAAAGCCCCTCTAAAGATGCAGT
64 -AAGAAAGGAGATCTGAAGAAACAAAGCCCCTCTAAAGATGCAGA
* * * * * *
19019116 CCACAAGTCCAAAAGGAAAGATTGAAGAATCAAAATCTCTC-AAAAGTTCCAATCCGCAAGTTC-
1 CCACAAGTCCAAAAGGAAAGATTAAAGAACCAAAGTCTCTCTAGAA-TTCCAACCCACAAGTTCA
* * ** * *
19019179 A-AAAGGACGATTTGAAGAAGCAAAGCTTCTCTAGAA-CTTCA-A
65 AGAAAGGA-GATCTGAAGAAACAAAGCCCCTCTA-AAGATGCAGA
* *
19019221 CCACAAGTCCAGAAA-G-AAGATTTAAAGAACCAAAGTCTCTCTAGAATTTCAACCCACAAGTCC
1 CCACAAGTCCA-AAAGGAAAGA-TTAAAGAACCAAAGTCTCTCTAGAATTCCAACCCACAAGTTC
19019284 AAGA
64 AAGA
19019288 CGAAAGATGT
Statistics
Matches: 137, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
104 4 0.03
105 48 0.35
106 34 0.25
107 41 0.30
108 10 0.07
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (107 bp):
CCACAAGTCCAAAAGGAAAGATTAAAGAACCAAAGTCTCTCTAGAATTCCAACCCACAAGTTCAA
GAAAGGAGATCTGAAGAAACAAAGCCCCTCTAAAGATGCAGA
Found at i:19021637 original size:22 final size:22
Alignment explanation
Indices: 19021593--19021637 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19021583 TTAAAAAAAT
* *
19021593 AAAAAATTAATATTTAACTTTA
1 AAAAAATTAATATTAAAATTTA
19021615 AAAAAATTAAT-TTAAAATATTA
1 AAAAAATTAATATTAAAAT-TTA
19021637 A
1 A
19021638 TATTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAAATTAATATTAAAATTTA
Found at i:19021813 original size:62 final size:62
Alignment explanation
Indices: 19021728--19021848 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 62
19021718 ATAAATGGAA
* * * * * *
19021728 TAAATCTTACTAATAATTGTAATAAAAACTATTTCAATGATCATCATTTGATGAATACACTT
1 TAAATCTTACTAAAAACTATAATAAAAAATATTTCAATGATCATCAGTTAATGAATACACTT
*
19021790 TAAATCTTACTAAAAACTATAATAAAAAATATTTTAATGATCATCAGTTAATGAATACA
1 TAAATCTTACTAAAAACTATAATAAAAAATATTTCAATGATCATCAGTTAATGAATACA
19021849 TATTTACAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (62 bp):
TAAATCTTACTAAAAACTATAATAAAAAATATTTCAATGATCATCAGTTAATGAATACACTT
Found at i:19024246 original size:39 final size:34
Alignment explanation
Indices: 19024163--19024252 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 34
19024153 TAATAAAATT
* *
19024163 TAAATTTAAATAATCAAAAACAAATATCTTAAACA
1 TAAATTTAAATAA-CTAAAACAAATATCATAAACA
*
19024198 TAAACTTAAATAACTAAAACAAATATTCATACAACGATA
1 TAAATTTAAATAACTAAAACAAATA-TCATA-AAC---A
19024237 TAAATTTAAATAACTA
1 TAAATTTAAATAACTA
19024253 TACATAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
34 11 0.24
35 16 0.35
36 3 0.07
39 16 0.35
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (34 bp):
TAAATTTAAATAACTAAAACAAATATCATAAACA
Found at i:19025014 original size:133 final size:133
Alignment explanation
Indices: 19024762--19025163 Score: 581
Period size: 133 Copynumber: 3.0 Consensus size: 133
19024752 ATCTCAATTG
* *
19024762 GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAACCGGCAGGGCGTGGCTGTGGCTG
1 GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAGCCGGCAAGGCGTGGCTGTGGCTG
* * **
19024827 GGCGGCTAGGGAGAAAAGAAAGATGAACTGATGAAGGA-ATCGAGCATGGCGTGGTAGGCCGGCA
66 GGCGGCTGGGGAGAAAAGAAAGATGAACTGATGAAGGAGCT-GAGTGTGGCGTGGTAGGCCGGCA
*
19024891 GCTA
130 ACTA
* * *
19024895 GGGAAGAACAAGGGTGTGGGGCTTGGGGCGACACCAAGGCAGCCGGCAAGGCGTGGCTATGGCTG
1 GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAGCCGGCAAGGCGTGGCTGTGGCTG
* * * * *
19024960 GGTGGTTGGGGAGAAAAGAAAGATGAATTGATGAAGGAGCTGAGTGTGGTGTGGTAGGCCGACAA
66 GGCGGCTGGGGAGAAAAGAAAGATGAACTGATGAAGGAGCTGAGTGTGGCGTGGTAGGCCGGCAA
*
19025025 CTG
131 CTA
* * * *
19025028 GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAGTCGGCAAGGAGTGGTTGTAGCTG
1 GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAGCCGGCAAGGCGTGGCTGTGGCTG
* * *
19025093 GGCGGCTGGAGAGAAAAGAAAAATGAACTGATGAAGGAGCCGAGTGTGGCGTGGTAGGCCGGCAA
66 GGCGGCTGGGGAGAAAAGAAAGATGAACTGATGAAGGAGCTGAGTGTGGCGTGGTAGGCCGGCAA
19025158 CTA
131 CTA
19025161 GGG
1 GGG
19025164 TCTTGGGGAA
Statistics
Matches: 236, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 235 1.00
134 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.45, T:0.14
