Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 104 of 444
Found at i:25544190 original size:10 final size:10
Alignment explanation
Indices: 25544177--25544268 Score: 50
Period size: 10 Copynumber: 9.2 Consensus size: 10
25544167 TAAATAATGA
25544177 AATAATATAT
1 AATAATATAT
* *
25544187 AATAA-AGAA
1 AATAATATAT
*
25544196 AGATAATATAGGG
1 A-ATAATATA--T
25544209 AATAATATAT
1 AATAATATAT
25544219 AATAATATAT
1 AATAATATAT
* *
25544229 GAT-ATGTAAT
1 AATAATAT-AT
25544239 AA-AATATAT
1 AATAATATAT
25544248 -AT-ATATAT
1 AATAATATAT
*
25544256 AAATAAAATAT
1 -AATAATATAT
25544267 AA
1 AA
25544269 ATGATGTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
8 7 0.11
9 8 0.13
10 31 0.50
11 7 0.11
12 8 0.13
13 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (10 bp):
AATAATATAT
Found at i:25544238 original size:17 final size:16
Alignment explanation
Indices: 25544209--25544258 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
25544199 TAATATAGGG
25544209 AATA-ATATATAATAA
1 AATATATATATAATAA
* *
25544224 TATATGATATGTAATAA
1 AATAT-ATATATAATAA
25544241 AATATATATATATATAA
1 AATATATATATA-ATAA
25544258 A
1 A
25544259 TAAAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.11
16 6 0.21
17 19 0.68
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
AATATATATATAATAA
Found at i:25544246 original size:19 final size:19
Alignment explanation
Indices: 25544217--25544285 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
25544207 GGAATAATAT
*
25544217 ATAATAATATATGATATGTA
1 ATAA-AATATATAATATGTA
*
25544237 ATAAAATATATATATATATAA
1 ATAAAATATATA-ATATGT-A
*
25544258 ATAAAATATA-AATGATGTG
1 ATAAAATATATAAT-ATGTA
25544277 ATAAAATAT
1 ATAAAATAT
25544286 CATATAAGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 18 0.43
20 13 0.31
21 11 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAAAATATATAATATGTA
Found at i:25544473 original size:12 final size:11
Alignment explanation
Indices: 25544458--25544502 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
25544448 ATAAAATGTG
25544458 TAATAATATAAA
1 TAAT-ATATAAA
*
25544470 TAATATAATGAA
1 TAATAT-ATAAA
25544482 TAATATATAAAA
1 TAATATAT-AAA
25544494 TAATATATA
1 TAATATATA
25544503 CTATTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 5 0.17
12 24 0.83
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
TAATATATAAA
Found at i:25554266 original size:40 final size:40
Alignment explanation
Indices: 25554211--25554352 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
25554201 TATTCGAATG
*
25554211 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
25554251 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
25554291 ATATCCGGGTTAAGACCCGAAGGAATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
25554331 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25554353 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 13 0.14
40 76 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:25560144 original size:45 final size:45
Alignment explanation
Indices: 25560095--25560192 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
25560085 TAAGCCATAG
*
25560095 TCTTACTCAT-TTATATCATGATGCCATAACATCTTAT-AGTTATAA
1 TCTTACTCATCTT-TATCATAATGCCATAACATCTT-TCAGTTATAA
* * **
25560140 TCTTACTCATCTTTATCATAATGTCATAGCATCTTTCAGTTATGG
1 TCTTACTCATCTTTATCATAATGCCATAACATCTTTCAGTTATAA
25560185 TCTTACTC
1 TCTTACTC
25560193 GTTTTAGGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 43 0.93
46 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (45 bp):
TCTTACTCATCTTTATCATAATGCCATAACATCTTTCAGTTATAA
Found at i:25561820 original size:4 final size:4
Alignment explanation
Indices: 25561811--25561840 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
25561801 AGAAGGAGAC
25561811 TAAT TAAT TAAT TAAT TAAT TAAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT T-AAT TAAT T
25561841 TCAATGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:25562374 original size:13 final size:13
Alignment explanation
Indices: 25562356--25562382 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25562346 GCCATCAACA
25562356 CCGTGATTCCAGG
1 CCGTGATTCCAGG
25562369 CCGTGATTCCAGG
1 CCGTGATTCCAGG
25562382 C
1 C
25562383 TTCGAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CCGTGATTCCAGG
Found at i:25563442 original size:20 final size:20
Alignment explanation
Indices: 25563414--25563456 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
25563404 TTTTATATTA
25563414 TATATTATAAAATTATTTTAT
1 TATATTATAAAATTA-TTTAT
**
25563435 TATA-TATATTATTATTTAT
1 TATATTATAAAATTATTTAT
25563454 TAT
1 TAT
25563457 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 8 0.40
21 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTATAAAATTATTTAT
Found at i:25563447 original size:43 final size:41
Alignment explanation
Indices: 25563342--25563454 Score: 104
Period size: 43 Copynumber: 2.6 Consensus size: 41
25563332 ATATGTTTAT
* * *
25563342 TTTTATTATTATATATGTATATTTT-TTTATATATTGTTAATTG
1 TTTTATTA-TATATAT-TAT-TTTTATTTATATATTATAAATTA
*
25563385 TTTTATT-TTTATACCTTATTTTTATATTATATATTATAAAATTA
1 TTTTATTATATATA--TTATTTTTAT-TTATATATTAT-AAATTA
25563429 TTTTATTATATATATTATTATTTATT
1 TTTTATTATATATATTATT-TTTATT
25563455 ATGTTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
41 9 0.16
42 4 0.07
43 24 0.41
44 16 0.28
45 5 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (41 bp):
TTTTATTATATATATTATTTTTATTTATATATTATAAATTA
Found at i:25563822 original size:15 final size:15
Alignment explanation
Indices: 25563802--25563835 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25563792 ATTATACATA
*
25563802 TATTTAATTATTATT
1 TATTTAATTATTATG
*
25563817 TATTTATTTATTATG
1 TATTTAATTATTATG
25563832 TATT
1 TATT
25563836 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTAATTATTATG
Found at i:25568684 original size:12 final size:12
Alignment explanation
Indices: 25568667--25568691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25568657 AACACCATTA
25568667 AAGCAATTTTCC
1 AAGCAATTTTCC
25568679 AAGCAATTTTCC
1 AAGCAATTTTCC
25568691 A
1 A
25568692 CCAAGATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AAGCAATTTTCC
Found at i:25571723 original size:22 final size:22
Alignment explanation
Indices: 25571680--25571723 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25571670 AGAGGTTATA
25571680 GTATCTCATATCAAAGCATATC
1 GTATCTCATATCAAAGCATATC
*
25571702 GTATCTCATATCATAGCATATC
1 GTATCTCATATCAAAGCATATC
25571724 CTACCCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
GTATCTCATATCAAAGCATATC
Found at i:25575017 original size:10 final size:10
Alignment explanation
Indices: 25575002--25575027 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25574992 TATCATATTT
25575002 CATATCATAG
1 CATATCATAG
25575012 CATATCATAG
1 CATATCATAG
25575022 CATATC
1 CATATC
25575028 TTCCCCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (10 bp):
CATATCATAG
Found at i:25575020 original size:22 final size:22
Alignment explanation
Indices: 25574942--25575020 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
25574932 TAAAATATTG
* *
25574942 AAGCTTATCATATCTCATATCA
1 AAGCATATCATATTTCATATCA
* * * *
25574964 GAGCATATTATATTTCGTATAAA
1 AAGCATATCATATTTCATAT-CA
* *
25574987 AAACGTATCATATTTCATATCA
1 AAGCATATCATATTTCATATCA
*
25575009 TAGCATATCATA
1 AAGCATATCATA
25575021 GCATATCTTC
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
22 25 0.61
23 16 0.39
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (22 bp):
AAGCATATCATATTTCATATCA
Found at i:25575983 original size:20 final size:20
Alignment explanation
Indices: 25575947--25575984 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25575937 ATACCTGAAT
*
25575947 AAAATGTAAAGTACCAACTA
1 AAAATGTAAAATACCAACTA
25575967 AAAAT-TAAAATATCCAAC
1 AAAATGTAAAATA-CCAAC
25575985 AGTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATGTAAAATACCAACTA
Found at i:25584412 original size:46 final size:44
Alignment explanation
Indices: 25584308--25584429 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 44
25584298 ACATATCTGT
25584308 GCCGATGCCATGTCCCAGACATGGTCTTACACTTACACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTTACACATCTCGTA
* * *
25584354 GCAGATGCATGTCCCAGACATGTGTTACA-TTGACTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTT-AC--ACATCTCGTA
25584399 GGCCGATGCATGTCCCAGAC-TGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
25584430 AGCACTCGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
43 2 0.03
44 9 0.14
45 23 0.35
46 32 0.48
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTTACACATCTCGTA
Found at i:25591985 original size:44 final size:45
Alignment explanation
Indices: 25591862--25592129 Score: 158
Period size: 46 Copynumber: 5.7 Consensus size: 45
25591852 GGGGTAAGGT
* *
25591862 GCCGATGCCATGTCCCAGACATGGTCTTACAC-AAGCTCTAGCATATCTG-T
1 GCCGATG-CATGT-CCAGACAT-GTCTTACACTAA-CT-TA-CATCTC-GAG
*
25591912 GCCGATGCCATGCTCCAGACATGGTCTTACACTGAC-T-CATCTCGTA-
1 GCCGATG-CATG-TCCAGACAT-GTCTTACACTAACTTACATCTCG-AG
* *
25591958 GCTGATGCATGTCCTAGACATGTCTTACACTAACTTACGTCTCGAG
