Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold273
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: 1282806
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 9
Found at i:2514 original size:13 final size:13
Alignment explanation
Indices: 2496--2521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2486 ATAGTAACTC
2496 ATGTATCGATACA
1 ATGTATCGATACA
2509 ATGTATCGATACA
1 ATGTATCGATACA
2522 TTCTGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3780 original size:30 final size:31
Alignment explanation
Indices: 3744--3805 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
3734 TTTAACTTAG
3744 AAAATTCTTGACACAAGGA-TCATTAGTAGC
1 AAAATTCTTGACACAAGGATTCATTAGTAGC
3774 AAAATTCTTGACACAAGGATTCATTAGTAGC
1 AAAATTCTTGACACAAGGATTCATTAGTAGC
3805 A
1 A
3806 CCAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (31 bp):
AAAATTCTTGACACAAGGATTCATTAGTAGC
Found at i:8715 original size:33 final size:33
Alignment explanation
Indices: 8649--8717 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
8639 CCGTTACAAG
* *
8649 CAATGTATCGATACAATTCATCATATATTGATA
1 CAATGTATCGATACAATTCACCATATATCGATA
* *
8682 CAATGTATCGATATAATGT-ACCATGTATCGATA
1 CAATGTATCGATACAAT-TCACCATATATCGATA
8715 CAA
1 CAA
8718 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATATATCGATA
Found at i:8793 original size:19 final size:19
Alignment explanation
Indices: 8749--8801 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
8739 CCAGTTTCAT
** *
8749 GTATCGATACAATCGTCCAT
1 GTATCGATACAAT-GAACAC
8769 GTATCGATACAATGAACAC
1 GTATCGATACAATGAACAC
*
8788 GTATCGATATAATG
1 GTATCGATACAATG
8802 TATCGATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (19 bp):
GTATCGATACAATGAACAC
Found at i:9167 original size:42 final size:42
Alignment explanation
Indices: 9120--9696 Score: 348
Period size: 42 Copynumber: 13.7 Consensus size: 42
9110 GATCCTAACA
* * * * *
9120 TGCTTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
* * * ** **
9162 TGCTTGTTGGCTTTGACCCTAGAGACTTTTTTACCTTTTAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACC-TAAAGTC
* * *
9205 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
* * * * **
9247 TGCTTGTCGACTTTGATCTTAGAGGCTTTCC-TACCTTTCAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGAC-TTCCTTACC-TAAAGTC
* * * * * * *
9290 TGCTTGTTGACTTTGACCCTGGATACTGCCTCATCTAAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
* * * * * **
9332 TGCTAGTCAGCTTT-ACCTTAGAGAGTTTCTTACCCTTCAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTA-CCTAAAGTC
* * * * *
9374 TGCCTATCGGCTTTAACCTTGGAGACTACCTTACCTCAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
* * * **
9416 TGCCTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTTAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTA-CCTAAAGTC
* * * * *
9459 TGCCTGTCAGCTTTGACCTTGGAGACTACCTCATCTAAAGT-
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
* * **
9500 TCGCCTGTCGGCTTTGATCC-TGGAGACTTTCTTACCATTCAGTC
1 T-GCTTGTCGGCTTTGA-CCTTGGAGACTTCCTTACC-TAAAGTC
*
9544 TGC-TGTCGGCTTTGACCTTGGAGACTGCCTTATCC-AAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTA-CCTAAAGTC
* * *
9585 TGGCTT-TCAGCTTTGACCTTGGAAACTTTCC-TACCCT-CAGTC
1 T-GCTTGTCGGCTTTGACCTTGGAGAC-TTCCTTA-CCTAAAGTC
* * * * * *
9627 TACTTGTTGGCTTTGACCCTAGAGACTAT-CTCATCTAAAGTC
1 TGCTTGTCGGCTTTGACCTTGGAGACT-TCCTTACCTAAAGTC
* * *
9669 TGCCTT-TCAGCTTTGACCCTAGAGACTT
1 TG-CTTGTCGGCTTTGACCTTGGAGACTT
9697 TTCCACCTTT
Statistics
Matches: 410, Mismatches: 103, Indels: 45
0.73 0.18 0.08
Matches are distributed among these distances:
41 27 0.07
42 252 0.61
43 130 0.32
44 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (42 bp):
TGCTTGTCGGCTTTGACCTTGGAGACTTCCTTACCTAAAGTC
Found at i:9270 original size:85 final size:85
Alignment explanation
Indices: 9120--9697 Score: 625
Period size: 85 Copynumber: 6.8 Consensus size: 85
9110 GATCCTAACA
* * * ** *
9120 TGCTTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTTGGCTTTGACCCTAGA
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTCAGCTTTGACCTTAGA
* *
9185 GACTTTTTTACCTTTTAGTC
66 GACTTTCTTACCTTTCAGTC
*
9205 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTC-GACTTTGATCTTAG
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTCAG-CTTTGACCTTAG
* *
9269 AGGCTTTCCTACCTTTCAGTC
65 AGACTTTCTTACCTTTCAGTC
* * * * * *
9290 TGCTTGTTGACTTTGACCCTGGATACTGCCTCATCTAAAGTCTGCTAGTCAGCTTT-ACCTTAGA
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTCAGCTTTGACCTTAGA
* *
9354 GAGTTTCTTACCCTTCAGTC
66 GACTTTCTTACCTTTCAGTC
* * * * * * * *
9374 TGCCTATCGGCTTTAACCTTGGAGACTACCTTACCTCAAGTCTGCCTGTCAGCTTTGACCTTGGA
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTCAGCTTTGACCTTAGA
9439 GACTTTCTTACCCTTT-AGTC
66 GACTTTCTTA-CCTTTCAGTC
* * * * *
9459 TGCCTGTCAGCTTTGACCTTGGAGACTACCTCATCTAAAGT-TCGCCTGTCGGCTTTGATCC-TG
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCT-GCTTGTCAGCTTTGA-CCTTA
*
9522 GAGACTTTCTTACCATTCAGTC
64 GAGACTTTCTTACCTTTCAGTC
* * * *
9544 TGC-TGTCGGCTTTGACCTTGGAGACTGCCTTATCCAAAGTCTGGCTT-TCAGCTTTGACCTTGG
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCT-GCTTGTCAGCTTTGACCTTAG
* * *
9607 AAACTTTCCTACC-CTCAGTC
65 AGACTTTCTTACCTTTCAGTC
* * * * * *
9627 TACTTGTTGGCTTTGACCCTAGAGACTATCTCATCTAAAGTCTGCCTT-TCAGCTTTGACCCTAG
1 TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTG-CTTGTCAGCTTTGACCTTAG
9691 AGACTTT
65 AGACTTT
9698 TCCACCTTTT
Statistics
Matches: 416, Mismatches: 66, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
83 11 0.03
84 183 0.44
85 215 0.52
86 7 0.02
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (85 bp):
TGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTCAGCTTTGACCTTAGA
GACTTTCTTACCTTTCAGTC
Found at i:9418 original size:169 final size:170
Alignment explanation
Indices: 9120--9697 Score: 663
Period size: 169 Copynumber: 3.4 Consensus size: 170
9110 GATCCTAACA
* * * * **
9120 TGCTTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTTGGCTTTGACCCTAGA
1 TGCTTGTTGACTTTGACCCTAGAGACTACCTCATCTAAAGTCTGCCTGTCAGCTTTGACCCTAGA
* * * * * *
9185 GACTTTTTTACCTTTTAGTCTGCTTGTCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGC
66 GACTTTCTTACCATTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTACCTTACCTAAAGTCTGC
* * *
9250 TTGTC-GACTTTGATCTTAGAGGCTTTCCTACCTTTCAGTC
131 TTGTCAG-CTTTGACCTTGGAGACTTTCCTACCTTTCAGTC
* * * *
9290 TGCTTGTTGACTTTGACCCTGGATACTGCCTCATCTAAAGTCTG-CTAGTCAGCTTT-ACCTTAG
1 TGCTTGTTGACTTTGACCCTAGAGACTACCTCATCTAAAGTCTGCCT-GTCAGCTTTGACCCTAG
* * * * *
9353 AGAGTTTCTTACCCTTCAGTCTGCCTATCGGCTTTAACCTTGGAGACTACCTTACCTCAAGTCTG
65 AGACTTTCTTACCATTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTACCTTACCTAAAGTCTG
* *
9418 CCTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTT-AGTC
130 CTTGTCAGCTTTGACCTTGGAGACTTTCCTA-CCTTTCAGTC
* * * * * * *
9459 TGCCTG-TCAGCTTTGACCTTGGAGACTACCTCATCTAAAGT-TCGCCTGTCGGCTTTGATCCTG
1 TGCTTGTTGA-CTTTGACCCTAGAGACTACCTCATCTAAAGTCT-GCCTGTCAGCTTTGACCCTA
*
9522 GAGACTTTCTTACCATTCAGTCTG-CTGTCGGCTTTGACCTTGGAGACTGCCTTATCC-AAAGTC
64 GAGACTTTCTTACCATTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTACCTTA-CCTAAAGTC
* *
9585 TGGCTT-TCAGCTTTGACCTTGGAAACTTTCCTACC-CTCAGTC
128 T-GCTTGTCAGCTTTGACCTTGGAGACTTTCCTACCTTTCAGTC
* * * *
9627 TACTTGTTGGCTTTGACCCTAGAGACTATCTCATCTAAAGTCTGCCTTTCAGCTTTGACCCTAGA
1 TGCTTGTTGACTTTGACCCTAGAGACTACCTCATCTAAAGTCTGCCTGTCAGCTTTGACCCTAGA
9692 GACTTT
66 GACTTT
9698 TCCACCTTTT
Statistics
Matches: 343, Mismatches: 53, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
167 1 0.00
168 65 0.19
169 192 0.56
170 85 0.25
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (170 bp):
TGCTTGTTGACTTTGACCCTAGAGACTACCTCATCTAAAGTCTGCCTGTCAGCTTTGACCCTAGA
GACTTTCTTACCATTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTACCTTACCTAAAGTCTGC
TTGTCAGCTTTGACCTTGGAGACTTTCCTACCTTTCAGTC
Found at i:10267 original size:19 final size:19
Alignment explanation
Indices: 10243--10298 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 19
10233 TTTAACAAGT
10243 ATAAAAAAATAAAAAAAAA
1 ATAAAAAAATAAAAAAAAA
*
10262 ATAAAAGTATATATAAAAAATAA
1 ATAAAA--A-A-ATAAAAAAAAA
*
10285 ATAAATAAATAAAA
1 ATAAAAAAATAAAA
10299 CTCAAATGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 12 0.39
20 1 0.03
21 2 0.06
22 1 0.03
23 15 0.48
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
ATAAAAAAATAAAAAAAAA
Found at i:10346 original size:13 final size:13
Alignment explanation
Indices: 10328--10396 Score: 66
Period size: 13 Copynumber: 5.0 Consensus size: 13
10318 GAATAAATAT
10328 TGCATGCATTTCA
1 TGCATGCATTTCA
10341 TGCATGCATTTCA
1 TGCATGCATTTCA
* * *
10354 CGTAATTTTCATTTCA
1 TG-CA--TGCATTTCA
*
10370 TGCATTACATTTCA
1 TGCA-TGCATTTCA
10384 TGCATGCATTTCA
1 TGCATGCATTTCA
10397 CGAAATTTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
13 22 0.48
14 14 0.30
15 1 0.02
16 9 0.20
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (13 bp):
TGCATGCATTTCA
Found at i:10382 original size:14 final size:14
Alignment explanation
Indices: 10363--10427 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
10353 ACGTAATTTT
10363 CATTTCATGCATTA
1 CATTTCATGCATTA
*
10377 CATTTCATGCA-TG
1 CATTTCATGCATTA
* * *
10390 CATTTCACGAAATTTG
1 CATTTCATG-CA-TTA
10406 CATTTCGA-GCATTA
1 CATTTC-ATGCATTA
10420 CATTTCAT
1 CATTTCAT
10428 TTCATGCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 10 0.24
14 20 0.49
15 1 0.02
16 9 0.22
17 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (14 bp):
CATTTCATGCATTA