Consensus pattern (133 bp):
GGGAAGAACAAGGGCGTGGGGCTTGGGGCGACACCGAGGCAGCCGGCAAGGCGTGGCTGTGGCTG
GGCGGCTGGGGAGAAAAGAAAGATGAACTGATGAAGGAGCTGAGTGTGGCGTGGTAGGCCGGCAA
CTA
Found at i:19026530 original size:17 final size:17
Alignment explanation
Indices: 19026500--19026550 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
19026490 AAATAAAAAA
*
19026500 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
19026516 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
19026533 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
19026551 ATATAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:19029321 original size:2 final size:2
Alignment explanation
Indices: 19029314--19029345 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19029304 TGTAATATTA
19029314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19029346 GCATAATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19030817 original size:34 final size:35
Alignment explanation
Indices: 19030774--19030855 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
19030764 CCCTCATAAG
* *
19030774 CTCTCTCACAAACTGGTGGCA-CAGCCCCTCATTC
1 CTCTCTCACAAACTGGTAGCACCAACCCCTCATTC
* *
19030808 CTCTCTCACAAACTGGTAGCACCAACCCCTCTTTT
1 CTCTCTCACAAACTGGTAGCACCAACCCCTCATTC
19030843 CTCTCTCACAAAC
1 CTCTCTCACAAAC
19030856 CAGCAACTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 20 0.47
35 23 0.53
ACGTcount: A:0.23, C:0.41, G:0.10, T:0.26
Consensus pattern (35 bp):
CTCTCTCACAAACTGGTAGCACCAACCCCTCATTC
Found at i:19032845 original size:21 final size:22
Alignment explanation
Indices: 19032810--19032850 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19032800 ACATCACCTC
19032810 ATTAATAAATAAATATAAAATT
1 ATTAATAAATAAATATAAAATT
*
19032832 ATTAA-AATTAAATATAAAA
1 ATTAATAAATAAATATAAAA
19032851 AATGTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTAATAAATAAATATAAAATT
Found at i:19038061 original size:13 final size:13
Alignment explanation
Indices: 19038043--19038067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19038033 TTCCAGAAAA
19038043 TTTATAAAATCAT
1 TTTATAAAATCAT
19038056 TTTATAAAATCA
1 TTTATAAAATCA
19038068 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:19043004 original size:63 final size:63
Alignment explanation
Indices: 19042932--19043057 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
19042922 TAGTGTAAAA
19042932 TCCTACGAAAATATTACATGTCCTTGGGATCATCATCTTAATATGATCTTATCCAAAAATTCT
1 TCCTACGAAAATATTACATGTCCTTGGGATCATCATCTTAATATGATCTTATCCAAAAATTCT
19042995 TCCTACGAAAATATTACATGTCCTTGGGATCATCATCTTAATATGATCTTATCCAAAAATTCT
1 TCCTACGAAAATATTACATGTCCTTGGGATCATCATCTTAATATGATCTTATCCAAAAATTCT
19043058 ACTCCGAGTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (63 bp):
TCCTACGAAAATATTACATGTCCTTGGGATCATCATCTTAATATGATCTTATCCAAAAATTCT
Found at i:19043781 original size:5 final size:5
Alignment explanation
Indices: 19043773--19043807 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
19043763 CAATCCAACC
*
19043773 TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT
19043808 GGACTTGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TAACT
Found at i:19043873 original size:15 final size:15
Alignment explanation
Indices: 19043853--19043894 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
19043843 TAAAACAACC
19043853 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
19043868 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
19043883 TTAAAATCAAAA
1 TTAAAATCAAAA
19043895 TATCTGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:19045300 original size:13 final size:13
Alignment explanation
Indices: 19045282--19045306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19045272 TTTCAGAAAA
19045282 TTTATAAAATCAT
1 TTTATAAAATCAT
19045295 TTTATAAAATCA
1 TTTATAAAATCA
19045307 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:19048012 original size:42 final size:42
Alignment explanation