1 GCCGATGCATGTCC-AGACATGTCTTACACTAACTTACATCTCGAG
* * *
25592004 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCAAT
1 GCCGATGCATGT-CCAGACATGTCTTACACTA--ACTTACATCTCGAG
* * * *
25592050 GCCGAAGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATGAT-GTG
1 GCCGATG-CATGT-CCAGACAT-GTCTTACACTAACT-TACAT-CTCGAG
* *
25592098 GCCGATGCGTGTCCCTGACATGTCTTACACTA
1 GCCGATGCATGT-CCAGACATGTCTTACACTA
25592130 GCTCACAATA
Statistics
Matches: 184, Mismatches: 18, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
44 15 0.08
45 13 0.07
46 70 0.38
47 29 0.16
48 23 0.12
49 1 0.01
50 31 0.17
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCAGACATGTCTTACACTAACTTACATCTCGAG
Found at i:25592001 original size:46 final size:43
Alignment explanation
Indices: 25591912--25592134 Score: 164
Period size: 46 Copynumber: 4.8 Consensus size: 43
25591902 GCATATCTGT
*
25591912 GCCGATGCCATGCTCCAGACATGGTCTTACACTGACTCATCTCGTA-
1 GCCGATG-CATG-TCCAGACAT-GTCTTACACTAACTCATCTCG-AG
* *
25591958 GCTGATGCATGTCCTAGACATGTCTTACACTAACTTACGTCTCGAG
1 GCCGATGCATGTCC-AGACATGTCTTACACTAAC-T-CATCTCGAG
* * *
25592004 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGT-CCAGACATGTCTTACACTA--ACTCATCTCGAG
* *
25592050 GCCGAAGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCAT-GATGTG
1 GCCGATG-CATGT-CCAGACAT-GTCTTACACTAACTCATC-TCGA---G
* * *
25592098 GCCGATGCGTGTCCCTGACATGTCTTACACTAGCTCA
1 GCCGATGCATGT-CCAGACATGTCTTACACTAACTCA
25592135 CAATAACCCA
Statistics
Matches: 150, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
44 15 0.10
45 15 0.10
46 72 0.48
47 29 0.19
48 19 0.13
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
GCCGATGCATGTCCAGACATGTCTTACACTAACTCATCTCGAG
Found at i:25592077 original size:94 final size:93
Alignment explanation
Indices: 25591861--25592131 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 93
25591851 TGGGGTAAGG
*
25591861 TGCCGATGCCATGTCCCAGACATGGTCTTACAC-AAGCTCTAGCATATCTGTGCCGATGCCATG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAA-CTCTA-CATATC-GGGCCGATG-CATGT
*
25591924 CTCCAGACATGGTCTTACACT-G-ACTCATCTCG
62 C-CCAGACAT-GTCTTACACTAGCACTCATCTCA
* * * *
25591956 TAGCTGATG-CATGTCCTAGACAT-GTCTTACACTAACT-TACGTCTCGAGGCCGATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTACATATCG-GGCCGATGCATGTCC
*
25592018 CAGACATGTCTTACACTAGCACTCGTCTCAA
64 CAGACATGTCTTACACTAGCACTCATCTC-A
* * *
25592049 TGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATGAT-GTGGCCGATGCGTGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTACAT-ATCG-GGCCGATGCATGTCC
*
25592112 CTGACATGTCTTACACTAGC
64 CAGACATGTCTTACACTAGC
25592132 TCACAATAAC
Statistics
Matches: 149, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
90 10 0.07
91 14 0.09
92 25 0.17
93 16 0.11
94 60 0.40
95 18 0.12
96 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTACATATCGGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCA
Found at i:25592123 original size:140 final size:141
Alignment explanation
Indices: 25591862--25592129 Score: 332
Period size: 140 Copynumber: 1.9 Consensus size: 141
25591852 GGGGTAAGGT
* ** *
25591862 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGCCGATGCCATGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACTA-CATATCAATGCCGAAGCCATGCTC
* *
25591927 CAGACATGGTCTTACACTGACTCATCTCGTAGCTGATGCATGTCCTAGACATGTCTTACACTAAC
65 CAGACATGGTCTTACACTGACTCATATCGTAGCCGATGCATGTCCTAGACATGTCTTACACTAAC
25591992 TTACGTCTCGAG
130 TTACGTCTCGAG
* * *
25592004 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGAAGCCATG-TCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACTACATATCAATGCCGAAGCCATGCT-C
* * *
25592065 CAGACATGGTCTTACACTAGCTCTCATGAT-GTGGCCGATGCGTGTCCCT-GACATGTCTTACAC
65 CAGACATGGTCTTACACT-G-ACTCAT-ATCGTAGCCGATGCATGT-CCTAGACATGTCTTACAC
25592128 TA
126 TA
25592130 GCTCACAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
137 1 0.01
138 35 0.32
139 1 0.01
140 47 0.43
141 18 0.17
142 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACTACATATCAATGCCGAAGCCATGCTCC
AGACATGGTCTTACACTGACTCATATCGTAGCCGATGCATGTCCTAGACATGTCTTACACTAACT
TACGTCTCGAG
Found at i:25598153 original size:22 final size:22
Alignment explanation
Indices: 25598128--25598200 Score: 105
Period size: 22 Copynumber: 3.3 Consensus size: 22
25598118 TAATGAAGGT
25598128 TATCATATCTCATATCA-AAGCA
1 TATCATATCTCATATCAGAA-CA
25598150 TATCATA-CTTCATATCAGAACA
1 TATCATATC-TCATATCAGAACA
*
25598172 TATCATATTTCATATCAGAACA
1 TATCATATCTCATATCAGAACA
25598194 TATCATA
1 TATCATA
25598201 GCATATCCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
21 1 0.02
22 44 0.94
23 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (22 bp):
TATCATATCTCATATCAGAACA
Found at i:25603629 original size:28 final size:28
Alignment explanation
Indices: 25603597--25603652 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25603587 ATCTTTCTAT
25603597 AACAAACGATTCATCGGAGAAGCTATCA
1 AACAAACGATTCATCGGAGAAGCTATCA
25603625 AACAAACGATTCATCGGAGAAGCTATCA
1 AACAAACGATTCATCGGAGAAGCTATCA
25603653 TTGAAAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (28 bp):
AACAAACGATTCATCGGAGAAGCTATCA
Found at i:25603978 original size:39 final size:39
Alignment explanation
Indices: 25603924--25603998 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
25603914 TTCGAGAGTA
25603924 AACCAAAATATCATCTATAAATACCACCACAAACCTTTC
1 AACCAAAATATCATCTATAAATACCACCACAAACCTTTC
25603963 AACCAAAATATCATCTATAAATACCACCACAAACCT
1 AACCAAAATATCATCTATAAATACCACCACAAACCT
25603999 GTGAAAATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (39 bp):
AACCAAAATATCATCTATAAATACCACCACAAACCTTTC
Found at i:25609413 original size:23 final size:22
Alignment explanation
Indices: 25609369--25609439 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
25609359 AGTTACCACT
* * *
25609369 AAAACACAAAATGGCAGCAAAG
1 AAAAAACAAAATGGAAGAAAAG
*
25609391 CAAAAAGCAAAATGGAAGAAAAG
1 -AAAAAACAAAATGGAAGAAAAG
25609414 AATAAAACAAAA-GGAAGAAAAG
1 AA-AAAACAAAATGGAAGAAAAG
25609436 AAAA
1 AAAA
25609440 GAAAAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 26 0.62
ACGTcount: A:0.68, C:0.10, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAAAACAAAATGGAAGAAAAG
Found at i:25609436 original size:5 final size:5
Alignment explanation
Indices: 25609428--25609454 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25609418 AAACAAAAGG
25609428 AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AA
25609455 AACAAGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:25611719 original size:31 final size:32
Alignment explanation
Indices: 25611684--25611745 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
25611674 CAGTGATTAC
25611684 ATAGTC-CTAATGGTGTAAAATTTGATCGAGT
1 ATAGTCGCTAATGGTGTAAAATTTGATCGAGT
25611715 ATAGTCGCTAATGGTGTAAAATTTGATCGAG
1 ATAGTCGCTAATGGTGTAAAATTTGATCGAG
25611746 CTCTTGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (32 bp):
ATAGTCGCTAATGGTGTAAAATTTGATCGAGT
Found at i:25611917 original size:20 final size:20
Alignment explanation
Indices: 25611894--25611939 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25611884 ATAAATATTT
*
25611894 AAAATTAGGAACAATAAATA
1 AAAATTAGAAACAATAAATA
**
25611914 AAAATTTTAAACAATAAATA
1 AAAATTAGAAACAATAAATA
25611934 ATAAAT
1 A-AAAT
25611940 AAAATGGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAATTAGAAACAATAAATA
Found at i:25613015 original size:26 final size:26
Alignment explanation
Indices: 25612986--25613060 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
25612976 ACCATACTTG
25612986 CAAGTGAATTCAAGCAGTGTTGAATC
1 CAAGTGAATTCAAGCAGTGTTGAATC
** * *
25613012 CAAGCAAATTGAGGCA---TTG----
1 CAAGTGAATTCAAGCAGTGTTGAATC
25613031 CAAGTGAATTCAAGCAGTGTTGAATC
1 CAAGTGAATTCAAGCAGTGTTGAATC
25613057 CAAG
1 CAAG
25613061 CAAATTGAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 12 0.35
22 3 0.09
23 3 0.09
26 16 0.47
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (26 bp):
CAAGTGAATTCAAGCAGTGTTGAATC
Found at i:25613032 original size:45 final size:45
Alignment explanation
Indices: 25612983--25613075 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
25612973 TAAACCATAC
25612983 TTGCAAGTGAATTCAAGCAGTGTTGAATCCAAGCAAATTGAGGCA
1 TTGCAAGTGAATTCAAGCAGTGTTGAATCCAAGCAAATTGAGGCA
25613028 TTGCAAGTGAATTCAAGCAGTGTTGAATCCAAGCAAATTGAGGCA
1 TTGCAAGTGAATTCAAGCAGTGTTGAATCCAAGCAAATTGAGGCA
25613073 TTG
1 TTG
25613076 AGTAAGAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (45 bp):
TTGCAAGTGAATTCAAGCAGTGTTGAATCCAAGCAAATTGAGGCA
Found at i:25618739 original size:31 final size:32
Alignment explanation
Indices: 25618701--25618773 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
25618691 TAGGTTGTAT
25618701 TATATATAATACATATGTGTGGGTT-TTG-TTA
1 TATATATAATACATATGTGT-GGTTCTTGATTA
*
25618732 TATATATAATATATATGTGTGGTTCTTGATTA
1 TATATATAATACATATGTGTGGTTCTTGATTA
25618764 TATATATAAT
1 TATATATAAT
25618774 GTATATGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 4 0.10
31 22 0.56
32 13 0.33
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (32 bp):