Found at i:10388 original size:43 final size:43
Alignment explanation
Indices: 10334--10484 Score: 171
Period size: 43 Copynumber: 3.4 Consensus size: 43
10324 ATATTGCATG
10334 CATTTCATGCATGCATTTCACGTAATTTTCATTTCATGCATTA
1 CATTTCATGCATGCATTTCACGTAATTTTCATTTCATGCATTA
* *
10377 CATTTCATGCATGCATTTCACGAAATTTGCATTTCGA-GCATTACA
1 CATTTCATGCATGCATTTCACGTAATTTTCATTTC-ATGCATT--A
* * *
10422 TTTCATTTCATGCATGCATTTTAAGTAATGTTT-ATTTCATGCATTT
1 ---CATTTCATGCATGCATTTCACGTAAT-TTTCATTTCATGCATTA
10468 CATTTCATGCATTGCAT
1 CATTTCATGCA-TGCAT
10485 GCACTACATT
Statistics
Matches: 92, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
43 49 0.53
44 6 0.07
45 1 0.01
47 1 0.01
48 33 0.36
49 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (43 bp):
CATTTCATGCATGCATTTCACGTAATTTTCATTTCATGCATTA
Found at i:10459 original size:48 final size:48
Alignment explanation
Indices: 10334--10475 Score: 145
Period size: 48 Copynumber: 3.1 Consensus size: 48
10324 ATATTGCATG
* * *
10334 CATTTCATGCATGCATTTCACGTAATTTTCATTTCATGCATT--A---
1 CATTTCATGCATGCATTTCAAGAAATTTGCATTTCATGCATTACATTT
*
10377 CATTTCATGCATGCATTTCACGAAATTTGCATTTCGA-GCATTACATTT
1 CATTTCATGCATGCATTTCAAGAAATTTGCATTTC-ATGCATTACATTT
* * * *
10425 CATTTCATGCATGCATTTTAAGTAATGTT-TATTTCATGCATTTCATTT
1 CATTTCATGCATGCATTTCAAGAAAT-TTGCATTTCATGCATTACATTT
10473 CAT
1 CAT
10476 GCATTGCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
43 38 0.45
44 1 0.01
45 1 0.01
47 1 0.01
48 41 0.49
49 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (48 bp):
CATTTCATGCATGCATTTCAAGAAATTTGCATTTCATGCATTACATTT
Found at i:11172 original size:25 final size:25
Alignment explanation
Indices: 11144--11202 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
11134 GAAACAAAGT
* * *
11144 AAAAAGAATTGAATCAAGAA-AAGAG
1 AAAAAGAATCGAAGC-AGAACAAGAA
11169 AAAAAGCAATCGAAGCAGAACAAGAA
1 AAAAAG-AATCGAAGCAGAACAAGAA
11195 AAAAAGAA
1 AAAAAGAA
11203 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.66, C:0.08, G:0.19, T:0.07
Consensus pattern (25 bp):
AAAAAGAATCGAAGCAGAACAAGAA
Found at i:11173 original size:26 final size:24
Alignment explanation
Indices: 11130--11198 Score: 59
Period size: 25 Copynumber: 2.7 Consensus size: 24
11120 AAAAGGAGAG
* *
11130 AGCAGAAACAAAGTAAAAAGAATTGA
1 AGCAG-AAC-AAGAAAAAAGAATCGA
*
11156 ATCAAGAA-AAGAGAAAAAGCAATCGA
1 AGC-AGAACAAGA-AAAAAG-AATCGA
11182 AGCAGAACAAGAAAAAA
1 AGCAGAACAAGAAAAAA
11199 AGAAAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
24 3 0.09
25 15 0.43
26 15 0.43
27 2 0.06
ACGTcount: A:0.64, C:0.10, G:0.19, T:0.07
Consensus pattern (24 bp):
AGCAGAACAAGAAAAAAGAATCGA
Found at i:19778 original size:31 final size:30
Alignment explanation
Indices: 19743--19839 Score: 113
Period size: 31 Copynumber: 3.0 Consensus size: 30
19733 CTTACAACCT
*
19743 TATCTTTTTACAAGTTAAGATAGAACCTCTC
1 TATCTTTTT-CAAGCTAAGATAGAACCTCTC
*
19774 TATCTTTTCTCAGGCTAAGATAGAACCTCTTCCC
1 TATCTTTT-TCAAGCTAAGATAGAACCTC-T--C
19808 TATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 TATCTTTTTC-AA-GCTAAGATAGAACCTCTC
19840 AATCACTTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
31 25 0.44
32 3 0.05
33 2 0.04
34 11 0.19
35 16 0.28
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (30 bp):
TATCTTTTTCAAGCTAAGATAGAACCTCTC
Found at i:19824 original size:35 final size:32
Alignment explanation
Indices: 19758--19838 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 32
19748 TTTTACAAGT
19758 TAAGATAGAACCTC-TCTATCTTTTCTCAGGC
1 TAAGATAGAACCTCTTCTATCTTTTCTCAGGC
19789 TAAGATAGAACCTCTTCCCTATCTTTT-TCAAAGGC
1 TAAGATAGAACCTCTT--CTATCTTTTCTC--AGGC
19824 TAAGATAGAACCTCT
1 TAAGATAGAACCTCT
19839 CAATCACTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
31 14 0.31
32 1 0.02
33 2 0.04
34 9 0.20
35 19 0.42
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (32 bp):
TAAGATAGAACCTCTTCTATCTTTTCTCAGGC
Found at i:20287 original size:63 final size:63
Alignment explanation
Indices: 20188--20344 Score: 224
Period size: 63 Copynumber: 2.5 Consensus size: 63
20178 GCACGCTCCT
** * * *
20188 ATGTATCAATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAACCATTGGGTTTA
1 ATGTATCAATACAATTCACCATGTATCGATACAATGCATTTAAAATTCTAACCATTGGGCTCA
* *
20251 ATGTATCAATGCAATTCACCATGTATCGATACAATGCATTTAAAATTCTAGCCATTGGGCTCA
1 ATGTATCAATACAATTCACCATGTATCGATACAATGCATTTAAAATTCTAACCATTGGGCTCA
* * *
20314 ATTTATCAATACAATTTACCATGTATTGATA
1 ATGTATCAATACAATTCACCATGTATCGATA
20345 GAATTCAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (63 bp):
ATGTATCAATACAATTCACCATGTATCGATACAATGCATTTAAAATTCTAACCATTGGGCTCA
Found at i:20445 original size:13 final size:13
Alignment explanation
Indices: 20427--20451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20417 TACAAAGAAC
20427 ATGTATCGATACA
1 ATGTATCGATACA
20440 ATGTATCGATAC
1 ATGTATCGATAC
20452 CAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:20465 original size:33 final size:32
Alignment explanation
Indices: 20409--20472 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20399 CATTTTATGG
*
20409 TGTATCAATACAAAGAACATGTATCGATACAA
1 TGTATCAATACAAAGAACATGTATCAATACAA
* * *
20441 TGTATCGATACCAAGCAATATGTATCAATACA
1 TGTATCAATACAAAG-AACATGTATCAATACA
20473 TTTGGGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCAATACAA
Found at i:33348 original size:13 final size:13
Alignment explanation
Indices: 33330--33354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33320 CATATTGCTT
33330 TGTATCGATACAC
1 TGTATCGATACAC
33343 TGTATCGATACA
1 TGTATCGATACA
33355 TAATCTTGGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:35651 original size:21 final size:21
Alignment explanation
Indices: 35627--35667 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35617 TGGTAATAAA
35627 GAATTAGCTAATGAA-AACAAC
1 GAATTAGCTAA-GAAGAACAAC
*
35648 GAATTGGCTAAGAAGAACAA
1 GAATTAGCTAAGAAGAACAA
35668 GAACTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (21 bp):
GAATTAGCTAAGAAGAACAAC
Found at i:42013 original size:13 final size:13
Alignment explanation
Indices: 41995--42019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41985 CATATTGCTT
41995 TGTATCGATACAC
1 TGTATCGATACAC
42008 TGTATCGATACA
1 TGTATCGATACA
42020 TGATCTTGGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:44209 original size:22 final size:22
Alignment explanation
Indices: 44183--44226 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44173 AATGCATGAA
*
44183 TTTTGAAAATAATA-AATTTGAT
1 TTTTGAAAACAA-AGAATTTGAT
*
44205 TTTTGTAAACAAAGAATTTGAT
1 TTTTGAAAACAAAGAATTTGAT
44227 ATCATTACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (22 bp):
TTTTGAAAACAAAGAATTTGAT
Found at i:45067 original size:13 final size:13
Alignment explanation
Indices: 45051--45080 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45041 AAAAAAATTA
45051 TTTTCAAAATAAT
1 TTTTCAAAATAAT
*
45064 TTTTGAAAATAAT
1 TTTTCAAAATAAT
45077 TTTT
1 TTTT
45081 TTCAAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
TTTTCAAAATAAT
Found at i:47206 original size:116 final size:119
Alignment explanation
Indices: 46938--47257 Score: 354
Period size: 118 Copynumber: 2.7 Consensus size: 119
46928 AAAAAACTCT
* * * *
46938 AAATAAATTAATTAAATACGTATGTGAGTCCAATTTTATCTAATGTATATTTTTTATAAGGCTT-
1 AAATAAATTAATTAAATAAGCATGTGAGTCCTATTTTATCTAATGTATATTTTTTATAAGACTTG
* * **
47002 -TACCTT-AATTAAATAATATATACTTAATATAATATAATTAAACAAAATAGGCCC
66 GT-TCTTAAATTAAATAATTTATACCCAATATAATATAA-TAAACAAAATAGGCCC
* * * * * *
47056 AAATAAATTAATTAATTAAACACGTGGGTCCTATTTTCTCTAATGTATATTTTTTATTAGACTTG
1 AAATAAATTAATTAAATAAGCATGTGAGTCCTATTTTATCTAATGTATATTTTTTATAAGACTTG
*
47121 GTTCTTAAATTAAATAATTTATGACCCAATATAAT-TAA-AAA-AAATTA-GCCC
66 GTTCTTAAATTAAATAATTTAT-ACCCAATATAATATAATAAACAAAATAGGCCC
* * * *
47172 CAATAAATTAATTAAATAAGCATATGAGAT-CTATTTTATCTAATATATA-TTTTTAAAAGACTT
1 AAATAAATTAATTAAATAAGCATGTGAG-TCCTATTTTATCTAATGTATATTTTTTATAAGACTT
*
47235 GG-TCCTAAATTAAATAATTTATA
65 GGTTCTTAAATTAAATAATTTATA
47258 ATCTTACCTT
Statistics
Matches: 171, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
113 1 0.01
114 19 0.11
115 14 0.08
116 43 0.25
117 6 0.04
118 57 0.33
119 3 0.02
120 18 0.11
121 10 0.06
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (119 bp):
AAATAAATTAATTAAATAAGCATGTGAGTCCTATTTTATCTAATGTATATTTTTTATAAGACTTG
GTTCTTAAATTAAATAATTTATACCCAATATAATATAATAAACAAAATAGGCCC
Found at i:48705 original size:23 final size:23
Alignment explanation
Indices: 48675--48718 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
48665 TGAACATGAA
48675 GGAATAAAAACCTAATAGTTTTT
1 GGAATAAAAACCTAATAGTTTTT
48698 GGAATAAAAACCTAATAGTTT
1 GGAATAAAAACCTAATAGTTT
48719 ACAATTGGTT
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:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (23 bp):
GGAATAAAAACCTAATAGTTTTT
Found at i:54509 original size:20 final size:20
Alignment explanation
Indices: 54486--54558 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
54476 ACAATTCAAA
54486 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
54506 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
54527 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
54547 GTATCGATACAT
1 GTATCGATACAT
54559 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:54530 original size:21 final size:21
Alignment explanation
Indices: 54504--54579 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
54494 ACATGTTGCA
54504 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
54525 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
