Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 102 of 216
Found at i:31828687 original size:12 final size:13
Alignment explanation
Indices: 31828623--31828689 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
31828613 CTCGCAAGAC
31828623 TTTTCACTTTTTT
1 TTTTCACTTTTTT
31828636 TTTT---TTTTCTT
1 TTTTCACTTTT-TT
*
31828647 TTTTAACTGATTTTT
1 TTTTCACT--TTTTT
* *
31828662 TTGTCACTTCTTT
1 TTTTCACTTTTTT
31828675 TTTTC-CTTTTTT
1 TTTTCACTTTTTT
31828687 TTT
1 TTT
31828690 GAATTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
10 4 0.09
11 6 0.14
12 9 0.21
13 12 0.28
14 1 0.02
15 8 0.19
16 3 0.07
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTCACTTTTTT
Found at i:31830222 original size:20 final size:20
Alignment explanation
Indices: 31830199--31830245 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31830189 GGGTTAAGAT
*
31830199 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
31830219 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
31830239 TGAGCTG
1 TGAGCTG
31830246 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:31831829 original size:14 final size:14
Alignment explanation
Indices: 31831805--31831843 Score: 71
Period size: 13 Copynumber: 2.9 Consensus size: 14
31831795 GGATATCAAG
31831805 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
31831819 TT-TGAAAAAAAAA
1 TTGTGAAAAAAAAA
31831832 TTGTGAAAAAAA
1 TTGTGAAAAAAA
31831844 GAGAGAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:31843255 original size:17 final size:15
Alignment explanation
Indices: 31843218--31843256 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
31843208 TATCTCCCAC
31843218 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
31843234 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
31843251 TCATTT
1 TCATTT
31843257 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:31844140 original size:30 final size:31
Alignment explanation
Indices: 31844106--31844175 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
31844096 TTTCAATCAC
* *
31844106 TCTTTTTTTTTTAATTTC-GATTTTTTTTCT
1 TCTTTTTTTTTTAATTCCAAATTTTTTTTCT
31844136 TC--TTTTTTTTAATTCCAAAATTTTTTTTCT
1 TCTTTTTTTTTTAATTCC-AAATTTTTTTTCT
31844166 TCTTTTTTTT
1 TCTTTTTTTT
31844176 CCTTCAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 13 0.38
30 15 0.44
32 6 0.18
ACGTcount: A:0.13, C:0.11, G:0.01, T:0.74
Consensus pattern (31 bp):
TCTTTTTTTTTTAATTCCAAATTTTTTTTCT
Found at i:31844254 original size:12 final size:12
Alignment explanation
Indices: 31844222--31844265 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
31844212 AATACAAACT
* *
31844222 TTTTTTTTGAAT
1 TTTTTTTTCAAA
31844234 TTTTATTTTCAAA
1 TTTT-TTTTCAAA
*
31844247 TTTTTTTTCAAG
1 TTTTTTTTCAAA
31844259 TTTTTTT
1 TTTTTTT
31844266 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:31844263 original size:13 final size:12
Alignment explanation
Indices: 31844221--31844265 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
31844211 GAATACAAAC
*
31844221 TTTTTTTTTGAA
1 TTTTTTTTTCAA
31844233 TTTTTATTTTCAA
1 TTTTT-TTTTCAA
*
31844246 ATTTTTTTTCAA
1 TTTTTTTTTCAA
31844258 GTTTTTTT
1 -TTTTTTT
31844266 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:31856699 original size:10 final size:10
Alignment explanation
Indices: 31856684--31856745 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
31856674 TTTGAACCAT
*
31856684 TACCAATTCG
1 TACCAATTCA
*
31856694 TACCAAATACCA
1 TACC-AAT-TCA
*
31856706 TACCATTTCA
1 TACCAATTCA
31856716 TACCAATTCCA
1 TACCAATT-CA
* *
31856727 TACCATTTCG
1 TACCAATTCA
31856737 TACCAATTC
1 TACCAATTC
31856746 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:31856729 original size:21 final size:21
Alignment explanation
Indices: 31856684--31856746 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
31856674 TTTGAACCAT
* *
31856684 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
31856706 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
31856727 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
31856747 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:31863019 original size:19 final size:18
Alignment explanation
Indices: 31862983--31863022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31862973 TTTCCACTCG
*