TATATATAATACATATGTGTGGTTCTTGATTA
Found at i:25620379 original size:27 final size:29
Alignment explanation
Indices: 25620349--25620402 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
25620339 TTGATGAATT
* *
25620349 TGAGTAATTT-GGG-CTAAATTGTGAAGA
1 TGAGAAATTTAGGGACTAAAATGTGAAGA
25620376 TGAGAAATTTAGGGACTAAAATGTGAA
1 TGAGAAATTTAGGGACTAAAATGTGAA
25620403 ATAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 3 0.13
29 11 0.48
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (29 bp):
TGAGAAATTTAGGGACTAAAATGTGAAGA
Found at i:25624771 original size:139 final size:139
Alignment explanation
Indices: 25624521--25624782 Score: 443
Period size: 139 Copynumber: 1.9 Consensus size: 139
25624511 GACTAATTTA
* * *
25624521 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAATGGAATTTTGGGTTGCTATAGTTATGAAA
1 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAATGGAATTGTGGGATGCTATAGTTACGAAA
**
25624586 ATGATTCAGCTAGGCTTAAAGTGTAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGTGCA
66 ATGATTCAGCTAGGCTTAAAGTACAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGTGCA
25624651 AAGAAATTG
131 AAGAAATTG
*
25624660 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGATGCTATAGTTACGAAA
1 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAATGGAATTGTGGGATGCTATAGTTACGAAA
* * *
25624725 ATGATTCAGCTAGGTTTGAAGTACAAATAAATTGAATGAAAATCATTTTACGAGCATA
66 ATGATTCAGCTAGGCTTAAAGTACAAAGAAATTGAATGAAAATCATTTTACGAGCATA
25624783 GGGGCAAAAG
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
139 114 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (139 bp):
TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAATGGAATTGTGGGATGCTATAGTTACGAAA
ATGATTCAGCTAGGCTTAAAGTACAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGTGCA
AAGAAATTG
Found at i:25633108 original size:41 final size:41
Alignment explanation
Indices: 25633055--25633173 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
25633045 AATGCTATCA
* *
25633055 CATATCGATGCCACTGTCCCAGACAGGGTCTTACAC-ATAT
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGATAT
* *
25633095 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGTTTT
1 CATAT-CGATGCCAATGTCCCAGACATGGTCTTACACGATAT
25633137 C-TCACTTCGATGCCAATGTCCCAGACATGGTCTTACA
1 CAT-A--TCGATGCCAATGTCCCAGACATGGTCTTACA
25633174 TGAATCACAC
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.07
41 30 0.43
42 4 0.06
43 30 0.43
44 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
CATATCGATGCCAATGTCCCAGACATGGTCTTACACGATAT
Found at i:25633161 original size:43 final size:41
Alignment explanation
Indices: 25633055--25633173 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 41
25633045 AATGCTATCA
* *
25633055 CATA-TCGATGCCACTGTCCCAGACAGGGTCTTACACATAT
1 CATATTCGATGCCAATGTCCCAGACATGGTCTTACACATAT
* * *
25633095 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGTTTT
1 CATATTCGATGCCAATGTCCCAGACATGGTCTTACAC-ATAT
25633137 C-TCACTTCGATGCCAATGTCCCAGACATGGTCTTACA
1 CAT-A-TTCGATGCCAATGTCCCAGACATGGTCTTACA
25633174 TGAATCACAC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.06
41 30 0.43
42 4 0.06
43 31 0.45
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
CATATTCGATGCCAATGTCCCAGACATGGTCTTACACATAT
Found at i:25637291 original size:103 final size:103
Alignment explanation
Indices: 25637109--25637299 Score: 267
Period size: 103 Copynumber: 1.9 Consensus size: 103
25637099 AATTTTATAT
* * * **
25637109 TTTTTTGTTTAAGAATTTTTTGGCCCTTTTGACGTGAAGTAGAATGACAATGCAAGCACCCCACC
1 TTTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCCACC
* *
25637174 TCAGTTACTTAGCCCAGCACACTCCTAATTTATTATTA
66 TCAGTTACTCAGCCCAACACACTCCTAATTTATTATTA
* * * *
25637212 TTTTTTGTTTAAAAATGTTTTGGTCTTTTTGACGCGAAGTGGAATGACAACCCAAGTACCCCACC
1 TTTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCCACC
25637277 -CTAGTTACTCAGCCCAACACACT
66 TC-AGTTACTCAGCCCAACACACT
25637300 ATTAATTTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
102 1 0.01
103 75 0.99
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (103 bp):
TTTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCCACC
TCAGTTACTCAGCCCAACACACTCCTAATTTATTATTA
Found at i:25645771 original size:4 final size:4
Alignment explanation
Indices: 25645764--25645789 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
25645754 AATGAATGGA
25645764 TGAG TGAG TGAG TGAG TGAG TGAG TG
1 TGAG TGAG TGAG TGAG TGAG TGAG TG
25645790 TTTTGATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (4 bp):
TGAG
Found at i:25646915 original size:18 final size:19
Alignment explanation
Indices: 25646894--25646933 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25646884 TTTTAAAAAA
25646894 TATAAAT-TTTGGAACTTT
1 TATAAATATTTGGAACTTT
* *
25646912 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAACTTT
25646931 TAT
1 TAT
25646934 TTTTGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
TATAAATATTTGGAACTTT
Found at i:25650591 original size:26 final size:26
Alignment explanation
Indices: 25650555--25650607 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25650545 TTAAAAGGTA
25650555 AGTTAAATTCTAAGCTATACGAACTT
1 AGTTAAATTCTAAGCTATACGAACTT
25650581 AGTTAAATTCTAAGCTATACGAACTT
1 AGTTAAATTCTAAGCTATACGAACTT
25650607 A
1 A
25650608 CTAAGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (26 bp):
AGTTAAATTCTAAGCTATACGAACTT
Found at i:25662981 original size:5 final size:5
Alignment explanation
Indices: 25662971--25662995 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25662961 AATAATAAAA
25662971 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
25662996 GCAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:25666601 original size:27 final size:27
Alignment explanation
Indices: 25666539--25666608 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
25666529 TCGATGAACC
* * * *
25666539 ATCCCCTGTTTAGTGTCCTATCATACT
1 ATCCCGTGTTTAATGTCCCATCAGACT
25666566 ATCCCGTGTTTAATGTCCCATCAGACT
1 ATCCCGTGTTTAATGTCCCATCAGACT
**
25666593 ATCTTGTGTTTAATGT
1 ATCCCGTGTTTAATGT
25666609 TTCATTGGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (27 bp):
ATCCCGTGTTTAATGTCCCATCAGACT
Found at i:25666861 original size:45 final size:45
Alignment explanation
Indices: 25666763--25666863 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
25666753 TGTTTAAGCC
* *
25666763 ATGGTCTTACTGATTTATATCATGATGCCATAGCATCTTACAACT
1 ATGGTCTTACTCATTTATATCATAATGCCATAGCATCTTACAACT
** * **
25666808 ATAATCTTACTCATCTT-TATCATAATGCCATAGCATCTTTCAGTT
1 ATGGTCTTACTCAT-TTATATCATAATGCCATAGCATCTTACAACT
25666853 ATGGTCTTACT
1 ATGGTCTTACT
25666864 TGTTTTAGGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
45 44 0.96
46 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41
Consensus pattern (45 bp):
ATGGTCTTACTCATTTATATCATAATGCCATAGCATCTTACAACT
Found at i:25669970 original size:47 final size:47
Alignment explanation
Indices: 25669910--25670039 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
25669900 GTGCGAATAA
* *
25669910 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
*** * * *
25669957 TACCTTGATTTGGCTACAAGCCCTGGTATAGGTACTCTGAGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
25670004 TACCTCGATTTGGCTATGGGCCATGGAATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
25670040 TTTTGATTGA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:25673174 original size:24 final size:24
Alignment explanation
Indices: 25673147--25673193 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
25673137 TTATTGGCAG
25673147 ATTCCTTCAACCTAATGGCTATCA
1 ATTCCTTCAACCTAATGGCTATCA
25673171 ATTCCTTCAACCTAATGGCTATC
1 ATTCCTTCAACCTAATGGCTATC
25673194 TAATGCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (24 bp):
ATTCCTTCAACCTAATGGCTATCA
Found at i:25673742 original size:45 final size:45
Alignment explanation
Indices: 25673689--25673820 Score: 142
Period size: 45 Copynumber: 2.9 Consensus size: 45
25673679 TATAGTCCTG
** * *
25673689 TTTACCATGATGTCATAGTGTGTTTTAGCCATGGTCTTACTCAT-
1 TTTACCATGATGTCATAGCATCTTATAGCCATGGTCTTACTCATC
* *
25673733 TTATACCATGATGCCATAGCATCTTATAGCTATGGTCTTACTCATC
1 TT-TACCATGATGTCATAGCATCTTATAGCCATGGTCTTACTCATC
* * **
25673779 TTTATCATAATGTCATAGCATCTT-TCAGTTATGGTCTTACTC
1 TTTACCATGATGTCATAGCATCTTAT-AGCCATGGTCTTACTC
25673821 GTTTTAGGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 3 0.04
45 70 0.93
46 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (45 bp):
TTTACCATGATGTCATAGCATCTTATAGCCATGGTCTTACTCATC
Found at i:25682006 original size:29 final size:29
Alignment explanation
Indices: 25681973--25682075 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
25681963 CCTCCGAACT
** * * *
25681973 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
25682002 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25682031 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25682060 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25682076 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:25695935 original size:27 final size:28
Alignment explanation