54545 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
54566 ATGTATCGATACAT
1 ATGTATCGATACAT
54580 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:54537 original size:41 final size:41
Alignment explanation
Indices: 54486--54579 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
54476 ACAATTCAAA
*
54486 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
54527 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
54568 GTATCGATACAT
1 GTATCGATACAT
54580 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:54636 original size:13 final size:13
Alignment explanation
Indices: 54618--54643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54608 TACAGCAAGT
54618 ATGTATCGATACA
1 ATGTATCGATACA
54631 ATGTATCGATACA
1 ATGTATCGATACA
54644 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:58725 original size:15 final size:15
Alignment explanation
Indices: 58705--58735 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58695 TAAAAATGTC
*
58705 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
58720 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
58735 C
1 C
58736 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:60833 original size:13 final size:13
Alignment explanation
Indices: 60815--60852 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
60805 CATTTTTATT
60815 TGTATCGATACAA
1 TGTATCGATACAA
*
60828 TGTATCGATACAC
1 TGTATCGATACAA
60841 TGTATCGATACA
1 TGTATCGATACA
60853 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:62681 original size:32 final size:32
Alignment explanation
Indices: 62645--62706 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
62635 AATTTTGATA
62645 TGAATTACTTGATTAAGGGGGAGATTTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTTT
62677 TGAATTACTTGATTAAGGGGGAGATTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTT
62707 AATAAACGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (32 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTTT
Found at i:63351 original size:20 final size:20
Alignment explanation
Indices: 63328--63400 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
63318 ACAATTCAAA
63328 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
63348 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
63369 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
63389 GTATCGATACAT
1 GTATCGATACAT
63401 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:63372 original size:21 final size:21
Alignment explanation
Indices: 63346--63421 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
63336 ACATGTTGCA
63346 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
63367 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
63387 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
63408 ATGTATCGATACAT
1 ATGTATCGATACAT
63422 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:63379 original size:41 final size:41
Alignment explanation
Indices: 63328--63421 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
63318 ACAATTCAAA
*
63328 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
63369 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
63410 GTATCGATACAT
1 GTATCGATACAT
63422 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:63478 original size:13 final size:13
Alignment explanation
Indices: 63460--63485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63450 TACAGCAAGT
63460 ATGTATCGATACA
1 ATGTATCGATACA
63473 ATGTATCGATACA
1 ATGTATCGATACA
63486 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:68365 original size:270 final size:270
Alignment explanation
Indices: 67876--68416 Score: 807
Period size: 270 Copynumber: 2.0 Consensus size: 270
67866 CCAATATGCA
* * *
67876 TCAATGATGCAGCATAGCTCCTTCTAAAACTAAATACCTATAATTTCCCATCTTGGTAGATCAAA
1 TCAATGATGCAACATAGCTCCCTCTAAAACGAAATACCTATAATTTCCCATCTTGGTAGATCAAA
* * *
67941 CTTTATTCATTACTCAATAGGCATGACATCATTGGCTACTTTGATGGAACAATTACTTATCCAGA
66 CTTTATTCATTACTCAATAGGCATGACATCATTGGCTACCTTAATGGAACAATTACTTATCCAAA
*
68006 AACCAAATCTCCATAAATGGAATTCAAAGCCTAAATCTAGACTACTTTCTCTAACATAGATAGGG
131 AACCAAATCTCCATAAATAGAATTCAAAGCCTAAATCTAGACTACTTTCTCTAACATAGATAGGG
* * * ** * *
68071 CAAATCCATCTTGCATGCTATAGTAGCCTTAGTATCTAAATATATAATGCCAATCATTACAATTG
196 CAAATCCATCTTGAACGCTATAGTAGCCTCAACATCTAAATACATAAAGCCAATCATTACAATTG
68136 TGAAAACCTC
261 TGAAAACCTC
*
68146 TCAATGATGCAACATAGCTCCCTCTAAAACGGAATACCTATAATTTCCCATCTTGGTAGATCAAA
1 TCAATGATGCAACATAGCTCCCTCTAAAACGAAATACCTATAATTTCCCATCTTGGTAGATCAAA
* * *
68211 CTTTGTTCATTACTCAA-AGGGCATGACATCGTTGGCTACCTTAATGGAACAATTCCTTATCCAA
66 CTTTATTCATTACTCAATA-GGCATGACATCATTGGCTACCTTAATGGAACAATTACTTATCCAA
* * *
68275 AAACCAAGTCTCCATAAATAGAATTCAAAGCCTAAATCTAGCCTACTCTT-TCTAACGTAGATAG
130 AAACCAAATCTCCATAAATAGAATTCAAAGCCTAAATCTAGACTACT-TTCTCTAACATAGATAG
** * * * *
68339 GGCAAATTTATCTTGAACGTTATAGTAGCCTCAACATCTGAATCCATAAAGCCAATCATTGCAAT
194 GGCAAATCCATCTTGAACGCTATAGTAGCCTCAACATCTAAATACATAAAGCCAATCATTACAAT
68404 TGTGAAAACCTC
259 TGTGAAAACCTC
68416 T
1 T
68417 TAAAAAGCCT
Statistics
Matches: 242, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
269 1 0.00
270 239 0.99
271 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (270 bp):
TCAATGATGCAACATAGCTCCCTCTAAAACGAAATACCTATAATTTCCCATCTTGGTAGATCAAA
CTTTATTCATTACTCAATAGGCATGACATCATTGGCTACCTTAATGGAACAATTACTTATCCAAA
AACCAAATCTCCATAAATAGAATTCAAAGCCTAAATCTAGACTACTTTCTCTAACATAGATAGGG
CAAATCCATCTTGAACGCTATAGTAGCCTCAACATCTAAATACATAAAGCCAATCATTACAATTG
TGAAAACCTC
Found at i:70041 original size:19 final size:19
Alignment explanation
Indices: 70017--70130 Score: 144
Period size: 19 Copynumber: 6.6 Consensus size: 19
70007 AAACAGTAAA
70017 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
70036 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
70049 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
70068 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
70081 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
70100 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
70119 TGTATCGATACA
1 TGTATCGATACA
70131 ATGTATCGCT
Statistics
Matches: 83, Mismatches: 0, Indels: 24
0.78 0.00 0.22
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 53 0.64
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:70054 original size:13 final size:13
Alignment explanation
Indices: 70036--70092 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
70026 ACATAAGTGT
70036 TGTATCGATACAA
1 TGTATCGATACAA
70049 TGTATCGATACATAA
1 TGTATCGATAC--AA
70064 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
70081 TGTATCGATACA
1 TGTATCGATACA
70093 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:70056 original size:32 final size:32
Alignment explanation
Indices: 70015--70111 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
70005 ACAAACAGTA
70015 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
70047 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
70079 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
70111 A
1 A
70112 TAAGTGTTGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:70079 original size:51 final size:48
Alignment explanation
Indices: 70036--70146 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 48
70026 ACATAAGTGT
70036 TGTATCGATAC-AA-TGTATCGATACATAAGTGTTGTATCGATAC-AA
1 TGTATCGATACAAAGTGTATCGATACATAAGTGTTGTATCGATACAAA
70081 TGTATCGATACATAAGTGTTGTATCGATACATAAGTGTTGTATCGATAC-AA
1 TGTATCGATACA-AA--G-TGTATCGATACATAAGTGTTGTATCGATACAAA
*
70132 TGTATCGCTACAAAG
1 TGTATCGATACAAAG
70147 CTACTGCCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
45 11 0.19
47 2 0.03
48 1 0.02
50 2 0.03
51 43 0.73
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (48 bp):
TGTATCGATACAAAGTGTATCGATACATAAGTGTTGTATCGATACAAA
Found at i:70200 original size:13 final size:13
Alignment explanation
Indices: 70182--70209 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70172 CAAAGATCAA
70182 TGTATCGATACAT
1 TGTATCGATACAT
70195 TGTATCGATACAT
1 TGTATCGATACAT
70208 TG
1 TG
70210 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70219 original size:33 final size:33
Alignment explanation
Indices: 70162--70227 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
70152 GCCAAGGAAA
*
70162 TGTATCGATACAAAGATCAATGTATCGATACAT
1 TGTATCGATACAAAGATCAATGTATCAATACAT
** **
70195 TGTATCGATACATTGATCTTTGTATCAATACAT
1 TGTATCGATACAAAGATCAATGTATCAATACAT
70228 CTGGGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAAGATCAATGTATCAATACAT
Found at i:80222 original size:155 final size:154
Alignment explanation
Indices: 79995--80294 Score: 408
Period size: 155 Copynumber: 1.9 Consensus size: 154
79985 TTTTCTAAAC
* * * *
79995 CTTTTAAAACTATTTATTTCTTTCGCTCACTATTAAATCACTCACGTAATTAAAAAGCTTCTTAC
1 CTTTTAAAACTACTTATTTCTTTCACTCACTATTAAATCACTCAAGTAATTAAAAAACTTCTTAC
* * *** *
80060 TTTTCTAACCTTTTTAAAACTATTTACTCCTTTCTTTCTTTTTCA-AGAAAAATTTTTGTTAGAT
66 TTTTCTAACCTTTTTAAAACTACTTACTCC-TT-TTTCTCTTTCATA-AAAAAAAATTGTTAAAT
* *
80124 AAACATATTCTTTTTTTTTAATCCAAT
128 AAACAAATTCTTTGTTTTTAATCCAAT
* *
80151 CTTTTAAAA-TCACTTATTTCTTTTACTCACTATT-AATCACTCAAGTAATTAAAAAATTTCTTA
1 CTTTTAAAACT-ACTTATTTCTTTCACTCACTATTAAATCACTCAAGTAATTAAAAAACTTCTTA
*
80214 CTTTTCTAATCTTTTTAAAACTACTTACTCCTTTTTCTCTTTCATAAAAAAAAATTGTTAAATAA
65 CTTTTCTAACCTTTTTAAAACTACTTACTCCTTTTTCTCTTTCATAAAAAAAAATTGTTAAATAA
80279 ACAAATTCTTTGTTTT
130 ACAAATTCTTTGTTTT
80295 ATTTAAATTA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