31862983 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
31863001 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
31863020 TTT
1 TTT
31863023 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:31865201 original size:21 final size:21
Alignment explanation
Indices: 31865166--31865215 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
31865156 ACCTCTTTGA
31865166 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCAATTCGTACC-AAT
31865189 ACCATACC-ATTCGTACCAAT
1 ACCATACCAATTCGTACCAAT
*
31865209 TCCATAC
1 ACCATAC
31865216 TATTTCGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 4 0.15
23 4 0.15
ACGTcount: A:0.36, C:0.34, G:0.04, T:0.26
Consensus pattern (21 bp):
ACCATACCAATTCGTACCAAT
Found at i:31865779 original size:13 final size:13
Alignment explanation
Indices: 31865761--31865811 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
31865751 AAACTAGCTC
31865761 TTTTTTTACAATT
1 TTTTTTTACAATT
*
31865774 TTTTTTCACAATT
1 TTTTTTTACAATT
31865787 TTTTTTT-CAAATT
1 TTTTTTTAC-AATT
31865800 TTTTTTTCACAA
1 TTTTTTT-ACAA
31865812 CTTGATATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 1 0.03
13 29 0.88
14 2 0.06
15 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTTACAATT
Found at i:31867502 original size:11 final size:10
Alignment explanation
Indices: 31867477--31867537 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
31867467 AACAATAAAA
31867477 TAAA-TGAGC
1 TAAATTGAGC
*
31867486 TGAATTGTAGC
1 TAAATTG-AGC
31867497 TAAATTGAGC
1 TAAATTGAGC
**
31867507 TCGATTGAGC
1 TAAATTGAGC
31867517 TGAAA-TGAGC
1 T-AAATTGAGC
*
31867527 TCAATTGAGC
1 TAAATTGAGC
31867537 T
1 T
31867538 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:31867538 original size:20 final size:20
Alignment explanation
Indices: 31867478--31867538 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
31867468 ACAATAAAAT
*
31867478 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
31867498 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
31867519 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
31867539 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:31870052 original size:30 final size:30
Alignment explanation
Indices: 31870018--31870114 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
31870008 TAAACTAAAA
31870018 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
31870048 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
31870078 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
31870107 ATGAGCTA
1 -TGAGCTA
31870115 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:31878407 original size:40 final size:40
Alignment explanation
Indices: 31878309--31878571 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
31878299 TCCTCGTTCA
* * * * *
31878309 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31878348 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
31878388 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31878428 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31878468 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
31878508 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31878548 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31878572 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31880883 original size:12 final size:12
Alignment explanation
Indices: 31880862--31880925 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
31880852 AGAAAAGGAG
*
31880862 AAAGAGATTGAA
1 AAAGAAATTGAA
31880874 AAAGAAATTG--
1 AAAGAAATTGAA
**
31880884 AAAGAAA-ACAA
1 AAAGAAATTGAA
**
31880895 AAAGAAAAAGAA
1 AAAGAAATTGAA
*
31880907 AAAGAAATTGCA
1 AAAGAAATTGAA
31880919 AAAGAAA
1 AAAGAAA
31880926 AAGAAATCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 7 0.17
11 7 0.17
12 28 0.67
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.09
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:31880897 original size:6 final size:6
Alignment explanation
Indices: 31880884--31880985 Score: 57
Period size: 6 Copynumber: 16.7 Consensus size: 6
31880874 AAAGAAATTG
* ** *
31880884 AAAG-A AAACAA AAAGAA AAAGAA AAAGAA ATTGCA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * *
31880931 ATCA-AA AAAGTG AGAGAA AAAGAGA ATGAAG-A AAAGAA AATTGAA AAAGAA
1 A-AAGAA AAAGAA AAAGAA AAAGA-A A--AAGAA AAAGAA AA-AGAA AAAGAA