Indices: 25695879--25695948 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
25695869 AAATTTGTAC
25695879 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
25695907 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
25695934 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25695949 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:25701356 original size:19 final size:19
Alignment explanation
Indices: 25701332--25701368 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25701322 TTTTGATCAA
*
25701332 GAAAAAGCTCCTTATGTAG
1 GAAAAAGCTCCTCATGTAG
25701351 GAAAAAGCTCCTCATGTA
1 GAAAAAGCTCCTCATGTA
25701369 AGTTCGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (19 bp):
GAAAAAGCTCCTCATGTAG
Found at i:25703661 original size:27 final size:26
Alignment explanation
Indices: 25703617--25703668 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25703607 CTCCCTGCAA
*
25703617 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
25703644 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
25703669 GAAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:25703736 original size:26 final size:27
Alignment explanation
Indices: 25703707--25703766 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
25703697 CCGCATATAT
*
25703707 ATATCTGT-TCTGGTGCCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
25703733 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
25703760 ATATCTG
1 ATATCTG
25703767 GCAGCTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:25706410 original size:29 final size:28
Alignment explanation
Indices: 25706376--25706478 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
25706366 TACTCAATCA
*
25706376 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
25706405 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
25706434 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
25706463 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25706479 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:25725154 original size:206 final size:206
Alignment explanation
Indices: 25724800--25725355 Score: 889
Period size: 206 Copynumber: 2.7 Consensus size: 206
25724790 AAAAGATCTG
* * * *
25724800 ACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTTCTTGCAAGGAGCAAATCGAACACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAACACATAGCT
* * *
25724865 GATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGACGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
25724930 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGTAGATCTAACCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTT
* * *
25724995 CGGAT-GTTTAT
196 CAGATAATTT-C
* * *
25725006 ACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGGTTACAAGGAACAAATCGAATACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAACACATAGCT
25725071 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
25725136 AGAACAAATCGAAGTTTGGCGTCTTCATATTCGACGGAGGGCAGACACATAGCAAATCTCATCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTT
25725201 CAGATAATTTC
196 CAGATAATTTC
* * * * *
25725212 ACTGAAGCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAACACATAGCT
25725277 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
25725342 AGAACAAATCGAAG
131 AGAACAAATCGAAG
25725356 AAGCAGATTT
Statistics
Matches: 325, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
206 322 0.99
207 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAACACATAGCT
GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTT
CAGATAATTTC
Found at i:25727046 original size:24 final size:23
Alignment explanation
Indices: 25726992--25727051 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 23
25726982 TATATATATC
25726992 ATTTAT-TTATTTTAAAAAAACT
1 ATTTATATTATTTTAAAAAAACT
* *
25727014 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAAAACT
25727040 ATTTATA-TATTT
1 ATTTATATTATTT
25727052 ATATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 3 0.10
23 4 0.13
24 7 0.23
25 5 0.16
26 12 0.39
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATTATTTTAAAAAAACT
Found at i:25727053 original size:24 final size:26
Alignment explanation
Indices: 25726998--25727050 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
25726988 TATCATTTAT
25726998 TTATT-TTAAAAAAACTATACATATA
1 TTATTATTAAAAAAACTATACATATA
* **
25727023 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAAAACTATACATATA
25727049 TT
1 TT
25727051 TATATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTATTAAAAAAACTATACATATA
Found at i:25727144 original size:29 final size:25
Alignment explanation
Indices: 25727090--25727160 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
25727080 TTTTCCTATA
25727090 TATTATATTTTATTATATA-ACATT
1 TATTATATTTTATTATATATACATT
*
25727114 TATTATATTTTATTATATATTACTTT
1 TATTATATTTTATTATATA-TACATT
*
25727140 TTTTATATATGTTATT-TATAT
1 TATTATAT-T-TTATTATATAT
25727161 CGTATATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 19 0.46
26 12 0.29
27 5 0.12
28 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (25 bp):
TATTATATTTTATTATATATACATT
Found at i:25727182 original size:28 final size:28
Alignment explanation
Indices: 25727151--25727215 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
25727141 TTTATATATG
25727151 TTATTTATATCGTATATTA-TCTATTATA
1 TTATTTATATCGTATATTATTC-ATTATA
* **
25727179 TTATTTATGTTTTATATTATTCATTATA
1 TTATTTATATCGTATATTATTCATTATA
25727207 TTATTTATA
1 TTATTTATA
25727216 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
TTATTTATATCGTATATTATTCATTATA
Found at i:25727186 original size:16 final size:16
Alignment explanation
Indices: 25727167--25727214 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
25727157 ATATCGTATA
25727167 TTATCTATTATATTAT
1 TTATCTATTATATTAT
* *
25727183 TTATGTTTTATATTA-
1 TTATCTATTATATTAT
25727198 -T-TC-ATTATATTAT
1 TTATCTATTATATTAT
25727211 TTAT
1 TTAT
25727215 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
12 8 0.32
13 1 0.04
14 2 0.08
15 1 0.04
16 13 0.52
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATCTATTATATTAT
Found at i:25727437 original size:24 final size:27
Alignment explanation
Indices: 25727410--25727463 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
25727400 AAAACCAATA
25727410 TATT-TTATTT-TTATATATAAT-TAT
1 TATTCTTATTTATTATATATAATATAT
* *
25727434 TATTCTTTTTTATTATATATTATATAT
1 TATTCTTATTTATTATATATAATATAT
25727461 TAT
1 TAT
25727464 ATATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 5 0.20
26 10 0.40
27 6 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTCTTATTTATTATATATAATATAT
Found at i:25727456 original size:7 final size:7
Alignment explanation
Indices: 25727444--25727469 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25727434 TATTCTTTTT
25727444 TATTATA
1 TATTATA
25727451 TATTATA
1 TATTATA
25727458 TATTATA
1 TATTATA
25727465 TATTA
1 TATTA
25727470 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:25727791 original size:16 final size:15
Alignment explanation
Indices: 25727766--25727795 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25727756 TTCATCTTCA
25727766 ATATATGCTATGTAT
1 ATATATGCTATGTAT
25727781 ATATGATGCTATGTA
1 ATAT-ATGCTATGTA
25727796 ATTTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (15 bp):
ATATATGCTATGTAT
Found at i:25730000 original size:27 final size:26
Alignment explanation
Indices: 25729948--25730006 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
25729938 ATACATATAT
*
25729948 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
25729974 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
25730001 ATATCT
1 ATATCT
25730007 AGCAGCTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:25734438 original size:49 final size:49
Alignment explanation
Indices: 25734369--25734637 Score: 182
Period size: 49 Copynumber: 5.6 Consensus size: 49
25734359 ATCAAAGTCA
* * *
25734369 ATGCCATGTCCTATATAGGTCTTACACT-GACTTTCATATATCGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAG-CTTTCATATATCGAGGCTG
* * * * *
25734418 ATGCCGTGTCCCAAACAGGTCTTACACTAGCTCTCATCTATCG-GTG-TCA
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAG-GCT-G
* * *
25734467 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGT-GTATCTTGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTT-TCATATATCGAGGCTG
* * *** * * *
25734516 ATG-CATGTCCCAGACATGTCTTACACTAGCTCTC--GCCTCAATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCTG
* ** * * *
25734562 ATG-CATGTCCCCGACATTTCTTACACTGGCTCTCATA-AT-GTGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCTG
* *
25734608 ATG-CATGTCCTAGACATGTCTTACACTAGC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGC
25734638 ACACATATCA
Statistics
Matches: 175, Mismatches: 36, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
46 66 0.38
47 2 0.01
48 29 0.17
49 74 0.42
50 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCTG
Found at i:25734513 original size:98 final size:97
Alignment explanation
Indices: 25734365--25734637 Score: 254
Period size: 98 Copynumber: 2.9 Consensus size: 97