153 39 0.31
154 3 0.02
155 56 0.44
156 29 0.23
ACGTcount: A:0.32, C:0.17, G:0.03, T:0.47
Consensus pattern (154 bp):
CTTTTAAAACTACTTATTTCTTTCACTCACTATTAAATCACTCAAGTAATTAAAAAACTTCTTAC
TTTTCTAACCTTTTTAAAACTACTTACTCCTTTTTCTCTTTCATAAAAAAAAATTGTTAAATAAA
CAAATTCTTTGTTTTTAATCCAAT
Found at i:81923 original size:18 final size:19
Alignment explanation
Indices: 81882--81923 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
81872 TTTATGTAAA
*
81882 TAAATATTTTATATTTTAT
1 TAAATATTTAATATTTTAT
*
81901 AAAATATTTAATA-TTTAT
1 TAAATATTTAATATTTTAT
81919 TAAAT
1 TAAAT
81924 TAATTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATATTTAATATTTTAT
Found at i:82534 original size:22 final size:23
Alignment explanation
Indices: 82508--82565 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 23
82498 ATATATCTTT
*
82508 TAAATTATATTTAAAAATTAAAA
1 TAAATTATATTTAAAAAATAAAA
82531 -AAATTA-ATTTAAAAAATAAAA
1 TAAATTATATTTAAAAAATAAAA
* *
82552 TATATTATAATTAA
1 TAAATTATATTTAA
82566 TTCAGTTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 14 0.47
22 11 0.37
23 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATTATATTTAAAAAATAAAA
Found at i:84061 original size:12 final size:12
Alignment explanation
Indices: 84030--84096 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
84020 ATTAAAAAAT
84030 TATAT-TTTAATA
1 TATATATTTAA-A
*
84042 TTTATATTTAAA
1 TATATATTTAAA
84054 TATATA-TTAAA
1 TATATATTTAAA
*
84065 TATAAATTTAAA
1 TATATATTTAAA
*
84077 TATAT-GTTAAA
1 TATATATTTAAA
*
84088 TATAAATTT
1 TATATATTT
84097 TAAACATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 19 0.42
12 21 0.47
13 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:84065 original size:11 final size:11
Alignment explanation
Indices: 84044--84091 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
84034 TTTTAATATT
84044 TATAT-TTAAA
1 TATATATTAAA
84054 TATATATTAAA
1 TATATATTAAA
*
84065 TATAAATTTAAA
1 TATATA-TTAAA
*
84077 TATATGTTAAA
1 TATATATTAAA
84088 TATA
1 TATA
84092 AATTTTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 5 0.15
11 19 0.58
12 9 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TATATATTAAA
Found at i:84077 original size:23 final size:23
Alignment explanation
Indices: 84047--84096 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
84037 TAATATTTAT
84047 ATTTAAATATATATTAAATATAA
1 ATTTAAATATATATTAAATATAA
*
84070 ATTTAAATATATGTTAAATATAA
1 ATTTAAATATATATTAAATATAA
84093 ATTT
1 ATTT
84097 TAAACATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTAAATATATATTAAATATAA
Found at i:84776 original size:15 final size:15
Alignment explanation
Indices: 84756--84785 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84746 ACAAATTCAT
*
84756 TTTTCTTTGTTTTAC
1 TTTTCTTTCTTTTAC
84771 TTTTCTTTCTTTTAC
1 TTTTCTTTCTTTTAC
84786 CTTAATCTAA
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:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTCTTTCTTTTAC
Found at i:84941 original size:13 final size:12
Alignment explanation
Indices: 84907--84980 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
84897 ATTATATTCA
84907 AATATTTAAATTT
1 AATATTT-AATTT
84920 AATA-TTAATTT
1 AATATTTAATTT
84931 ATATATTTAATTT
1 A-ATATTTAATTT
84944 --T-TTTAATTTT
1 AATATTTAA-TTT
*
84954 AA-ATTTTATCTT
1 AATATTTAAT-TT
*
84966 AA-AATTAATTT
1 AATATTTAATTT
84977 AATA
1 AATA
84981 AATTTAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
9 5 0.10
10 4 0.08
11 11 0.22
12 19 0.38
13 11 0.22
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTTAATTT
Found at i:85697 original size:32 final size:32
Alignment explanation
Indices: 85616--85710 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 32
85606 TCAATGATAT
** *
85616 ATTTTATTATTTAAA-AATTTATTTTTATATTAAT
1 ATTTTATTA-TTAAATAA-TTAAATTTA-ATTAAA
*
85650 A-TTTA-TATTATATAATTAAATTTAATTAAA
1 ATTTTATTATTAAATAATTAAATTTAATTAAA
85680 ATTTTATTATTAAATAA-T-AATTTAAATTAAA
1 ATTTTATTATTAAATAATTAAATTT-AATTAAA
85711 TTAATTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
30 11 0.21
31 23 0.44
32 13 0.25
33 4 0.08
34 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTTTATTATTAAATAATTAAATTTAATTAAA
Found at i:85720 original size:35 final size:35
Alignment explanation
Indices: 85661--85728 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
85651 TTTATATTAT
* *
85661 ATAATTAAATTTAATTAAAATTTTATTATTAAATA
1 ATAATTAAATTAAATTAAAATTTTATTAATAAATA
*
85696 ATAATTTAAATTAAATT-AATTTTTATTAATAAA
1 ATAA-TTAAATTAAATTAAAATTTTATTAATAAA
85729 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATAATTAAATTAAATTAAAATTTTATTAATAAATA
Found at i:85723 original size:15 final size:16
Alignment explanation
Indices: 85686--85737 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
85676 TAAAATTTTA
85686 TTATTAAATAATAATTT
1 TTATTAAAT-ATAATTT
**
85703 AAATTAAAT-TAATTT
1 TTATTAAATATAATTT
*
85718 TTATT-AATAAAATTT
1 TTATTAAATATAATTT
85733 TTATT
1 TTATT
85738 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.10
15 19 0.66
17 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTAAATATAATTT
Found at i:85743 original size:13 final size:14
Alignment explanation
Indices: 85713--85745 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
85703 AAATTAAATT
85713 AATTTTTATTAATAA
1 AATTTTTATT-ATAA
85728 AATTTTTATT-TAA
1 AATTTTTATTATAA
85741 AATTT
1 AATTT
85746 AATTAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
15 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTTATTATAA
Found at i:86232 original size:11 final size:11
Alignment explanation
Indices: 86213--86256 Score: 56
Period size: 10 Copynumber: 4.1 Consensus size: 11
86203 TAATTGTCAA
86213 TTTTT-TAATT
1 TTTTTATAATT
*
86223 TTTTTATAATA
1 TTTTTATAATT
86234 TTTTTA-AATT
1 TTTTTATAATT
86244 TTTTTATTAATT
1 TTTTTA-TAATT
86256 T
1 T
86257 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 14 0.48
11 10 0.34
12 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:86256 original size:20 final size:20
Alignment explanation
Indices: 86211--86256 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
86201 TTTAATTGTC
*
86211 AATTTTTTAATTTTTTTATA
1 AATTTTTAAATTTTTTTATA
*
86231 ATATTTTTAAATTTTTTTATT
1 A-ATTTTTAAATTTTTTTATA
86252 AATTT
1 AATTT
86257 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTTTTAAATTTTTTTATA
Found at i:86262 original size:20 final size:21
Alignment explanation
Indices: 86219--86262 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
86209 TCAATTTTTT
**
86219 AATTTTTTTATAATATTTTTA
1 AATTTTTTTATAATATTTAAA
*
86240 AATTTTTTTATTA-ATTTAAA
1 AATTTTTTTATAATATTTAAA
86260 AAT
1 AAT
86263 AAAATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTTTTTATAATATTTAAA
Found at i:86294 original size:35 final size:32
Alignment explanation
Indices: 86240--86303 Score: 83
Period size: 35 Copynumber: 1.9 Consensus size: 32
86230 AATATTTTTA
*
86240 AATTTTTTTATTAATTTAAAAATAAAATATTT
1 AATTTTTTTATTAAATTAAAAATAAAATATTT
*
86272 AATTTTATATTATTAAAATTAAAAATTAAATA
1 AATTTT-T-TTATT-AAATTAAAAATAAAATA
86304 AAATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 6 0.22
33 1 0.04
34 5 0.19
35 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTTTTTATTAAATTAAAAATAAAATATTT
Found at i:86307 original size:17 final size:18
Alignment explanation
Indices: 86285--86318 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86275 TTTATATTAT
86285 TAAAAT-TAAAAATTAAA
1 TAAAATATAAAAATTAAA
*
86302 TAAAATATAAAATTTAA
1 TAAAATATAAAAATTAA
86319 TTCAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATATAAAAATTAAA
Found at i:86363 original size:2 final size:2
Alignment explanation
Indices: 86356--86391 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
86346 TAACGAAATC
86356 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
86392 GGTAAATTAA
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:94563 original size:166 final size:163
Alignment explanation
Indices: 94370--95164 Score: 642
Period size: 166 Copynumber: 4.9 Consensus size: 163
94360 TTTATTTATA
* * * *
94370 AAATACGAAATTTTCTATTCTGTAAATATTTTCGAGGGGATTTTTCTTGGTTTCAAATTTTTAAA
1 AAATACGGAGTTTTCTACTCCGTAAATATTTTCGAGGGGATTTTTCTTGGTTT-AAATTTTTAAA
* * * * ** * *
94435 ATCCATAAAATATTATTATTTAATTTATCTTAAATCGGTTTTCAAAACTTCATTCATTTTCATTA
65 ATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAA-TTCATTTATTTTCATGA
* * * *
94500 GTTTTTCATTCTTTT-TTTGAAATTCCCTTGCTTTT-G
129 GTTTTTAATTTTTTTCTTTGAAATT---TTTCTTTTCT
*
94536 AAATACGGAGTTTTCTACTCCGTAAATATTTTTG-GAGGGATTTTTCTTGGTTTTTAAA-TTTTA
1 AAATACGGAGTTTTCTACTCCGTAAATATTTTCGAG-GGGATTTTTCTTGG--TTTAAATTTTTA
*
94599 AAATTCATCAAATATTATTATTTAATTCATATTAAATTAATTTTCAAAAATTCATTTATTTTCAT
63 AAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTC-AAAATTCATTTATTTTCAT
*
94664 GAGTTTTGAATTTTTTTCTTTGAAATTTTTCTATTTCCT
127 GAGTTTTTAATTTTTTTCTTTGAAATTTTTCT-TTT-CT
** ** * **** * *
94703 AAATATAGAGTTTTCTACTCTATAAATATTTTTGAAAAAATTTTTCTTGGTTTTAATTTTTGAAA
1 AAATACGGAGTTTTCTACTCCGTAAATATTTTCGAGGGGATTTTTCTTGGTTTAAATTTTTAAAA
** * *
94768 TTTGTCAAATATTATTATTTAATTCATATTAAATCATTTTTCAAAATTTATTTATTTTCATGAG-
66 TTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAATTCATTTATTTTCATGAGT
*
94832 TTTTGATTTTTTTCTTTGAAATTTTTCTATTTTCT
131 TTTTAATTTTTTTCTTTGAAATTTTTC--TTTTCT
* * * * *
94867 AATTATGGAGTTTTCTACTTCGTAAATATTTTCGAGGGG----TT-TT-ATTT-AATTTTTGAAA
1 AAATACGGAGTTTTCTACTCCGTAAATATTTTCGAGGGGATTTTTCTTGGTTTAAATTTTTAAAA
* * **
94925 TTCATCAAATATTATTATTTAATTGACATTAAAT---TAGTCAAAAATTCATTTATTTTCATGAG