31880982 AAAG
1 AAAG
31880986 CGAAAAAAGA
Statistics
Matches: 71, Mismatches: 18, Indels: 15
0.68 0.17 0.14
Matches are distributed among these distances:
5 7 0.10
6 51 0.72
7 10 0.14
9 3 0.04
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:31880921 original size:18 final size:17
Alignment explanation
Indices: 31880871--31880932 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
31880861 GAAAGAGATT
31880871 GAAAAAGAAATTG-AAA
1 GAAAAAGAAATTGAAAA
*
31880887 GAAAACA-AAA-AGAAAAA
1 GAAAA-AGAAATTG-AAAA
31880904 GAAAAAGAAATTGCAAAA
1 GAAAAAGAAATTG-AAAA
31880922 GAAAAAGAAAT
1 GAAAAAGAAAT
31880933 CAAAAAAGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.03
16 9 0.24
17 12 0.32
18 16 0.42
ACGTcount: A:0.73, C:0.03, G:0.16, T:0.08
Consensus pattern (17 bp):
GAAAAAGAAATTGAAAA
Found at i:31881037 original size:33 final size:33
Alignment explanation
Indices: 31881000--31881062 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
31880990 AAAAGAAATT
31881000 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
31881033 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
31881063 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:31882862 original size:20 final size:20
Alignment explanation
Indices: 31882839--31882892 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
31882829 AGTTTTTCCC
*
31882839 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
31882859 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
31882879 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
31882893 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:31882874 original size:30 final size:30
Alignment explanation
Indices: 31882839--31882912 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
31882829 AGTTTTTCCC
31882839 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
31882869 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
31882899 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
31882913 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:31882902 original size:20 final size:20
Alignment explanation
Indices: 31882839--31882903 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
31882829 AGTTTTTCCC
* * * *
31882839 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
31882859 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
31882878 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
31882899 AGCTC
1 AGCTC
31882904 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:31894826 original size:22 final size:24
Alignment explanation
Indices: 31894792--31894836 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
31894782 CTTGGACCAA
31894792 GATTTCCAAGA-T-TTGAAATCTT
1 GATTTCCAAGATTCTTGAAATCTT
**
31894814 GATTTCCTTGATTCTTGAAATCT
1 GATTTCCAAGATTCTTGAAATCT
31894837 CTTCGAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 1 0.05
24 9 0.47
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (24 bp):
GATTTCCAAGATTCTTGAAATCTT
Found at i:31895019 original size:903 final size:903
Alignment explanation
Indices: 31892364--31895073 Score: 5212
Period size: 902 Copynumber: 3.0 Consensus size: 903
31892354 ATAAGTCCTA
31892364 AGATCCTTGAAATCCCGAAAGAATTTCACAAAT-TCTTCAAACGGCTCTAATCTCCCCTCCAAAG
1 AGATCCTTGAAATCCCGAAAG-ATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAG
31892428 AATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTC
65 AATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTC
31892493 TAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCT
130 TAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCT
31892558 GAAATTTGATAGAAAAATAATAATAATAAGATGT-TTTACAAAGGGTGGCTGGCCAATGCTTATA
195 GAAATTTGATAG-AAAA-AATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATA
31892622 TAGGCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAA
258 TAGGCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAA
31892687 CAAGGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCT
323 CAAGGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCT
*
31892752 AAAGATTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCC
388 AAAGGTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCC
31892817 TGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCT
453 TGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCT
31892882 TCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGAT
518 TCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGAT
31892947 CCAATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGAT
583 CCAATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGAT
*
31893012 TTTCTTGATTCTTAAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTTCT
648 TTTCTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTTCT
31893077 TGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAAC
713 TGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAAC
31893142 AAGCTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGC
778 AAGCTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGC
*
31893207 CTTGGGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
843 CTTGTGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
* *
31893268 AGATCCTTGAAATCCCGAAATATTTCACAAATCTCTTCAAACGTCTCTAATCTCCCCTCCAAAGA
1 AGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAGA
*
31893333 ATATCGATGCCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCT
66 ATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCT
31893398 AAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCTG
131 AAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCTG
31893463 AAATTTGATAGAAAAAATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATATAG
196 AAATTTGATAGAAAAAATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATATAG
31893528 GCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAACAA
261 GCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAACAA
31893593 GGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCTAAA
326 GGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCTAAA
31893658 -GTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCCTGA
391 GGTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCCTGA
31893722 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCTTCA
456 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCTTCA
31893787 AGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCA
521 AGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCA
31893852 ATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTT
586 ATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTT
*
31893917 CTTGATTCTTGAAATCTCTTCAAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTTCTTGA
651 CTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTTCTTGA
31893982 AAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAG
716 AAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAG
31894047 CTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTT
781 CTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTT
31894112 GTGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
846 GTGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
31894170 AGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAGA
1 AGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAGA
*
31894235 ATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCTACAATCAAAAGATTGTTAAAACAACTTCT
66 ATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCT
31894300 AAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCTG
131 AAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCTG
31894365 AAATTTGATAGAAAAAATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATATAG
196 AAATTTGATAGAAAAAATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATATAG
31894430 GCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAACAA
261 GCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAACAA
31894495 GGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCTAAA
326 GGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCTAAA
31894560 GGTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCCTGA
391 GGTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCCTGA
** *
31894625 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTAAATTTTGATTATTGGGCCTCGCCTTCA
456 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCTTCA
31894690 AGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCA
521 AGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCA
*
31894755 ATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTC
586 ATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTT
31894820 CTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTC-AGTTTCTTGATTTTCTTG
651 CTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGA-TTTCTTGATTTTCTTG
*
31894884 AAAACAAGAAAGTGAATCTTAATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAA
715 AAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAA
* *
31894949 GCTCTTGAATGGTCCCATTTAGTTTAGACCGCATTTGTCGGGCCTTTGATCTTGTTATTGGGCCT
780 GCTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGCCT
*
31895014 TGTGGCAATTTGAGCCCATCACATTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
845 TGTGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
31895073 A
1 A
31895074 CAAGTCACGG
Statistics
Matches: 1782, Mismatches: 20, Indels: 9
0.98 0.01 0.00
Matches are distributed among these distances:
902 911 0.51
903 680 0.38
904 191 0.11
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (903 bp):
AGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAGA
ATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCT
AAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCAACAAATCTG
AAATTTGATAGAAAAAATAATAATAAGATGTGTTTACAAAGGGTGGCTGGCCAATGCTTATATAG
GCCTCCAACAAATCCTAATCTCACAAGTAACTAATAAAAATTAAACCTAATTAATAAAATAACAA
GGTAAATTCGGCCATGCACTTATATGGGCTGTTTTGGGCCGAATTTTACATGTAATGCTCCTAAA
GGTTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCCTTTGACATTTTGGCCTGA
TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCCTTCA
AGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCA
ATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTT
CTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTTCTTGA
AAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAG
CTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTT
GTGGCAATTTGAGCCCATCACGTTCTTGAACTTGGATTGGGCCTTTATGACTCGTATC
Found at i:31906939 original size:27 final size:27
Alignment explanation
Indices: 31906909--31906963 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31906899 CGAATCAATC
31906909 CCTTGGCAGATTCGCATCCTTTCCATA
1 CCTTGGCAGATTCGCATCCTTTCCATA
31906936 CCTTGGCAGATTCGCATCCTTTCCATA
1 CCTTGGCAGATTCGCATCCTTTCCATA
31906963 C
1 C
31906964 TTTCAATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.33
Consensus pattern (27 bp):
CCTTGGCAGATTCGCATCCTTTCCATA
Found at i:31915592 original size:11 final size:10
Alignment explanation
Indices: 31915567--31915627 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
31915557 ACCAATAAAA
31915567 TAAA-TGAGC
1 TAAATTGAGC
*
31915576 TGAATTGTAGC
1 TAAATTG-AGC
31915587 TAAATTGAGC
1 TAAATTGAGC
**
31915597 TCGATTGAGC
1 TAAATTGAGC
31915607 TGAAA-TGAGC
1 T-AAATTGAGC
*
31915617 TCAATTGAGC
1 TAAATTGAGC
31915627 T
1 T
31915628 GGTCAGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:31915628 original size:20 final size:20
Alignment explanation
Indices: 31915568--31915628 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
31915558 CCAATAAAAT
*
31915568 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
31915588 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
31915609 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
31915629 GTCAGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:31930013 original size:27 final size:27
Alignment explanation
Indices: 31929975--31930026 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31929965 TGAGGAAAAA
* *
31929975 GAAAAAGGAGAAGATAAAAATAAAAGT
1 GAAAAAGAAGAAAATAAAAATAAAAGT
*
31930002 GAAAAAGAAGAAAATGAAAATAAAA
1 GAAAAAGAAGAAAATAAAAATAAAA
31930027 AAGGCGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (27 bp):
GAAAAAGAAGAAAATAAAAATAAAAGT
Found at i:31951657 original size:18 final size:17
Alignment explanation
Indices: 31951605--31951662 Score: 75
Period size: 15 Copynumber: 3.5 Consensus size: 17
31951595 TAGCTTCTTC
**
31951605 TTTTTTTTCACGAAAAAA
1 TTTTTTTTCACG-AAATT
31951623 TTTTTTTTCACG--ATT
1 TTTTTTTTCACGAAATT
31951638 TTTTTTTTCACGAAATT
1 TTTTTTTTCACGAAATT
31951655 TTTTTTTT
1 TTTTTTTT
31951663 AACTTGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 13 0.36
17 11 0.31
18 12 0.33
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTTTTTCACGAAATT
Found at i:31951716 original size:11 final size:11
Alignment explanation
Indices: 31951700--31951752 Score: 74
Period size: 11 Copynumber: 4.9 Consensus size: 11