25734355 GCACATCAAA
* * * *
25734365 GTCAATGCCATGTCCTATATAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCGTGTCCC
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATG-CATGTCCC
25734430 AAACAGGTCTTACACTAGCTCTCATCTATCGGT
65 AAACAGGTCTTACACTAGCTCTCATCTATCGGT
* * *
25734463 GTCAATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-GTATCTTGAGGCTGATGCATGTCC
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCTGATGCATGTCC
* * * * **
25734526 CAGACATGTCTTACACTAGCTCTC-GC-CTCAAT
64 CAAACAGGTCTTACACTAGCTCTCATCTATCGGT
* * * ** * * * *
25734558 GCCGATG-CATGTCCCCGACATTTCTTACACTGGCTCTCATA-AT-GTGGCTGATGCATGTCCTA
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCATGTCCCA
* *
25734620 GACATGTCTTACACTAGC
66 AACAGGTCTTACACTAGC
25734638 ACACATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
92 35 0.24
93 2 0.01
94 25 0.17
95 8 0.05
96 1 0.01
97 29 0.20
98 46 0.31
99 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (97 bp):
GTCAATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCATGTCCCA
AACAGGTCTTACACTAGCTCTCATCTATCGGT
Found at i:25734611 original size:46 final size:46
Alignment explanation
Indices: 25734413--25734637 Score: 165
Period size: 46 Copynumber: 4.8 Consensus size: 46
25734403 CATATATCGA
* * * *
25734413 GGCTGATGCCGTGTCCCAAACAGGTCTTACACTAGCTCT-CATCTAT
1 GGCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCCATCAAT
* * ** *
25734459 CGG-TGTCAATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTGTATC-TT
1 -GGCTG---ATG-CATGTCCCAGACATGTCTTACACTAGC-TCTCCATCAAT
*
25734509 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCCTCAAT
1 --GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-CATCAAT
* * * *
25734558 -GCCGATGCATGTCCCCGACATTTCTTACACTGGCTCT-CAT-AATGT
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCCATCAA--T
*
25734603 GGCTGATGCATGTCCTAGACATGTCTTACACTAGC
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGC
25734638 ACACATATCA
Statistics
Matches: 144, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 1 0.01
46 64 0.44
47 4 0.03
48 28 0.19
49 33 0.23
50 3 0.02
51 5 0.03
52 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCCATCAAT
Found at i:25737878 original size:24 final size:24
Alignment explanation
Indices: 25737841--25737897 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
25737831 TTATCCAGCT
* * **
25737841 AAAAGAAAACTAGGATCTAATGTG
1 AAAAGAAGACTAGGACCTAACCTG
* *
25737865 AAAAGAAGATTAGGACCTGACCTG
1 AAAAGAAGACTAGGACCTAACCTG
25737889 AAAAGAAGA
1 AAAAGAAGA
25737898 AACCAAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACTAGGACCTAACCTG
Found at i:25739898 original size:48 final size:46
Alignment explanation
Indices: 25739827--25740094 Score: 189
Period size: 48 Copynumber: 5.9 Consensus size: 46
25739817 CACCACGATT
*
25739827 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-A-TGA
* *
25739875 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GA-TGA
* * * * * * *
25739923 CATGTA-TGCCAGTGTAAGACCATATCTGGGATATGGCTTCGACCACGA
1 TATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG--GATGA
* ** * * *
25739971 TATGTGATTTCA-TGTAAGACCATATCTGGGATATGGCAT-TGAT-A
1 TATGAGA-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATGA
* ** *
25740015 TAAG-GTCCCA-TGTAAGACCATGTCTAGGACATGGCATC----GA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATGA
*
25740055 TATGAG-GTCCCGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGAGAG-CCAGTGTAAGACCATGTCTGGGACATGGCATC
25740095 AGTACCAACA
Statistics
Matches: 179, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.02
41 3 0.02
42 53 0.30
43 1 0.01
44 4 0.02
45 1 0.01
48 108 0.60
49 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATGA
Found at i:25740028 original size:42 final size:42
Alignment explanation
Indices: 25739981--25740094 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 42
25739971 TATGTGATTT
* * *
25739981 CATGTAAGACCATATCTGGGATATGGCATTGATATAAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGATATAAGGTCC
* *
25740023 CATGTAAGACCATGTCTAGGACATGGCATCGATATGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGATATAAGGTCC
*
25740065 CGTGTAAGACCATGTCTGGGACATGGCATC
1 CATGTAAGACCATGTCTGGGACATGGCATC
25740095 AGTACCAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGATATAAGGTCC
Found at i:25740123 original size:132 final size:131
Alignment explanation
Indices: 25739934--25740181 Score: 311
Period size: 132 Copynumber: 1.9 Consensus size: 131
25739924 ATGTATGCCA
* * * * *
25739934 GTGTAAGACCATATCTGGGATATGGCTTCGACCACGATATGTGATTTCATGTAAGACCATATCTG
1 GTGTAAGACCATATCTGGGACATGGCATCGACCAC-ACATGAGATTTCATGTAAGACCATATCTA
* * * *
25739999 GGATATGGCATTGATAT-AAGGTCCCATGTAAGACCATGTCTAGGACATGGCATCGATATGAGGT
65 GGATATAGCATCGATATGAAGAT-CCATGTAAGACCATGTCGAGGACATGGCATCGATATGAGGT
25740063 CCC
129 CCC
* * *
25740066 GTGTAAGACCATGTCTGGGACATGGCATCAGTACCA-ACATGAGATTTCGTGTGAGACCATATCT
1 GTGTAAGACCATATCTGGGACATGGCATC-G-ACCACACATGAGATTTCATGTAAGACCATATCT
* * *
25740130 AGGATATAGCATCGGTATGTAGATCCATGTAAGACCATGTCGGGGACATGGC
64 AGGATATAGCATCGATATGAAGATCCATGTAAGACCATGTCGAGGACATGGC
25740182 TTTGGTATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 90 0.92
133 4 0.04
134 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (131 bp):
GTGTAAGACCATATCTGGGACATGGCATCGACCACACATGAGATTTCATGTAAGACCATATCTAG
GATATAGCATCGATATGAAGATCCATGTAAGACCATGTCGAGGACATGGCATCGATATGAGGTCC
C
Found at i:25743758 original size:18 final size:19
Alignment explanation
Indices: 25743719--25743759 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
25743709 AAGTGGGGGA
25743719 ATTTCTTGTCTTAGGTTTT
1 ATTTCTTGTCTTAGGTTTT
25743738 ATTTCTT-T-TTAGGTGTTT
1 ATTTCTTGTCTTAGGT-TTT
25743756 ATTT
1 ATTT
25743760 TTATTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.15, T:0.66
Consensus pattern (19 bp):
ATTTCTTGTCTTAGGTTTT
Found at i:25745066 original size:45 final size:46
Alignment explanation
Indices: 25745002--25745092 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 46
25744992 TTGTGAGTAT
25745002 TATAAGCAAATATTCTCCTAGATTTTGGTTTTGA-TTTCGAAATTC
1 TATAAGCAAATATTCTCCTAGATTTTGGTTTTGATTTTCGAAATTC
25745047 TATAAGCAAATATTCTCCTAGATTTTGGTTTTGATTTTCGAAATTC
1 TATAAGCAAATATTCTCCTAGATTTTGGTTTTGATTTTCGAAATTC
25745093 ATCTCTTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 34 0.76
46 11 0.24
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (46 bp):
TATAAGCAAATATTCTCCTAGATTTTGGTTTTGATTTTCGAAATTC
Found at i:25747160 original size:11 final size:11
Alignment explanation
Indices: 25747146--25747170 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25747136 CGCATGAATT
25747146 TTTAAAGTATG
1 TTTAAAGTATG
25747157 TTTAAAGTATG
1 TTTAAAGTATG
25747168 TTT
1 TTT
25747171 CAATCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAAAGTATG
Found at i:25751170 original size:21 final size:22
Alignment explanation
Indices: 25751136--25751176 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25751126 AAAAAATTCA
*
25751136 AAAAAATATAAAAATTATTTTT
1 AAAAAATATAAAAATCATTTTT
*
25751158 AAAAATTA-AAAAATCATTT
1 AAAAAATATAAAAATCATTT
25751177 AAATCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAAATATAAAAATCATTTTT
Found at i:25752321 original size:19 final size:19
Alignment explanation
Indices: 25752293--25752363 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
25752283 ATTATCAATA
25752293 TTTT-TATTTTTTAAATTT
1 TTTTATATTTTTTAAATTT
25752311 TTTTATA-TTTTTATAATTT
1 TTTTATATTTTTTA-AATTT
** * *
25752330 TTAAATAATTATTAATATTT
1 TTTTATATTTTTTAA-ATTT
*
25752350 TACTTATATTTTTT
1 T-TTTATATTTTTT
25752364 TATAGTCTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
18 10 0.25
19 13 0.32
20 10 0.25
21 7 0.17
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATATTTTTTAAATTT
Found at i:25753932 original size:15 final size:16
Alignment explanation
Indices: 25753907--25753939 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25753897 AACTTTTAAA
25753907 TATTCTTAAAAATAAT
1 TATTCTTAAAAATAAT
*
25753923 TATT-TTAAAATTAAT
1 TATTCTTAAAAATAAT
25753938 TA
1 TA
25753940 ATTCAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTCTTAAAAATAAT
Found at i:25755463 original size:30 final size:32
Alignment explanation
Indices: 25755397--25755489 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 32
25755387 CATTAACTTT
* *
25755397 ATTAAATTAAGTTTAAGATTAATTAATTATGTTTA
1 ATTAAATTAAG-TTAAAAATAATTAATTA--TTTA
25755432 ATTAAATTAA-TTAAAAATAATTAATTA-TTA
1 ATTAAATTAAGTTAAAAATAATTAATTATTTA
25755462 ATATAAGTATATAAGTT-AAAATAATTAA
1 AT-TAA--AT-TAAGTTAAAAATAATTAA
25755490 AGAAAAACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
30 5 0.10
31 3 0.06
33 17 0.33
34 14 0.27
35 12 0.24
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (32 bp):
ATTAAATTAAGTTAAAAATAATTAATTATTTA
Found at i:25756504 original size:13 final size:13
Alignment explanation
Indices: 25756472--25756505 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
25756462 TGTGATGAGT
*
25756472 TGATGATTTGAAC
1 TGATGAATTGAAC
25756485 T-ATGAATTGAAC
1 TGATGAATTGAAC
25756497 TGATGAATT