66 TTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTC-AAAATTCATTTATTTTCATGAG
* * *
94987 TTTTGAA---TTTT-TTTGAAAGTTTTCTGATTTTT
130 TTTTTAATTTTTTTCTTTGAAATTTTTCT--TTTCT
* * * * * * *
95019 GAAAAAC-TAGATTTTCTATTCCATAAATGTTTTCG-GAGGGATTTTTCTCGATTTAAAATTTTT
1 -AAATACGGAG-TTTTCTACTCCGTAAATATTTTCGAG-GGGATTTTTCTTGGTTT-AAATTTTT
* * * * ** * * * * *
95082 AAAATTCTTCTAATATTATTATTAAACTCCCATTAAATTATTTTTGAGAAATTCAATTAATTTCA
62 AAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCA-AAATTCATTTATTTTCA
* * *
95147 TGAATTTTGAATTCTTTT
126 TGAGTTTTTAATTTTTTT
95165 ATATATATTA
Statistics
Matches: 515, Mismatches: 80, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
150 1 0.00
152 19 0.04
153 30 0.06
154 3 0.01
155 21 0.04
156 4 0.01
157 43 0.08
158 4 0.01
159 6 0.01
160 2 0.00
161 38 0.07
163 1 0.00
164 87 0.17
165 33 0.06
166 159 0.31
167 61 0.12
168 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (163 bp):
AAATACGGAGTTTTCTACTCCGTAAATATTTTCGAGGGGATTTTTCTTGGTTTAAATTTTTAAAA
TTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAATTCATTTATTTTCATGAGT
TTTTAATTTTTTTCTTTGAAATTTTTCTTTTCT
Found at i:96959 original size:17 final size:19
Alignment explanation
Indices: 96939--96981 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
96929 TATATAAAAA
*
96939 ATTATTTTTTTAT-TTTG-
1 ATTATTTTTATATCTTTGC
*
96956 ATTACTTTTATATCTTTGC
1 ATTATTTTTATATCTTTGC
96975 ATTATTT
1 ATTATTT
96982 CGGTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTATTTTTATATCTTTGC
Found at i:97973 original size:273 final size:277
Alignment explanation
Indices: 97478--98010 Score: 640
Period size: 273 Copynumber: 1.9 Consensus size: 277
97468 TTATGATTGG
*
97478 ATGAACCAAGAGGAGGTGAATTGGTTCTTTTCGAAATTTGAATATTTTGAAAGAATTACTTCGAA
1 ATGAACCAAGAGGAGGTGAATTGGTTCTTTTCGAAATTTGAATATTTTGAAAGAATTACTGCGAA
97543 AACAACTTGAAAATAAAGAGAGTAGGGAAAAGAGAAAGCTTGACACAAATATTTATAGAGGTTCG
66 AACAACTTGAAAATAAAGAGAGTAGGGAAAAGAGAAAGCTTGACACAAATATTTATAGAGGTTCG
* * * * *
97608 GTCCAAACACGGTGCTTACGTCTTCTCTCCTTGACACTTTCTTGTCGAGTGTTACCACAATCCAC
131 GTCCAAACACGGTACCTACGTCTTCTCTCCTCGACACTTCCTTATCGAGTGTTACCACAATCCAC
* * * * * *
97673 TACATGAATTGTTTACCTTTCAGGCAAAGGTATAACCTTACAACA-CTTATCTTTTCAAGGCTAA
196 TAAAAGAATTGATTACCTTTAAGGCAAAGGTAAAACCTTACAAAACCTTATCTTTTCAAGGCTAA
97737 TGTAAACTCAAGGAATA
261 TGTAAACTCAAGGAATA
* * * * **
97754 ATGAACCAAGAGGGGGGTGAATTGGTTCTTTTC-AAATTTGGAGTGTTTTGAAAGATTTGGTGC-
1 ATGAACCAAGA-GGAGGTGAATTGGTTCTTTTCGAAATTT-GAATATTTTGAAAGAATTACTGCG
** ** *
97817 AAAACAA-TTCGAAAGATAAA-A-AG-ATTGAAGAAGA-AAAGCTTGGTACAAGA-GTTTATAGA
64 AAAACAACTT-GAAA-ATAAAGAGAGTAGGGAA-AAGAGAAAGCTTGACACAA-ATATTTATAGA
** * *
97876 GGTTCGGTCCAGTC-CGGTACCTATGTCCTT-TCTCCTCGACACTTCCTTATCGAGTGGTTATC-
125 GGTTCGGTCCAAACACGGTACCTACGT-CTTCTCTCCTCGACACTTCCTTATCGAGT-GTTACCA
* * *
97938 TAATTCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTAAAACCTTACAAAACCTTATCTTTTG
188 CAATCCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTAAAACCTTACAAAACCTTATCTTTTC
98003 AAGGCTAA
253 AAGGCTAA
98011 GATAACAACC
Statistics
Matches: 218, Mismatches: 30, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
273 76 0.35
274 62 0.28
275 9 0.04
276 29 0.13
277 42 0.19
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (277 bp):
ATGAACCAAGAGGAGGTGAATTGGTTCTTTTCGAAATTTGAATATTTTGAAAGAATTACTGCGAA
AACAACTTGAAAATAAAGAGAGTAGGGAAAAGAGAAAGCTTGACACAAATATTTATAGAGGTTCG
GTCCAAACACGGTACCTACGTCTTCTCTCCTCGACACTTCCTTATCGAGTGTTACCACAATCCAC
TAAAAGAATTGATTACCTTTAAGGCAAAGGTAAAACCTTACAAAACCTTATCTTTTCAAGGCTAA
TGTAAACTCAAGGAATA
Found at i:98584 original size:19 final size:19
Alignment explanation
Indices: 98539--98594 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
98529 CTGCCAGTTT
**
98539 CATGTATTGATACATATGTT
1 CATGTATTGATACA-ATGAA
*
98559 TATGTATTGATACAATGAA
1 CATGTATTGATACAATGAA
**
98578 CATGTATCAATACAATG
1 CATGTATTGATACAATG
98595 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:103062 original size:13 final size:13
Alignment explanation
Indices: 103044--103068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103034 ATTACTCAAA
103044 TGTATCGATACAT
1 TGTATCGATACAT
103057 TGTATCGATACA
1 TGTATCGATACA
103069 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107715 original size:247 final size:247
Alignment explanation
Indices: 107276--107773 Score: 978
Period size: 247 Copynumber: 2.0 Consensus size: 247
107266 AACAATTTTG
107276 CAAAAAGTGATGGGTTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAATAAAACCCAAGTATATTT
1 CAAAAAGTGATGGGTTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAATAAAACCCAAGTATATTT
107341 TGAATAATCATCCACAATAACAAATCCATATCTTTTACTACCTAGACTTTGCGTTCTAGTTGGAC
66 TGAATAATCATCCACAATAACAAATCCATATCTTTTACTACCTAGACTTTGCGTTCTAGTTGGAC
107406 CAAATAAGTCGATGTGAACTAGTTGCAATACTCTAGATGTTGTGACAATTTTTATGGGTTTAAAA
131 CAAATAAGTCGATGTGAACTAGTTGCAATACTCTAGATGTTGTGACAATTTTTATGGGTTTAAAA
107471 GAATTTCTTTTATGCTTGCCCTTAATGCATGCATCACATACTTTATCATAAT
196 GAATTTCTTTTATGCTTGCCCTTAATGCATGCATCACATACTTTATCATAAT
107523 CAAAAAGTGATGGGTTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAATAAAACCCAAGTATATTT
1 CAAAAAGTGATGGGTTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAATAAAACCCAAGTATATTT
107588 TGAATAATCATCCACAATAACAAATCCATATCTTTTACTACCTAGACTTTGCGTTCTAGTTGGAC
66 TGAATAATCATCCACAATAACAAATCCATATCTTTTACTACCTAGACTTTGCGTTCTAGTTGGAC
*
107653 CAAATAAGTCGATGTGAACTAGTTGCAATACTCTAGATGTTGTGACAATTTTTATTGGTTTAAAA
131 CAAATAAGTCGATGTGAACTAGTTGCAATACTCTAGATGTTGTGACAATTTTTATGGGTTTAAAA
*
107718 GAATTTCTTTTATGCTTGCCCTTAATGCATGCATCACATGCTTTATCATAAT
196 GAATTTCTTTTATGCTTGCCCTTAATGCATGCATCACATACTTTATCATAAT
107770 CAAA
1 CAAA
107774 TTTAACCTTA
Statistics
Matches: 249, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
247 249 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (247 bp):
CAAAAAGTGATGGGTTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAATAAAACCCAAGTATATTT
TGAATAATCATCCACAATAACAAATCCATATCTTTTACTACCTAGACTTTGCGTTCTAGTTGGAC
CAAATAAGTCGATGTGAACTAGTTGCAATACTCTAGATGTTGTGACAATTTTTATGGGTTTAAAA
GAATTTCTTTTATGCTTGCCCTTAATGCATGCATCACATACTTTATCATAAT
Found at i:111074 original size:20 final size:20
Alignment explanation
Indices: 111049--111108 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
111039 CTGTCAGTTT
111049 CATGTATCAATACAATTATC
1 CATGTATCAATACAATTATC
* * *
111069 CATGTATCGATACAATGA-A
1 CATGTATCAATACAATTATC
*
111088 CATGTATCAGTACAATATATC
1 CATGTATCAATACAAT-TATC
111109 GATACAAAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (20 bp):
CATGTATCAATACAATTATC
Found at i:113381 original size:141 final size:143
Alignment explanation
Indices: 113010--113561 Score: 678
Period size: 141 Copynumber: 3.9 Consensus size: 143
113000 GAAAATTTTG
* ** *
113010 AAAATCTCATTTCATACCTTAAT--AAATATTGAAAAGATATAAAAAGTTTTGAAGATTTCTACA
1 AAAAT-TCATTTCGTACCTTAATGGAAA-ATTGAAAAGATACGAAAAGTTTTGAAGATTTCTATA
* ** * *
113073 C-CCCTATGGAAAACCAGAGGAATATTAGAAATATTGAAAAATTAAGATAATAATTTTTATTTAA
64 CTCACTACAGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA
*
113137 TTATTAAATTTCCAAA
129 TT-TTAAATTTTCAAA
*
113153 AAAA-TCATCTCGTACCTTAATGGAAAACTT-AAAAGATACGAAAAGTTTTGAAGATTTCTATAC
1 AAAATTCATTTCGTACCTTAATGGAAAA-TTGAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
* *
113216 -CTCTACAGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATATTTTTTATTTAAT
65 TCACTACAGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAAT
113280 TTT-AATTTTCAAA
130 TTTAAATTTTCAAA
* *
113293 AAAATTCATTTCGTACCTTAATGGAGAATTGAAAAGATACGAAAAGTTTTAAAGATTTCTATACT
1 AAAATTCATTTCGTACCTTAATGGAAAATTGAAAAGATACGAAAAGTTTTGAAGATTTCTATACT
* * *
113358 C-CTAC-GAAAAATCATA-AACATATTAAAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA
66 CACTACAG-AAAACCATAGGA-ATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA
* * * *
113420 TTTTTGATTTTTTAAG
129 -TTTTAAATTTTCAAA
* * *
113436 AAAATTCATTTCGTACCTTAATGGAGAATTGAAAAGATAC-AAAATTTTTTGAATATTTCTATA-
1 AAAATTCATTTCGTACCTTAATGGAAAATTGAAAAGATACGAAAA-GTTTTGAAGATTTCTATAC
* * * * *
113499 TCACTACAGAAAACCATAGGAATATTAGAAGTTTTGAAGAATTAAAATAATAATTTTCATTTA
65 TCACTACAGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
113562 GTGATAAAAT
Statistics
Matches: 362, Mismatches: 33, Indels: 28
0.86 0.08 0.07
Matches are distributed among these distances:
140 17 0.05
141 123 0.34
142 101 0.28
143 119 0.33
144 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (143 bp):
AAAATTCATTTCGTACCTTAATGGAAAATTGAAAAGATACGAAAAGTTTTGAAGATTTCTATACT
CACTACAGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATT
TTAAATTTTCAAA
Found at i:114464 original size:23 final size:23
Alignment explanation
Indices: 114434--114485 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
114424 TTTGACATAG
*
114434 TTTTTCTTT-TTTTTTTCTCTTT
1 TTTTTCTTTCTTTTTTCCTCTTT
114456 CTTTTTCTTTCTTTTTTCCTCTTT
1 -TTTTTCTTTCTTTTTTCCTCTTT
114480 TTTTTC
1 TTTTTC
114486 CAAGTTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTCTTTCTTTTTTCCTCTTT
Found at i:114486 original size:12 final size:12
Alignment explanation
Indices: 114441--114486 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
114431 TAGTTTTTCT
*
114441 TTTTTTTTTCTC
1 TTTTTTTTCCTC
114453 TTTCTTTTT-CT-
1 TTT-TTTTTCCTC
114464 TTCTTTTTTCCTC
1 TT-TTTTTTCCTC
114477 TTTTTTTTCC
1 TTTTTTTTCC
114487 AAGTTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.23
12 16 0.53
13 7 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTCCTC
Found at i:114605 original size:18 final size:20