31951690 ATGGAAACCA
31951700 AATTTTTTTTG
1 AATTTTTTTTG
31951711 AATTTTTTTTG
1 AATTTTTTTTG
31951722 -A-TTTTTTTG
1 AATTTTTTTTG
*
31951731 ATTTTTTTTTG
1 AATTTTTTTTG
31951742 AAATTTTTTTT
1 -AATTTTTTTT
31951753 TGAAGAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 19 0.51
12 9 0.24
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:31951728 original size:20 final size:20
Alignment explanation
Indices: 31951703--31951742 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
31951693 GAAACCAAAT
31951703 TTTTTTTGAATTTTTTTTGA
1 TTTTTTTGAATTTTTTTTGA
*
31951723 TTTTTTTGATTTTTTTTTGA
1 TTTTTTTGAATTTTTTTTGA
31951743 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (20 bp):
TTTTTTTGAATTTTTTTTGA
Found at i:31951738 original size:9 final size:9
Alignment explanation
Indices: 31951703--31951738 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
31951693 GAAACCAAAT
31951703 TTTTTTTGAA
1 TTTTTTTG-A
31951713 TTTTTTTTGA
1 -TTTTTTTGA
31951723 TTTTTTTGA
1 TTTTTTTGA
31951732 TTTTTTT
1 TTTTTTT
31951739 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 1 0.04
11 8 0.32
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:31951748 original size:20 final size:20
Alignment explanation
Indices: 31951705--31951749 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31951695 AACCAAATTT
**
31951705 TTTTTGAATTTTTTTTGATT
1 TTTTTGAATTTTTTTTGAAA
*
31951725 TTTTTGATTTTTTTTTGAAA
1 TTTTTGAATTTTTTTTGAAA
31951745 TTTTT
1 TTTTT
31951750 TTTTGAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (20 bp):
TTTTTGAATTTTTTTTGAAA
Found at i:31955587 original size:20 final size:20
Alignment explanation
Indices: 31955541--31955587 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31955531 AGCTCGTTTC
*
31955541 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
31955561 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
31955581 CAGCTCA
1 CAGCTCA
31955588 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:31961136 original size:16 final size:15
Alignment explanation
Indices: 31961115--31961169 Score: 92
Period size: 15 Copynumber: 3.6 Consensus size: 15
31961105 TAGCTTCTTC
31961115 TTTTTTTCACGAAATT
1 TTTTTTTCACG-AATT
31961131 TTTTTTTCACGAATT
1 TTTTTTTCACGAATT
31961146 TTTTTTTCACGAATT
1 TTTTTTTCACGAATT
*
31961161 CTTTTTTCA
1 TTTTTTTCA
31961170 ACTTGATATC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
15 27 0.71
16 11 0.29
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (15 bp):
TTTTTTTCACGAATT
Found at i:31961226 original size:10 final size:10
Alignment explanation
Indices: 31961211--31961248 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
31961201 AAACCAAATT
31961211 TTTTTTTGAA
1 TTTTTTTGAA
31961221 TTTTTTTGAA
1 TTTTTTTGAA
31961231 TATTTTTTGAA
1 T-TTTTTTGAA
31961242 TTTTTTT
1 TTTTTTT
31961249 TTTGAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:31961226 original size:11 final size:11
Alignment explanation
Indices: 31961210--31961266 Score: 71
Period size: 11 Copynumber: 5.0 Consensus size: 11
31961200 GAAACCAAAT
31961210 TTTTTTTTGAA
1 TTTTTTTTGAA
31961221 -TTTTTTTGAA
1 TTTTTTTTGAA
*
31961231 TATTTTTTGAA
1 TTTTTTTTGAA
31961242 TTTTTTTTTTGAAA
1 --TTTTTTTTG-AA
31961256 TTTTTTTTGAA
1 TTTTTTTTGAA
31961267 GAAACTACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 10 0.25
11 11 0.28
12 9 0.22
13 8 0.20
14 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:31961227 original size:13 final size:12
Alignment explanation
Indices: 31961207--31961266 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
31961197 ATGGAAACCA
31961207 AATTTTTTTTTG
1 AATTTTTTTTTG
31961219 AA--TTTTTTTG
1 AATTTTTTTTTG
*
31961229 AA-TATTTTTTG
1 AATTTTTTTTTG
31961240 AATTTTTTTTTTG
1 AA-TTTTTTTTTG
*
31961253 AAATTTTTTTTG
1 AATTTTTTTTTG
31961265 AA
1 AA
31961267 GAAACTACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.24
11 9 0.21
12 13 0.31
13 10 0.24
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:31962301 original size:21 final size:23
Alignment explanation
Indices: 31962256--31962302 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
31962246 TCACCTGCAA
* *
31962256 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
31962279 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