1 TGATGAATT
25756506 ACAATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (13 bp):
TGATGAATTGAAC
Found at i:25756634 original size:23 final size:23
Alignment explanation
Indices: 25756604--25756647 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
25756594 GATAGAGTAC
25756604 AGGTTACTTCGATTACATGTCAT
1 AGGTTACTTCGATTACATGTCAT
25756627 AGGTTACTTCGATTACATGTC
1 AGGTTACTTCGATTACATGTC
25756648 GATGAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
AGGTTACTTCGATTACATGTCAT
Found at i:25760807 original size:20 final size:19
Alignment explanation
Indices: 25760782--25760842 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
25760772 CTGACTTGTT
25760782 TTAAAATAATTTTAACTTGA
1 TTAAAA-AATTTTAACTTGA
**
25760802 TT-AAAAATTGTTAACTCAA
1 TTAAAAAATT-TTAACTTGA
*
25760821 TTAAAACCATTTTAACTTGA
1 TTAAAA-AATTTTAACTTGA
25760841 TT
1 TT
25760843 TTATCATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 14 0.42
21 3 0.09
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (19 bp):
TTAAAAAATTTTAACTTGA
Found at i:25760817 original size:19 final size:18
Alignment explanation
Indices: 25760789--25760842 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
25760779 GTTTTAAAAT
25760789 AATTTTAACTTGATTAAA
1 AATTTTAACTTGATTAAA
**
25760807 AATTGTTAACTCAATTAAA
1 AATT-TTAACTTGATTAAA
25760826 ACCATTTTAACTTGATT
1 A--ATTTTAACTTGATT
25760843 TTATCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 9 0.31
21 3 0.10
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTTTAACTTGATTAAA
Found at i:25761270 original size:80 final size:80
Alignment explanation
Indices: 25761137--25761296 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
25761127 TTTGTAGAAA
* *
25761137 GTATGGCTCTTATTAGTGATTCTCATGCCTTAGTCCCATCGGAGCTTTCTCCTGAAGCTTTTATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCGGAGCTTTCTCCTGAAGCTTTCATT
*
25761202 GTCTTTAGGAAGCTC
66 GTCTTCAGGAAGCTC
25761217 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCGGAGCTTTCTCCTGAAGCTTTCATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCGGAGCTTTCTCCTGAAGCTTTCATT
25761282 GTCTTCAGGAAGCTC
66 GTCTTCAGGAAGCTC
25761297 AAGTAAATTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.38
Consensus pattern (80 bp):
GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCGGAGCTTTCTCCTGAAGCTTTCATT
GTCTTCAGGAAGCTC
Found at i:25766684 original size:14 final size:15
Alignment explanation
Indices: 25766665--25766703 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
25766655 TAGTAAAAAA
25766665 ATAATATAAAA-TTT
1 ATAATATAAAACTTT
25766679 ATAATATAAAACCTTT
1 ATAATATAAAA-CTTT
25766695 ATAA-ATAAA
1 ATAATATAAA
25766704 GTTTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 7 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAAAACTTT
Found at i:25767018 original size:24 final size:26
Alignment explanation
Indices: 25766981--25767036 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
25766971 AACTTCAAAT
*
25766981 TTTTTTAGGGTTTA-AATA-ATA-TAA
1 TTTTTTAGGATTTATAATATA-AGTAA
*
25767005 TTTTTTCGGATTTATAATATAAGTAA
1 TTTTTTAGGATTTATAATATAAGTAA
25767031 TTTTTT
1 TTTTTT
25767037 GTCATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.44
25 5 0.19
26 10 0.37
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (26 bp):
TTTTTTAGGATTTATAATATAAGTAA
Found at i:25768947 original size:15 final size:16
Alignment explanation
Indices: 25768914--25768947 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25768904 AATGCACTCT
*
25768914 AAAAAACAAGTTCTAA
1 AAAAAACAAGTGCTAA
*
25768930 AAAAAATAAGTGCTAA
1 AAAAAACAAGTGCTAA
25768946 AA
1 AA
25768948 TTCTCCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAACAAGTGCTAA
Found at i:25771332 original size:30 final size:30
Alignment explanation
Indices: 25771296--25771356 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
25771286 AAAATTGATA
25771296 CTTTAACTAATATCCACATTTAGACATAAC
1 CTTTAACTAATATCCACATTTAGACATAAC
*
25771326 CTTTAACTAATATCCACATTTATACATAAC
1 CTTTAACTAATATCCACATTTAGACATAAC
25771356 C
1 C
25771357 CAAATCATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (30 bp):
CTTTAACTAATATCCACATTTAGACATAAC
Found at i:25772244 original size:43 final size:43
Alignment explanation
Indices: 25772077--25772245 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 43
25772067 ATAAAGCTCG
* ** *
25772077 TACAATGCC-ATATCCCAGATGTGGTCTTACATACT-ATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACAT-GTAATCACAA
* * * * * * *
25772118 TATCGATGTCACTGACCCAGATAAGGTCTTACATGAAATCA-AA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * *
25772161 TACGATGTCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
*
25772204 TACAATGCCAATGTCTCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
25772246 TATCGGTAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 37 0.36
43 65 0.62
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:25777896 original size:2 final size:2
Alignment explanation
Indices: 25777889--25777922 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25777879 ATCACAGTTT
25777889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25777923 AGTGAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25779807 original size:17 final size:18
Alignment explanation
Indices: 25779780--25779813 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25779770 TCTATACTTT
25779780 TATTGTAAAATAAAAATA
1 TATTGTAAAATAAAAATA
*
25779798 TATT-TAAAATATAAAT
1 TATTGTAAAATAAAAAT
25779814 TTAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TATTGTAAAATAAAAATA
Found at i:25781600 original size:21 final size:19
Alignment explanation
Indices: 25781566--25781627 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
25781556 TAAGTTATAT
25781566 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
25781588 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
25781610 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
25781628 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:25781679 original size:22 final size:22
Alignment explanation
Indices: 25781651--25781693 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25781641 AAAATATAGT
*
25781651 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
25781673 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
25781694 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:25785991 original size:46 final size:45
Alignment explanation
Indices: 25785924--25786098 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
25785914 TGTAACCCGC
*
25785924 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * * *
25785970 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCTGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* *** *
25786016 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
25786063 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
25786099 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 32 0.31
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:25786043 original size:93 final size:93
Alignment explanation
Indices: 25785931--25786102 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
25785921 CGCCCATAAG
*
25785931 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
25785996 ACGAGCTCTGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
25786024 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
25786089 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
25786103 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:25786118 original size:46 final size:46
Alignment explanation
Indices: 25785932--25786118 Score: 120
Period size: 46 Copynumber: 4.0 Consensus size: 46
25785922 GCCCATAAGC
** * *
25785932 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
* * *
25785978 GAACTCGAACTCAACTCAACGAGCTCTGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
25786025 GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GG-ATGCTCAACCATCCTAGT
*
25786071 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
25786117 GA
1 GA
25786119 CATGTCACTT
Statistics
Matches: 109, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 58 0.53
47 27 0.25
48 1 0.01
49 4 0.04
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:25790345 original size:46 final size:46
Alignment explanation
Indices: 25790278--25790494 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
25790268 TGGCAACCTG
*
25790278 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
25790324 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
25790370 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
25790416 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * * *
25790462 TGAGTAAGGCCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
25790495 TCAAGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:25790480 original size:138 final size:130
Alignment explanation
Indices: 25790229--25790494 Score: 354
Period size: 138 Copynumber: 2.0 Consensus size: 130
25790219 AGTGTGCTCT
*
25790229 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