Alignment explanation
Indices: 114574--114610 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
114564 CCTTAGCTGA
114574 TTGCTTATTTTTTC-TTTTT
1 TTGCTTATTTTTTCATTTTT
114593 TTGCTTA-TTTTTCATTTT
1 TTGCTTATTTTTTCATTTT
114611 CCTATGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (20 bp):
TTGCTTATTTTTTCATTTTT
Found at i:114719 original size:20 final size:20
Alignment explanation
Indices: 114694--114739 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
114684 TACTATAAAG
* *
114694 CTCATGATGAAGTTGATCAA
1 CTCATGATGAAGCTAATCAA
*
114714 CTCATGATGAAGCTAATCAG
1 CTCATGATGAAGCTAATCAA
114734 CTCATG
1 CTCATG
114740 TAATGGGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
CTCATGATGAAGCTAATCAA
Found at i:116529 original size:42 final size:41
Alignment explanation
Indices: 116482--116617 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 41
116472 AGAGGTTATC
*
116482 CGAGATTAAGCCGACAAGTAAACAAAGGATACAAAAGTTGAT
1 CGAGATTAAGCTGACAAGTAAACAAAGGATA-AAAAGTTGAT
* * * * *
116524 CGAGATTTAA-TTGACAAGTTAACAAAGGATAAAGAGATTTACC
1 CGAGA-TTAAGCTGACAAGTAAACAAAGGATAAAAAG-TTGA-T
* * * *
116567 CGAGACTAAGCTGACAGGTAAATAAAGAATAAAAAGGTTGAT
1 CGAGATTAAGCTGACAAGTAAACAAAGGATAAAAA-GTTGAT
116609 CGAGATTAA
1 CGAGATTAA
116618 ATCGATAAGT
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
41 4 0.05
42 37 0.51
43 31 0.42
44 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (41 bp):
CGAGATTAAGCTGACAAGTAAACAAAGGATAAAAAGTTGAT
Found at i:116577 original size:85 final size:85
Alignment explanation
Indices: 116481--116861 Score: 385
Period size: 85 Copynumber: 4.5 Consensus size: 85
116471 AAGAGGTTAT
* * * * *** *
116481 CCGAGATTAAGCCGACAAGTAAACAAAGGATACAAAA-GTTGATCGAGATTTAATTGACAAGTTA
1 CCGAGACTAAGCTGACAGGTAAACAAAGGATA-AAAAGGTTGATCGAGATTAAACCAACAAGTCA
116545 ACAAAGGAT-AAAGAGATTTAC
65 ACAAAGGATAAAAG-GATTTAC
* * * * *
116566 CCGAGACTAAGCTGACAGGTAAATAAAGAATAAAAAGGTTGATCGAGATTAAATCGATAAGTCAA
1 CCGAGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCAA
*
116631 CGAAGGATAAAAGGATTTA-
66 CAAAGGATAAAAGGATTTAC
* * * * * ** * * *
116650 CCTAGGACTACGTTGATAGGTAAACAAAAGATAAAAAGGTCAAGCGAGATTGACCCAACAAGTCA
1 CCGA-GACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCA
*
116715 ACAAAGGATAAAAAGATTTAC
65 ACAAAGGATAAAAGGATTTAC
* * * * **
116736 CCTAAACTACGTTGGGAGGTAAACAAAGGATAAAAAGGTTGA-CTGAG-TTAAACCAACAAGTCA
1 CCGAGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTTGATC-GAGATTAAACCAACAAGTCA
* *
116799 ATAAAGGACAAAAGGATTTAC
65 ACAAAGGATAAAAGGATTTAC
*
116820 CCGAGACTAAGCTGACAGGTAAACAAAGGATAAAAGGGTTGA
1 CCGAGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTTGA
116862 ATTGGTGAGG
Statistics
Matches: 246, Mismatches: 45, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
84 75 0.30
85 163 0.66
86 8 0.03
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (85 bp):
CCGAGACTAAGCTGACAGGTAAACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCAA
CAAAGGATAAAAGGATTTAC
Found at i:116958 original size:45 final size:45
Alignment explanation
Indices: 116909--117004 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
116899 AAACCTTTAT
*
116909 GTCAAATGAATATAAAAAAGAGTTTAACCAGGGCTAAACCATCAC
1 GTCAAATGAAGATAAAAAAGAGTTTAACCAGGGCTAAACCATCAC
* * * * *
116954 GTCAAATGAAGATGAAAAGGAGTTTGACTAGGGCTAAACCATTAC
1 GTCAAATGAAGATAAAAAAGAGTTTAACCAGGGCTAAACCATCAC
116999 GTCAAA
1 GTCAAA
117005 CAAGATATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (45 bp):
GTCAAATGAAGATAAAAAAGAGTTTAACCAGGGCTAAACCATCAC
Found at i:117018 original size:45 final size:45
Alignment explanation
Indices: 116928--117081 Score: 147
Period size: 45 Copynumber: 3.4 Consensus size: 45
116918 ATATAAAAAA
* * * * *
116928 GAGTTTAACCAGGGCTAAACCATCACGTCAAATGAAG--ATGAAAAG
1 GAGTTTGACTAGGACTAAACCATTACGTCAAA-CAAGATATG-AAAG
*
116973 GAGTTTGACTAGGGCTAAACCATTACGTCAAACAAGATATGAAAG
1 GAGTTTGACTAGGACTAAACCATTACGTCAAACAAGATATGAAAG
* *
117018 GAGTTTGACTAGGACTAACACCTATATA-GCCAAAC-A-ATAGTGAAAA
1 GAGTTTGACTAGGACTAA-ACC-AT-TACGTCAAACAAGATA-TGAAAG
117064 GAGTTTGACTAGGACTAA
1 GAGTTTGACTAGGACTAA
117082 TCGCCAATAC
Statistics
Matches: 96, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
44 3 0.03
45 53 0.55
46 30 0.31
47 8 0.08
48 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (45 bp):
GAGTTTGACTAGGACTAAACCATTACGTCAAACAAGATATGAAAG
Found at i:117163 original size:47 final size:47
Alignment explanation
Indices: 117133--117224 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
117123 GTTCAAATGC
117133 CAATATAGTCGGATAAGGGTAAAAAGAGTTTGACTAGGTCCTAACAT
1 CAATATAGTCGGATAAGGGTAAAAAGAGTTTGACTAGGTCCTAACAT
* * *
117180 CGATATAGTCGGATGAGGGTAAAAAGAGTTTGACTAGGCCCTAAC
1 CAATATAGTCGGATAAGGGTAAAAAGAGTTTGACTAGGTCCTAAC
117225 GCCAATGCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (47 bp):
CAATATAGTCGGATAAGGGTAAAAAGAGTTTGACTAGGTCCTAACAT
Found at i:117471 original size:91 final size:91
Alignment explanation
Indices: 117376--117547 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 91
117366 GACTAACTTT
* ** *
117376 AATACAGCCAAACAAAGGAAGATAGTTTGACCAGGT-TCTAATGCCAATACAGTTAAACAAG-GA
1 AATACAGCCAAACAAAGGAAGATAGTTTAACCAAATCT-TAATGCCAATACAGTCAAACAAGAG-
117439 TGAAAAGAGTATGACCAGAATTAACGCC
64 TGAAAAGAGTATGACCAGAATTAACGCC
* * **
117467 AATACAGCCAAACGAAGGAAGATAGTTTAACCAAATCTTAATGCCAATATAGTCAAATGAGAGTG
1 AATACAGCCAAACAAAGGAAGATAGTTTAACCAAATCTTAATGCCAATACAGTCAAACAAGAGTG
117532 AAAAGAGTATGACCAG
66 AAAAGAGTATGACCAG
117548 GTCCTAATGC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
91 69 0.97
92 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (91 bp):
AATACAGCCAAACAAAGGAAGATAGTTTAACCAAATCTTAATGCCAATACAGTCAAACAAGAGTG
AAAAGAGTATGACCAGAATTAACGCC
Found at i:117580 original size:47 final size:46
Alignment explanation
Indices: 117376--117608 Score: 163
Period size: 47 Copynumber: 5.1 Consensus size: 46
117366 GACTAACTTT
* * * * * * *
117376 AATACAGCCAAACAAAG-GAAGATAGTTTGACCAGGTTCTAATGCC
1 AATACAGTCAAACAAGGTGAAAAGAGTATGACCAGATCCTAATGCC
* *
117421 AATACAGTTAAACAAGGATGAAAAGAGTATGACCAGAAT--TAACGCC
1 AATACAGTCAAACAAGG-TGAAAAGAGTATGACCAG-ATCCTAATGCC
* * * * * * *
117467 AATACAGCCAAACGAA-G-GAAGATAGTTTAACCAAATCTTAATGCC
1 AATACAGTCAAAC-AAGGTGAAAAGAGTATGACCAGATCCTAATGCC
* ** *
117512 AATATAGTCAAATGAGAGTGAAAAGAGTATGACCAGGTCCTAATGCC
1 AATACAGTCAAACAAG-GTGAAAAGAGTATGACCAGATCCTAATGCC
* * **
117559 AATACAATCAAACAATGGTGAAAAGAGTTTGACCA-AAACTAATGCC
1 AATACAGTCAAACAA-GGTGAAAAGAGTATGACCAGATCCTAATGCC
117605 AATA
1 AATA
117609 TAGTTAAATA
Statistics
Matches: 143, Mismatches: 35, Indels: 19
0.73 0.18 0.10
Matches are distributed among these distances:
43 2 0.01
44 13 0.09
45 30 0.21
46 31 0.22
47 65 0.45
48 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (46 bp):
AATACAGTCAAACAAGGTGAAAAGAGTATGACCAGATCCTAATGCC
Found at i:117867 original size:184 final size:183
Alignment explanation
Indices: 117466--117940 Score: 402
Period size: 184 Copynumber: 2.6 Consensus size: 183
117456 GAATTAACGC
* * * * * * ** * * * *
117466 CAATACAGCCAAACGAAGGAAGATAGTTTAACCAAAT-CTTAATGCCAATATAGTCAAATGAGAG
1 CAATACAGACAAATGATGGAAGATAGTTTGACTAAGTAC-TAACACCAATACAATCAAATGATAA
* *
117530 TGAAAAGAGTATGACCAGGTCCTAATGCCAATACAATCAAACAATGGTGAAAAGAGTTTGACCAA
65 TGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAATGGTAAAAAGAGTTTGACCAA
* ** *
117595 AACTAATGCCAATATAGTTAAATAAAGATAAAAAAAAGTTTGACCAAGTCTAATGA
130 AACTAATGCCAATACAGCCAAAT--AGATAAAAAAAAGTTTAACCAAGTCTAATGA
* * *
117651 TAATACAGACAAATGATGGTAGATAGTTTGACTAAG-ACTAACACTAATACAATCAAATGATAAT
1 CAATACAGACAAATGATGGAAGATAGTTTGACTAAGTACTAACACCAATACAATCAAATGATAAT
* * * * ** *
117715 GTAAAGAGTTTGACCAGTTCCTAATGCTAATATAATCAAATGATGGTAAAAAGAGTTTGACCAAG
66 GAAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAATGGTAAAAAGAGTTTGACCAAA
* * ** * * *
117780 AGTAATGCCAATCCAGCCAAAT-GATGGAAGAAAGTTTAACCAGGTCTTAATGC
131 ACTAATGCCAATACAGCCAAATAGATAAAAAAAAGTTTAACCAAGTC-TAATGA
** * * ** **
117833 CAATACAGTTAAATGAGCATGGAAAGA-A-TTTGACTAGGTCCTAATGCCAATACAGCCAAATGA
1 CAATACAGACAAAT--G-ATGG-AAGATAGTTTGACTAAGTACTAACACCAATACAATCAAATGA
* * * ** *
117896 TGATGAAAAGAGTTTGACGAGGTCCTGACACCAATACAGTCAAAC
62 TAATGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAAC
117941 GAAGAAAGAA
Statistics
Matches: 226, Mismatches: 57, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
181 19 0.08
182 16 0.07
184 102 0.45
185 86 0.38
186 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (183 bp):
CAATACAGACAAATGATGGAAGATAGTTTGACTAAGTACTAACACCAATACAATCAAATGATAAT
GAAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAATGGTAAAAAGAGTTTGACCAAA
ACTAATGCCAATACAGCCAAATAGATAAAAAAAAGTTTAACCAAGTCTAATGA
Found at i:117881 original size:47 final size:47
Alignment explanation
Indices: 117505--117939 Score: 183
Period size: 47 Copynumber: 9.4 Consensus size: 47
117495 AACCAAATCT
* * * *
117505 TAATGCCAATATAGTCAAATGA-GAGTGAAAAGAGTATGACCAGGTCC
1 TAATGCCAATACAGTCAAATGATGA-TGAAAAGAATTTGACGAGGTCC
* ** * * * ***
117552 TAATGCCAATACAATCAAACAATGGTGAAAAGAGTTTGACCA-AAAC
1 TAATGCCAATACAGTCAAATGATGATGAAAAGAATTTGACGAGGTCC
* * * * * * * *
117598 TAATGCCAATATAGTTAAATAAAGATAAAAAAAAGTTTGACCAAGT-C
1 TAATGCCAATACAGTCAAATGATGATGAAAAGAA-TTTGACGAGGTCC
** * * * * * *
117645 TAATGATAATACAGACAAATGATGGT-AGATAG--TTTGACTAAG-AC
1 TAATGCCAATACAGTCAAATGATGATGA-AAAGAATTTGACGAGGTCC
** * * * * * * *
117689 TAACACTAATACAATCAAATGATAATGTAAAGAGTTTGACCAGTTCC
1 TAATGCCAATACAGTCAAATGATGATGAAAAGAATTTGACGAGGTCC
* * * * * * * * **