Indices: 19047966--19048082 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
19047956 CGCTTATGTG
* *
19047966 CACTCCTACTCGCACATAGCCGGGTCATCATCGGCGTATGCA
1 CACTCCTACTCGCACATAGTCGGGTCATCATCGGAGTATGCA
* *
19048008 CACTCCTACTCGCACATAGTCAGGTCATCATAGGAGTATGCA
1 CACTCCTACTCGCACATAGTCGGGTCATCATCGGAGTATGCA
19048050 CACTCCTACTCGCACATAGTCGGGTCATCATCG
1 CACTCCTACTCGCACATAGTCGGGTCATCATCG
19048083 TTACACAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (42 bp):
CACTCCTACTCGCACATAGTCGGGTCATCATCGGAGTATGCA
Found at i:19048702 original size:19 final size:19
Alignment explanation
Indices: 19048655--19048694 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
19048645 AAGTCACTAA
19048655 AAATTGAAGAAGCTGCTGG
1 AAATTGAAGAAGCTGCTGG
19048674 AAATTGAAGAAGCTGCTGG
1 AAATTGAAGAAGCTGCTGG
19048693 AA
1 AA
19048695 GGATAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.20
Consensus pattern (19 bp):
AAATTGAAGAAGCTGCTGG
Found at i:19052322 original size:18 final size:19
Alignment explanation
Indices: 19052299--19052349 Score: 95
Period size: 18 Copynumber: 2.7 Consensus size: 19
19052289 TTAATATTTT
19052299 AATATTATTTTATTAA-AA
1 AATATTATTTTATTAATAA
19052317 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
19052336 AATATTATTTTATT
1 AATATTATTTTATT
19052350 CTAAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:19059366 original size:21 final size:20
Alignment explanation
Indices: 19059332--19059379 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
19059322 TTCTCTTATA
19059332 TAAAAATTAAAAATAAAAAG
1 TAAAAATTAAAAATAAAAAG
*
19059352 TAAAGATTGAAAAATAAAAAG
1 TAAAAATT-AAAAATAAAAAG
19059373 -AAAAATT
1 TAAAAATT
19059380 CACTATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAAAATTAAAAATAAAAAG
Found at i:19061466 original size:45 final size:45
Alignment explanation
Indices: 19061417--19061508 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 45
19061407 TACTTTTCTC
* *
19061417 TTATAATTGTTCTTTCAA-TTCATATTTCATAATATTATTTAGATT
1 TTATAATTATTCTTTCAACTT-ATATTTCATAATATTATTTAAATT
19061462 TTATAATTATTCTTTCAACTTATATTTCATAATATTATTTAAATT
1 TTATAATTATTCTTTCAACTTATATTTCATAATATTATTTAAATT
19061507 TT
1 TT
19061509 TGTTAATAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (45 bp):
TTATAATTATTCTTTCAACTTATATTTCATAATATTATTTAAATT
Found at i:19065386 original size:2 final size:2
Alignment explanation
Indices: 19065379--19065404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19065369 ATCAAAACAT
19065379 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
19065405 CCAGCATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19087409 original size:53 final size:53
Alignment explanation
Indices: 19087351--19087456 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
19087341 ACATGTCAAC
*
19087351 ATGCCATATCAATGCCATATGATATAAAATGATAAGTAACATTTTGATTAAGT
1 ATGCCATACCAATGCCATATGATATAAAATGATAAGTAACATTTTGATTAAGT
* *
19087404 ATGCCATACCAATGCCATGTGATGTAAAATGATAAGTAACATTTTGATTAAGT
1 ATGCCATACCAATGCCATATGATATAAAATGATAAGTAACATTTTGATTAAGT
19087457 TAACAAATAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (53 bp):
ATGCCATACCAATGCCATATGATATAAAATGATAAGTAACATTTTGATTAAGT
Found at i:19088587 original size:23 final size:23
Alignment explanation
Indices: 19088571--19088626 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
19088561 TTAATATTTC
19088571 AAAATATTAATGATTAAATTATA
1 AAAATATTAATGATTAAATTATA
*
19088594 AAAATATTAAT-TTATAAATTAT-
1 AAAATATTAATGAT-TAAATTATA
*
19088616 CAAATATTAAT
1 AAAATATTAAT
19088627 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATATTAATGATTAAATTATA
Found at i:19092350 original size:17 final size:17
Alignment explanation
Indices: 19092310--19092351 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
19092300 TTTCAAGACA
19092310 ATTTATAAAATCATTTC
1 ATTTATAAAATCATTTC
* *
19092327 ATTTA-AACA-CATTTT
1 ATTTATAAAATCATTTC
19092342 ATTTATAAAA
1 ATTTATAAAA
19092352 CTTAGAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATAAAATCATTTC
Done.