25790294 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
25790359 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
*
25790424 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGGCCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
25790488 TATGGCA
122 CATGGCA
25790495 TCAAGTCAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 66 0.56
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:25790800 original size:23 final size:25
Alignment explanation
Indices: 25790755--25790801 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25790745 AATAAATATA
*
25790755 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
25790780 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
25790802 ATGAATGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:25792639 original size:45 final size:45
Alignment explanation
Indices: 25792575--25792660 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
25792565 TCTCTTATAT
25792575 AAAGACTCTATGGCATGTCAACTATATCTGATTTAGTCTAATAAG
1 AAAGACTCTATGGCATGTCAACTATATCTGATTTAGTCTAATAAG
25792620 AAAGACTCTATGGCATGTCAACTATATCTGATTTAGTCTAA
1 AAAGACTCTATGGCATGTCAACTATATCTGATTTAGTCTAA
25792661 CTTAGTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (45 bp):
AAAGACTCTATGGCATGTCAACTATATCTGATTTAGTCTAATAAG
Found at i:25804629 original size:5 final size:5
Alignment explanation
Indices: 25804619--25804643 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25804609 GACGAAAATT
25804619 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
25804644 AACCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25812799 original size:23 final size:25
Alignment explanation
Indices: 25812753--25812828 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 25
25812743 AAAAATGTAA
25812753 AAAAATCATATATAATATATAATTTT
1 AAAAAT-ATATATAATATATAATTTT
*
25812779 AAAAATATTTATAATA-A-AATTTT
1 AAAAATATATATAATATATAATTTT
* *
25812802 -AAAATATATA-ATTATA-AATTTA
1 AAAAATATATATAATATATAATTTT
25812824 AAAAA
1 AAAAA
25812829 ATAAAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.07
22 15 0.34
23 10 0.23
24 1 0.02
25 9 0.20
26 6 0.14
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAAATATATATAATATATAATTTT
Found at i:25812935 original size:8 final size:8
Alignment explanation
Indices: 25812924--25812959 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25812914 TTTTAATTTT
25812924 TTTTAGAA
1 TTTTAGAA
25812932 TTTTAGAA
1 TTTTAGAA
*
25812940 TTATAG-A
1 TTTTAGAA
25812947 TTTTAGAA
1 TTTTAGAA
25812955 TTTTA
1 TTTTA
25812960 TAAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (8 bp):
TTTTAGAA
Found at i:25813473 original size:2 final size:2
Alignment explanation
Indices: 25813468--25813503 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25813458 AAAAAAGTGA
25813468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25813504 TAAACCGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25831743 original size:40 final size:40
Alignment explanation
Indices: 25831689--25831873 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
25831679 CTTGCACAAG
* * *
25831689 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
25831729 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25831769 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
25831809 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
25831850 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
25831874 CATTCGAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 91 0.73
41 27 0.22
42 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:25842163 original size:8 final size:8
Alignment explanation
Indices: 25842149--25842178 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25842139 AAAAATGAAT
25842149 AGAAATGG
1 AGAAATGG
*
25842157 TGAAATGG
1 AGAAATGG
25842165 AGAAATGG
1 AGAAATGG
25842173 AGAAAT
1 AGAAAT
25842179 AAGAAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (8 bp):
AGAAATGG
Found at i:25843585 original size:9 final size:9
Alignment explanation
Indices: 25843567--25843644 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 9
25843557 AAATTTAAAA
25843567 TATAATTTTT
1 TATAA-TTTT
25843577 TATAA-TTT
1 TATAATTTT
*
25843585 TATATTTTT
1 TATAATTTT
*
25843594 TGAATAATTTA
1 T--ATAATTTT
*
25843605 AATAATTTT
1 TATAATTTT
*
25843614 TATATTTTT
1 TATAATTTT
*
25843623 TGAATAATTTA
1 T--ATAATTTT
*
25843634 AATAATTTT
1 TATAATTTT
25843643 TA
1 TA
25843645 ATTATTAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
8 7 0.14
9 27 0.53
10 5 0.10
11 12 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TATAATTTT
Found at i:25843600 original size:29 final size:30
Alignment explanation
Indices: 25843568--25843644 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 30
25843558 AATTTAAAAT
**
25843568 ATAATTTTTTATAA-TTTTATATTTTTTGA
1 ATAATTTTAAATAATTTTTATATTTTTTGA
25843597 ATAA-TTTAAATAATTTTTATATTTTTTGA
1 ATAATTTTAAATAATTTTTATATTTTTTGA
25843626 ATAA-TTTAAATAATTTTTA
1 ATAATTTTAAATAATTTTTA
25843645 ATTATTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
ATAATTTTAAATAATTTTTATATTTTTTGA
Found at i:25843642 original size:20 final size:19
Alignment explanation
Indices: 25843596--25843668 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 19
25843586 ATATTTTTTG
* *
25843596 AATAA-TTTAAATAATTTT
1 AATAATTTTTAATAATTTA
* *
25843614 TATATTTTTTGAATAATTTA
1 AATAATTTTT-AATAATTTA
* *
25843634 AATAATTTTTAATTATTAAA
1 AATAATTTTTAATAATT-TA
*
25843654 AATAATTTTTTATAA
1 AATAATTTTTAATAA
25843669 ATTTTTTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 3 0.07
19 9 0.21
20 30 0.71
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (19 bp):
AATAATTTTTAATAATTTA
Found at i:25843657 original size:29 final size:29
Alignment explanation
Indices: 25843560--25843661 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
25843550 TTTTAAAAAA
**
25843560 TTTAAAATATAATTTTTTATAA-TTTTATAT
1 TTTAAAA-ATAA-TTTAAATAATTTTTATAT
***
25843590 TTTTTGAATAATTTAAATAATTTTTATAT
1 TTTAAAAATAATTTAAATAATTTTTATAT
***
25843619 TTTTTGAATAATTTAAATAATTTTTA-AT
1 TTTAAAAATAATTTAAATAATTTTTATAT
25843647 TATTAAAAATAATTT
1 T-TTAAAAATAATTT
25843662 TTTATAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 10 0.16
29 48 0.77
30 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTAAAAATAATTTAAATAATTTTTATAT
Found at i:25854438 original size:643 final size:643
Alignment explanation
Indices: 25853212--25854499 Score: 2423
Period size: 643 Copynumber: 2.0 Consensus size: 643
25853202 GAATTGGTTG
25853212 GAAATGTTGGTATACTTGTTGCATATTAATGTTTGTAGGATTGGAACCATATGGGGTGGAAAATT
1 GAAATGTTGGTATACTTGTTGCATATTAATGTTTGTAGGATTGGAACCATATGGGGTGGAAAATT
*
25853277 GGCTTAAACCAAGCCTGCATTGTACCACACGGCCAAGGAACACGGGCGTGCCTTGTGGCCATGTG
66 GGCTTAAACCAAGCCTGCATTGTACCACACGGCCAAGGAACACGGGCGTGCCTTGTGGCCATGTA
*
25853342 AGAAAGTCAGTAGCTAGCTAAATTTTACACGGTCATGGCACACGGCCGTGTCTATTGGCCGTGTT
131 AGAAAGTCAGTAGCTAGCTAAATTTTACACGGTCATGGCACACGGCCGTGTCTATTGGCCATGTT
* *
25853407 AAAAAGTCAGTATAGGATCTCTTTTTGGCACGGTCGAACCACATGGGCGTGTCTTGTGCCCGTGT
196 AAAAAGTCAGTATAGGATATCTTTTTGGCACGGTCGAACCACATGGGCGTGTCTTGTGCCCATGT
25853472 GAGTCACACGGCCTAGTCACACGGGCGTGTGACTTGGTCACATTTGAAAATATTGATTAAGTTCT
261 GAGTCACACGGCCTAGTCACACGGGCGTGTGACTTGGTCACATTTGAAAATATTGATTAAGTTCT
25853537 GAAATTTCTGAAAGGGTTCAGTTTTGTTCTAACCTTCCCTAAATGTACGTTTTAGGTCTCGTAGA
326 GAAATTTCTGAAAGGGTTCAGTTTTGTTCTAACCTTCCCTAAATGTACGTTTTAGGTCTCGTAGA
25853602 CCATCTTAATGGATGAATTGTGGATGCATATTTATGTATTGATATTATATGATATCTGTGAATCT
391 CCATCTTAATGGATGAATTGTGGATGCATATTTATGTATTGATATTATATGATATCTGTGAATCT
*
25853667 GTGTTACTCTGAAATGCTCTGTCTGTCAGGTGACTTCCCTTTCCTATTTCGGCAATGGTTACGGG
456 GTGTTACTCCGAAATGCTCTGTCTGTCAGGTGACTTCCCTTTCCTATTTCGGCAATGGTTACGGG
*
25853732 ATAGAGGTGTTACATTTTATTGGTATCAGAGCTATGATTTAGTCGATTCTAGGACTACCATAGTG
521 ATAGAGGTGTTACATTTTATTGGTATCAGAGCTATGATTTAGTCGATTCTAAGACTACCATAGTG
25853797 TATATGAGTCTAGCTATACATGTCATATATTTGAATCTGTGATAGTGTGATGACTCTT
586 TATATGAGTCTAGCTATACATGTCATATATTTGAATCTGTGATAGTGTGATGACTCTT
*
25853855 GAAATGTTGGTATACTTGTTGTATATTAATGTTTGTAGGATTGGAACCATATGGGGTGGAAAATT
1 GAAATGTTGGTATACTTGTTGCATATTAATGTTTGTAGGATTGGAACCATATGGGGTGGAAAATT
25853920 GGCTTAAACCAAGCCTGCATTGTACCACACGGCCAAGGAACACGGGCGTGCCTTGTGGCCATGTA
66 GGCTTAAACCAAGCCTGCATTGTACCACACGGCCAAGGAACACGGGCGTGCCTTGTGGCCATGTA
25853985 AGAAAGTCAGTAGCTAGCTAAATTTTACACGGTCATGGCACACGGCCGTGTCTATTGGCCATGTT
131 AGAAAGTCAGTAGCTAGCTAAATTTTACACGGTCATGGCACACGGCCGTGTCTATTGGCCATGTT
* *
25854050 AAAAAGTTAGTATAGGATATCTTTTTGGCACGGTCGGACCACATGGGCGTGTCTTGTGCCCATGT
196 AAAAAGTCAGTATAGGATATCTTTTTGGCACGGTCGAACCACATGGGCGTGTCTTGTGCCCATGT
* * *
25854115 GAGTCACATGGTCTAGTCACACGGGCGTTTGACTTGGTCACATTTGAAAATATTGATTAAGTTCT
261 GAGTCACACGGCCTAGTCACACGGGCGTGTGACTTGGTCACATTTGAAAATATTGATTAAGTTCT
25854180 GAAATTTCTGAAAGGGTTCAGTTTTGTTCTAACCTTCCCTAAATGTACGTTTTAGGTCTCGTAGA
326 GAAATTTCTGAAAGGGTTCAGTTTTGTTCTAACCTTCCCTAAATGTACGTTTTAGGTCTCGTAGA
25854245 CCATCTTAATGGATGAATTGTGGATGCATATTTATGTATTGATATTATATGATATCTGTGAATCT
391 CCATCTTAATGGATGAATTGTGGATGCATATTTATGTATTGATATTATATGATATCTGTGAATCT