117736 TAATGCTAATATAATCAAATGATGGTAAAAAGAGTTTGACCAAG-AG
1 TAATGCCAATACAGTCAAATGATGATGAAAAGAATTTGACGAGGTCC
* * * * * *
117782 TAATGCCAATCCAGCCAAATGATG--GAAGAA-AGTTTAACCAGGTCT
1 TAATGCCAATACAGTCAAATGATGATGAA-AAGAATTTGACGAGGTCC
* * *
117827 TAATGCCAATACAGTTAAATGA-GCATGGAAAGAATTTGACTAGGTCC
1 TAATGCCAATACAGTCAAATGATG-ATGAAAAGAATTTGACGAGGTCC
* *
117874 TAATGCCAATACAGCCAAATGATGATGAAAAGAGTTTGACGAGGTCC
1 TAATGCCAATACAGTCAAATGATGATGAAAAGAATTTGACGAGGTCC
* **
117921 TGACACCAATACAGTCAAA
1 TAATGCCAATACAGTCAAA
117940 CGAAGAAAGA
Statistics
Matches: 290, Mismatches: 82, Indels: 32
0.72 0.20 0.08
Matches are distributed among these distances:
44 45 0.16
45 21 0.07
46 55 0.19
47 167 0.58
48 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (47 bp):
TAATGCCAATACAGTCAAATGATGATGAAAAGAATTTGACGAGGTCC
Found at i:119678 original size:13 final size:13
Alignment explanation
Indices: 119660--119684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119650 ATATTGCACA
119660 GTATCGATACATT
1 GTATCGATACATT
119673 GTATCGATACAT
1 GTATCGATACAT
119685 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:119697 original size:20 final size:20
Alignment explanation
Indices: 119672--119723 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
119662 ATCGATACAT
*
119672 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTA-AAAA
*
119692 TGTATCGATACTTGTAAAAA
1 TGTATCGATACATGTAAAAA
119712 TGTATCGATACA
1 TGTATCGATACA
119724 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGTAAAAA
Found at i:119802 original size:13 final size:13
Alignment explanation
Indices: 119784--119809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119774 ACACACAAGA
119784 TGTATCGATACAT
1 TGTATCGATACAT
119797 TGTATCGATACAT
1 TGTATCGATACAT
119810 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119825 original size:33 final size:32
Alignment explanation
Indices: 119764--119831 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
119754 CCTTAACTGT
*
119764 TTGTATCGATACACACAAGATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
119796 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
119829 TTG
1 TTG
119832 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:125953 original size:13 final size:13
Alignment explanation
Indices: 125935--125959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125925 AAAACTCAGA
125935 TGTATCGATACAG
1 TGTATCGATACAG
125948 TGTATCGATACA
1 TGTATCGATACA
125960 AAGGGTTTAT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:127198 original size:19 final size:19
Alignment explanation
Indices: 127174--127241 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
127164 AATTCAACGA
127174 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
127193 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
127208 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
127225 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
127242 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:127212 original size:32 final size:32
Alignment explanation
Indices: 127176--127238 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
127166 TTCAACGATT
*
127176 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
127208 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
127239 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:127213 original size:13 final size:13
Alignment explanation
Indices: 127195--127219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127185 ACATAAGTTT
127195 TGTATCGATACAA
1 TGTATCGATACAA
127208 TGTATCGATACA
1 TGTATCGATACA
127220 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:127299 original size:13 final size:13
Alignment explanation
Indices: 127281--127306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127271 CATTTTTCTG
127281 TGTATCGATACAT
1 TGTATCGATACAT
127294 TGTATCGATACAT
1 TGTATCGATACAT
127307 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127303 original size:33 final size:33
Alignment explanation
Indices: 127261--127327 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
127251 GCCAAGGAAA
***
127261 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
127294 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
127327 T
1 T
127328 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:129840 original size:28 final size:27
Alignment explanation
Indices: 129773--129845 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
129763 CTTCACAATC
* *
129773 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
129800 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
129828 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
129846 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:129890 original size:51 final size:51
Alignment explanation
Indices: 129828--129998 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
129818 TTATTTCTGA
* * *
129828 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
129879 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
129932 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
129984 GAGGATACTCCAACC
1 GGGGATACTCCAACC
129999 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:129991 original size:105 final size:105
Alignment explanation
Indices: 129659--129998 Score: 273
Period size: 105 Copynumber: 3.2 Consensus size: 105
129649 CTCAATTCTC
* * * * ** *
129659 CACAATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTT-T-CTATAATCGGGGA
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
*
129722 TACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTT
66 TACTCCAACTCCGATTTTATTTCC---AAAAATACCAATTT-TT
* * * ** * * * * * *
129766 CACAATCGGGGACACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA---CCCCGTTATTTCT
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACACCAATTTCTCCTTTA-ATC-
* * * * *
129826 GAGGGGATACTCCAACCCCGACTTTATTTTC-AAAATATCGATTTTT
61 --GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
* * *
129872 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGA
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
*
129937 TACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTT
66 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
129977 CACAATCGAGGATACTCCAACC
1 CACAATCGAGGATACTCCAACC
129999 TCGTTATTTC
Statistics
Matches: 174, Mismatches: 44, Indels: 32
0.70 0.18 0.13
Matches are distributed among these distances:
104 25 0.14
105 44 0.25
106 24 0.14
107 36 0.21
108 19 0.11
111 26 0.15
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (105 bp):
CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
Found at i:130017 original size:28 final size:28
Alignment explanation
Indices: 129981--130062 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
129971 ATTTTTCACA
*
129981 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
130009 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
130037 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
130063 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:142475 original size:13 final size:13
Alignment explanation
Indices: 142457--142514 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
142447 CCTTCTCTTC
*
142457 AAAAAAAAGAGCA
1 AAAAAAAAAAGCA
*
142470 AAAAAAAAAAGGA
1 AAAAAAAAAAGCA
142483 AAAAAAAAAA--A
1 AAAAAAAAAAGCA
142494 AAAAAACAAAA-CA
1 AAAAAA-AAAAGCA
142507 AAGAAAAA
1 AA-AAAAA
142515 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 7 0.17
12 4 0.10
13 25 0.62
14 4 0.10
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGCA
Found at i:142504 original size:19 final size:20
Alignment explanation
Indices: 142469--142514 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
142459 AAAAAAGAGC
**
142469 AAAAAAAAAAAGGAAAA-AA
1 AAAAAAAAAAAACAAAACAA
142488 AAAAAAAAAAAACAAAACAA
1 AAAAAAAAAAAACAAAACAA
142508 AGAAAAA
1 A-AAAAA
142515 GAGAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 3 0.13
21 5 0.22
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAACAAAACAA
Found at i:143579 original size:55 final size:55
Alignment explanation
Indices: 143495--144179 Score: 941
Period size: 55 Copynumber: 12.3 Consensus size: 55
143485 TCCGCTTTTT
*
143495 AGTCCTCAAAGAGCAGGACACGTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
143550 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
143605 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
143660 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
143715 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * *
143771 AGTCCTCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
143826 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
143881 AGTCCCCGAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
143936 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*** * *
143991 AGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
144052 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
144107 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
144162 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
144180 TACACTTTAT
Statistics
Matches: 570, Mismatches: 44, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
54 11 0.02
55 447 0.78
56 64 0.11
57 1 0.00
59 1 0.00
60 4 0.01
61 42 0.07
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:143996 original size:276 final size:277
Alignment explanation
Indices: 143495--144156 Score: 1044
Period size: 276 Copynumber: 2.4 Consensus size: 277
143485 TCCGCTTTTT
*
143495 AGTCCTCAAAGAGCAGGACACGTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * *
143560 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC
66 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCCCAAAGAGCAGGAC
143624 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
131 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
*
143689 GCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGA-C-ACCTCTCAAAGCCCACAC
196 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAGCTA-CTCTCAAAGCCCACAC
143752 AAGTTGGTGGCACCTTTCC
260 AAGTTGGTGGCACCTTT-C
* * *
143771 AGTCCTCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
*
143836 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCGAAGAGCAGGAC
66 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCCCAAAGAGCAGGAC
*
143900 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAA
131 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
* ** * * * *
143965 GCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCT
196 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA-GC----TACTCTCAAAGCCC
144030 ACACAAGTTGGTGGCACCTTTC
256 ACACAAGTTGGTGGCACCTTTC
*
144052 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * *
144117 GAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCAC
66 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAC
144157 TTTTTACTCC
Statistics
Matches: 354, Mismatches: 24, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
276 220 0.62
277 3 0.01
278 1 0.00
281 99 0.28
282 30 0.08
283 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (277 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCCCAAAGAGCAGGAC
ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAGCTACTCTCAAAGCCCACACA
AGTTGGTGGCACCTTTC
Found at i:144074 original size:26 final size:26
Alignment explanation
Indices: 144044--144133 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
144034 AAGTTGGTGG
144044 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
144070 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
*
144099 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
*
144125 CGCCTTTCA
1 CACCTTTCA
144134 AAGCCCACAC
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:144938 original size:20 final size:20
Alignment explanation
Indices: 144886--144967 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
144876 AAAAAAAAAA
144886 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
144905 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
144926 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
144946 ATTCGACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
144967 A
1 A
144968 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:144947 original size:41 final size:40
Alignment explanation
Indices: 144886--144967 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
144876 AAAAAAAAAA
* *
144886 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACATTCG-ACAAATGTATCGATAC
144926 ATTCACAAATGTATCGATACATTCGACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCGACAAATGTATCGATAC
144967 A
1 A
144968 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 5 0.13
41 33 0.87
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCGACAAATGTATCGATAC
Found at i:145027 original size:19 final size:19
Alignment explanation
Indices: 145003--145070 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
144993 AATTCAACGA
145003 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
145022 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
145037 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
145054 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
145071 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:145041 original size:32 final size:32
Alignment explanation
Indices: 145005--145067 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
144995 TTCAACGATT
*
145005 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
145037 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
145068 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:145042 original size:13 final size:13
Alignment explanation
Indices: 145024--145048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
145014 ACATAAGTTT
145024 TGTATCGATACAA
1 TGTATCGATACAA
145037 TGTATCGATACA
1 TGTATCGATACA
145049 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:145128 original size:13 final size:13
Alignment explanation
Indices: 145110--145135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
145100 CATTTTTCTG
145110 TGTATCGATACAT
1 TGTATCGATACAT
145123 TGTATCGATACAT
1 TGTATCGATACAT
145136 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:145132 original size:33 final size:33
Alignment explanation
Indices: 145090--145156 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
145080 GCCAAGGAAA
***
145090 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
145123 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
145156 T
1 T
145157 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:147667 original size:28 final size:27
Alignment explanation
Indices: 147600--147672 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
147590 CTTCACAATC
* *
147600 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
147627 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
147655 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
147673 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:147717 original size:51 final size:51
Alignment explanation
Indices: 147655--147825 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
147645 TTATTTCTGA
* * *
147655 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
147706 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
147759 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
147811 GAGGATACTCCAACC
1 GGGGATACTCCAACC
147826 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:147844 original size:28 final size:28
Alignment explanation
Indices: 147808--147889 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
147798 ATTTTTCACA
*
147808 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
147836 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
147864 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
147890 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:150435 original size:13 final size:13
Alignment explanation
Indices: 150417--150441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150407 ATATTGCACA
150417 GTATCGATACATT
1 GTATCGATACATT
150430 GTATCGATACAT
1 GTATCGATACAT
150442 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:150454 original size:20 final size:21
Alignment explanation
Indices: 150429--150481 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
150419 ATCGATACAT
*
150429 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
150449 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
150470 TGTATCGATACA
1 TGTATCGATACA
150482 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:150560 original size:13 final size:13
Alignment explanation
Indices: 150542--150567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
150532 ACACACAAGA
150542 TGTATCGATACAT
1 TGTATCGATACAT
150555 TGTATCGATACAT
1 TGTATCGATACAT
150568 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:150583 original size:33 final size:32
Alignment explanation
Indices: 150522--150589 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
150512 CCTTAACTGT
*
150522 TTGTATCAATACACACAAGATGTATCGATACA
1 TTGTATCAATACACACAAAATGTATCGATACA
* *
150554 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCAATACA-CACAAAATGTATCGATACA
150587 TTG
1 TTG
150590 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (32 bp):
TTGTATCAATACACACAAAATGTATCGATACA
Found at i:151601 original size:16 final size:18
Alignment explanation
Indices: 151579--151623 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
151569 AAATTTTTCA
151579 ATTTTTTAT-TTTCTC-CT
1 ATTTTTT-TCTTTCTCTCT
151596 -TTTTTTTCTTTCTCTCT
1 ATTTTTTTCTTTCTCTCT
151613 A-TTTTTTCTTT
1 ATTTTTTTCTTT
151624 GTTTTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 12 0.48
17 12 0.48
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTTCTTTCTCTCT
Found at i:151617 original size:17 final size:17
Alignment explanation
Indices: 151579--151623 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
151569 AAATTTTTCA
*
151579 ATTTTTTATTTTCTCCT
1 ATTTTTTCTTTTCTCCT
*
151596 TTTTTTTC-TTTCTCTCT
1 ATTTTTTCTTTTCTC-CT
151613 ATTTTTTCTTT
1 ATTTTTTCTTT
151624 GTTTTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.26
17 15 0.65
18 2 0.09
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTCTTTTCTCCT
Found at i:152004 original size:9 final size:9
Alignment explanation
Indices: 151990--152022 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
151980 ATCTAAGTCA
151990 TTTTTTT-G
1 TTTTTTTAG
151998 TTTTTTTAG
1 TTTTTTTAG
*
152007 TTGTTTTAG
1 TTTTTTTAG
152016 TTTTTTT
1 TTTTTTT
152023 CAACCTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:152474 original size:24 final size:25
Alignment explanation
Indices: 152428--152478 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
152418 ACATAATTAA
*
152428 AAGCATTAAACATAGTTACAAACAC
1 AAGCATTAAACATAATTACAAACAC
* *
152453 AAGCA-TAAGCATAATTATAAACAC
1 AAGCATTAAACATAATTACAAACAC
152477 AA
1 AA
152479 CAGTGGGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.20
Consensus pattern (25 bp):
AAGCATTAAACATAATTACAAACAC
Done.