**
25854310 GTGTTACTCCGAAATGCTCTGTCTGTCAGGTGACTTCCCTTTCCTATTTCGGTGATGGTTACGGG
456 GTGTTACTCCGAAATGCTCTGTCTGTCAGGTGACTTCCCTTTCCTATTTCGGCAATGGTTACGGG
* * *
25854375 ATAGAGGTGTTATATTTTATTGGTATCAGAGCTCTGATTTAGTCGGTTCTAAGACTACCATAGTG
521 ATAGAGGTGTTACATTTTATTGGTATCAGAGCTATGATTTAGTCGATTCTAAGACTACCATAGTG
25854440 TATATGAGTCTAGCTATACATGTCATATATTTGAATCTGTGATAGTGTGATGACTCTT
586 TATATGAGTCTAGCTATACATGTCATATATTTGAATCTGTGATAGTGTGATGACTCTT
25854498 GA
1 GA
25854500 CTTTGAAATG
Statistics
Matches: 628, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
643 628 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (643 bp):
GAAATGTTGGTATACTTGTTGCATATTAATGTTTGTAGGATTGGAACCATATGGGGTGGAAAATT
GGCTTAAACCAAGCCTGCATTGTACCACACGGCCAAGGAACACGGGCGTGCCTTGTGGCCATGTA
AGAAAGTCAGTAGCTAGCTAAATTTTACACGGTCATGGCACACGGCCGTGTCTATTGGCCATGTT
AAAAAGTCAGTATAGGATATCTTTTTGGCACGGTCGAACCACATGGGCGTGTCTTGTGCCCATGT
GAGTCACACGGCCTAGTCACACGGGCGTGTGACTTGGTCACATTTGAAAATATTGATTAAGTTCT
GAAATTTCTGAAAGGGTTCAGTTTTGTTCTAACCTTCCCTAAATGTACGTTTTAGGTCTCGTAGA
CCATCTTAATGGATGAATTGTGGATGCATATTTATGTATTGATATTATATGATATCTGTGAATCT
GTGTTACTCCGAAATGCTCTGTCTGTCAGGTGACTTCCCTTTCCTATTTCGGCAATGGTTACGGG
ATAGAGGTGTTACATTTTATTGGTATCAGAGCTATGATTTAGTCGATTCTAAGACTACCATAGTG
TATATGAGTCTAGCTATACATGTCATATATTTGAATCTGTGATAGTGTGATGACTCTT
Found at i:25860370 original size:12 final size:13
Alignment explanation
Indices: 25860353--25860384 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25860343 GCAAATGTTA
25860353 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
25860365 AGTTTTGATGCAT
1 AGTTTTGATGCAT
25860378 -GTTTTGA
1 AGTTTTGA
25860385 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:25866616 original size:15 final size:15
Alignment explanation
Indices: 25866593--25866622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25866583 AATGTCTCAC
*
25866593 ATATGTATTCTATAT
1 ATATATATTCTATAT
25866608 ATATATATTCTATAT
1 ATATATATTCTATAT
25866623 TTCATTACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATATATTCTATAT
Found at i:25871470 original size:55 final size:55
Alignment explanation
Indices: 25871393--25871668 Score: 286
Period size: 55 Copynumber: 4.9 Consensus size: 55
25871383 TCTTCTTAAT
* * * *
25871393 TGTTGGAATACTACTTCTTTTGAATCGATTGTTTATACGTTTAAATCGATTGTCA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* *
25871448 TGTTGGAATATTGCTTCTTTTGAATTGATAATTTATATGTTTAAATCGATT-TCCA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGT-CA
* * * * * *
25871503 CGTTGGAATATTTCTTCTTTTGAATAGATTATTTTTATGTTTAAATCAATTGTTA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* * * *
25871558 TGGTGGAATATTGCTACTTCTTTTTTTGAATCGA-TCTTTATATGTTTAAATCAATTGTTA
1 TGTTGGAATATTG---CTTC---TTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* * * * *
25871618 TATTGGAATCTTGTTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATT
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATT
25871669 ATTACGTAGC
Statistics
Matches: 186, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
54 11 0.06
55 123 0.66
56 1 0.01
57 3 0.02
58 4 0.02
60 34 0.18
61 10 0.05
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.50
Consensus pattern (55 bp):
TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
Found at i:25871637 original size:115 final size:110
Alignment explanation
Indices: 25871395--25871664 Score: 287
Period size: 115 Copynumber: 2.4 Consensus size: 110
25871385 TTCTTAATTG
* * * * * *
25871395 TTGGAATACTACTTCTTTTGAATCGATTGTTTATACGTTTAAATCGATTGTCATGTTGGAATATT
1 TTGGAATATTTCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
* * *
25871460 GCTTCTTTTGAATTGATAATTTATATGTTTAAATCGATTTCCACG
66 GCTTCTTTTGAATCGATAATTTATATGTTTAAATCAATTTCCACA
* * *
25871505 TTGGAATATTTCTTCTTTTGAATAGATTATTTTTATGTTTAAATCAATTGTTATGGTGGAATATT
1 TTGGAATATTTCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
* * *
25871570 GCTACTTCTTTTTTTGAATCGAT-CTTTATATGTTTAAATCAATTGT-TATA
66 G---CTTC---TTTTGAATCGATAATTTATATGTTTAAATCAATT-TCCACA
*
25871620 TTGGAATCTTGT-TTCTTTTGAATCA-ATTGTTTATATGTTTAAATC
1 TTGGAATATT-TCTTCTTTTGAAT-AGATTGTTTATATGTTTAAATC
25871665 GATTATTACG
Statistics
Matches: 133, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
110 57 0.43
113 4 0.03
115 58 0.44
116 14 0.11
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (110 bp):
TTGGAATATTTCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
GCTTCTTTTGAATCGATAATTTATATGTTTAAATCAATTTCCACA
Found at i:25872527 original size:16 final size:16
Alignment explanation
Indices: 25872506--25872539 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25872496 TCAAGCTACT
*
25872506 AAAGAATATGAAAAAG
1 AAAGAAAATGAAAAAG
*
25872522 AAAGAAAATGAAACAG
1 AAAGAAAATGAAAAAG
25872538 AA
1 AA
25872540 TTGAGAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.09
Consensus pattern (16 bp):
AAAGAAAATGAAAAAG
Found at i:25879952 original size:36 final size:36
Alignment explanation
Indices: 25879905--25879978 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
25879895 CGGTCCCTTC
25879905 AAATTCATTTTTAAGATCAAGATTCAATGACTTTTG
1 AAATTCATTTTTAAGATCAAGATTCAATGACTTTTG
25879941 AAATTCATTTTTAAGATCAAGATTCAATGACTTTTG
1 AAATTCATTTTTAAGATCAAGATTCAATGACTTTTG
25879977 AA
1 AA
25879979 GTTAACTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (36 bp):
AAATTCATTTTTAAGATCAAGATTCAATGACTTTTG
Found at i:25880665 original size:27 final size:23
Alignment explanation
Indices: 25880639--25880682 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25880629 ATTTAATTAA
* *
25880639 TTAAAAATAATAATTACTCAAAC
1 TTAAAAAAAAAAATTACTCAAAC
25880662 TTAAAAAAAAAAATTACTCAA
1 TTAAAAAAAAAAATTACTCAA
25880683 GGAAAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAAAAAAAAATTACTCAAAC
Found at i:25884297 original size:39 final size:37
Alignment explanation
Indices: 25884216--25884374 Score: 117
Period size: 38 Copynumber: 4.1 Consensus size: 37
25884206 TGGTCTGAAC
* * *
25884216 TAAAGACATGTATTAAAGACGTCTAAACTAGGACATATT
1 TAAA-ACAT-TATTAAAGATGTCTAAACTATGACATAAT
*
25884255 TAAAACATATATTTAAGATGTCCTAAACTATGACATAAT
1 TAAAACAT-TATTAAAGATGT-CTAAACTATGACATAAT
* * *
25884294 TAAAAACCCTTATTAAAGATGT-TCAGATTATGACATAAT
1 T-AAAA-CATTATTAAAGATGTCT-AAACTATGACATAAT
* * *
25884333 TAAAAC-TCATATAAATAATGT-TCAAATTATGACATAAT
1 TAAAACATTAT-TAAA-GATGTCT-AAACTATGACATAAT
25884371 TAAA
1 TAAA
25884375 GACTCAAACT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 43 0.42
39 34 0.33
40 15 0.15
41 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (37 bp):
TAAAACATTATTAAAGATGTCTAAACTATGACATAAT
Found at i:25884354 original size:38 final size:38
Alignment explanation
Indices: 25884247--25884380 Score: 128
Period size: 38 Copynumber: 3.4 Consensus size: 38
25884237 TCTAAACTAG
* * * * *
25884247 GACATATTTAAAACAT-ATATTTAAGATGTCCTAAACTAT
1 GACATAATTAAAAC-TCATATTAAAAATGTTC-AAATTAT
* * * *
25884286 GACATAATTAAAAACCCTTATTAAAGATGTTCAGATTAT
1 GACATAATT-AAAACTCATATTAAAAATGTTCAAATTAT
25884325 GACATAATTAAAACTCATA-TAAATAATGTTCAAATTAT
1 GACATAATTAAAACTCATATTAAA-AATGTTCAAATTAT
25884363 GACATAATTAAAGACTCA
1 GACATAATTAAA-ACTCA
25884381 AACTAATTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 4 0.05
38 32 0.40
39 27 0.34
40 17 0.21
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (38 bp):
GACATAATTAAAACTCATATTAAAAATGTTCAAATTAT
Found at i:25891573 original size:3 final size:3
Alignment explanation
Indices: 25891560--25891676 Score: 148
Period size: 3 Copynumber: 39.3 Consensus size: 3
25891550 AATTTATTCC
* *
25891560 ATA AT- ATA ATA ATA GTA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
25891607 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ACA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
25891654 AAA ATTA ATA ATT ATA AAA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA A
25891677 ATATCTATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
2 4 0.04
3 94 0.94
4 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:25897228 original size:13 final size:13
Alignment explanation
Indices: 25897210--25897234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25897200 AGGCCGTTTG
25897210 AGGGACACGGGCT
1 AGGGACACGGGCT
25897223 AGGGACACGGGC
1 AGGGACACGGGC
25897235 GTGTGCTCGG
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:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:25899580 original size:19 final size:21
Alignment explanation
Indices: 25899539--25899586 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
25899529 TTAAAATTTT
25899539 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
25899560 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
25899579 AACTAAAA
1 AACTAAAA
25899587 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:25902659 original size:16 final size:15
Alignment explanation
Indices: 25902638--25902667 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25902628 TAAATGAGAT
25902638 TTTCTTTCTGTTTTCC
1 TTTCTTTCT-TTTTCC
25902654 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
25902668 TTTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTCTTTCTTTTTCC
Done.