31962300 TAA
1 TAA
31962303 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:31963738 original size:18 final size:18
Alignment explanation
Indices: 31963692--31963749 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
31963682 AACAAGTGAG
* *
31963692 GAAAAAGAAAAAGAGAAT
1 GAAAGAGAAAAAGAGATT
31963710 GAAAAGAGAAAAAGAGATT
1 G-AAAGAGAAAAAGAGATT
* * *
31963729 GAGAGTGAAAAAGAAATT
1 GAAAGAGAAAAAGAGATT
31963747 GAA
1 GAA
31963750 GAAAGAAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (18 bp):
GAAAGAGAAAAAGAGATT
Found at i:31966953 original size:21 final size:19
Alignment explanation
Indices: 31966910--31966954 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
31966900 GAGCTCAAAT
* *
31966910 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
31966929 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
31966950 GAGCT
1 GAGCT
31966955 CAATGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:31975229 original size:324 final size:322
Alignment explanation
Indices: 31974622--31975277 Score: 1249
Period size: 324 Copynumber: 2.0 Consensus size: 322
31974612 GATTCTTAGC
* *
31974622 TGTAGGTTTTCATTTGTTTTCTTTTTATTCTCCCTTTACAATATCTAACACCTTCTTGTTTCTTG
1 TGTAGATTTTCATTTGTTTGCTTTTTATTCTCCCTTTACAATATCTAACACCTTCTTGTTTCTTG
31974687 TATTAGTAGGATTTAAACGTGTGCACAATTCTTCCTCAGTGCAACACGAATCAATTGATGTCTCG
66 TATTAGTAGGATTTAAACGTGTGCACAATTCTTCCTCAGTGCAACACGAATCAATTGATGTCTCG
31974752 TCAGTTTTTGGCATCCTAGTGCAATTAGGATTCTTTGGTAGTTTCGGTTCATACACTTTCTAATT
131 TCAGTTTTTGGCATCCTAGTGCAATTAGGATTCTTTGGTAGTTTCGGTTCATACACTTTCTAATT
31974817 GATTGATAGAGACTTTACTAAAGAACTCACAAGACTGAATTCTACCTCATTGAGAATTTGATTTT
196 GATTGATAGAGACTTTACTAAAGAACTCACAAGACTGAATTCTACCTCATTGAGAATTTGATTTT
*
31974882 TTTTTTGAGTGATTAACGGTGAGGTTTGCTAACTTTCCCTTTTGAGTGTTGAGTGTTTATTT
261 TCTTTTGAGTGATTAACGGTGAGGTTTGCTAACTTTCCCTTTTGAGTGTTGAGTGTTTATTT
31974944 TGTAGATTTTCATTTGTTTGCTTTTTATTCTCCCTTTACAATATCTAACACCTTCTTGTTTCTTG
1 TGTAGATTTTCATTTGTTTGCTTTTTATTCTCCCTTTACAATATCTAACACCTTCTTGTTTCTTG
*
31975009 TGTTAGTAGGATTTAAACGTGTGCACAATTCTTCCTCAGTGCAACACGAATCAATTGATGTCTCG
66 TATTAGTAGGATTTAAACGTGTGCACAATTCTTCCTCAGTGCAACACGAATCAATTGATGTCTCG
31975074 TCAGTTTTTTGGCATCCTAGTGCAAATTAGGATTCTTTGGTAGTTTCGGTTCATACACTTTCTAA
131 TCAG-TTTTTGGCATCCTAGTGC-AATTAGGATTCTTTGGTAGTTTCGGTTCATACACTTTCTAA
31975139 TTGATTGATAGAGACTTTACTAAAGAACTCACAAGACTGAATTCTACCTCATTGAGAATTTGATT
194 TTGATTGATAGAGACTTTACTAAAGAACTCACAAGACTGAATTCTACCTCATTGAGAATTTGATT
31975204 TTTCTTTTGAGTGATTAACGGTGAGGTTTGCTAACTTTCCCTTTTGAGTGTTGAGTGTTTATTT
259 TTTCTTTTGAGTGATTAACGGTGAGGTTTGCTAACTTTCCCTTTTGAGTGTTGAGTGTTTATTT
*
31975268 TGCAGATTTT
1 TGTAGATTTT
31975278 TGAAAATGTC
Statistics
Matches: 327, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
322 131 0.40
323 18 0.06
324 178 0.54
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (322 bp):
TGTAGATTTTCATTTGTTTGCTTTTTATTCTCCCTTTACAATATCTAACACCTTCTTGTTTCTTG
TATTAGTAGGATTTAAACGTGTGCACAATTCTTCCTCAGTGCAACACGAATCAATTGATGTCTCG
TCAGTTTTTGGCATCCTAGTGCAATTAGGATTCTTTGGTAGTTTCGGTTCATACACTTTCTAATT
GATTGATAGAGACTTTACTAAAGAACTCACAAGACTGAATTCTACCTCATTGAGAATTTGATTTT
TCTTTTGAGTGATTAACGGTGAGGTTTGCTAACTTTCCCTTTTGAGTGTTGAGTGTTTATTT
Found at i:31977693 original size:13 final size:13
Alignment explanation
Indices: 31977672--31977706 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31977662 ATAAGTTGCT
* *
31977672 GTTAGTTAAATTA
1 GTTAATTAAATAA
31977685 GTTAATTAAATAA
1 GTTAATTAAATAA
31977698 GTTAATTAA
1 GTTAATTAA
31977707 TTTGCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:31977958 original size:23 final size:23
Alignment explanation
Indices: 31977928--31977991 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
31977918 ATTTTCCAGA
31977928 CGAATTTAATGTATGTCTT-TGGC
1 CGAATTTAATGTATGT-TTCTGGC
31977951 CGAATTTAATGTATGTTTCTGGC
1 CGAATTTAATGTATGTTTCTGGC
* *
31977974 TGAATTTAATGCATGTTT
1 CGAATTTAATGTATGTTT
31977992 TAAATGGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.45
Consensus pattern (23 bp):
CGAATTTAATGTATGTTTCTGGC
Found at i:31979725 original size:18 final size:20
Alignment explanation
Indices: 31979697--31979737 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
31979687 TTCCCGATCG
*
31979697 TAAACGAAGAAG-TATAATA
1 TAAACGAAGAAGATAAAATA
31979716 TAAA-GAAGAAGATAAAATA
1 TAAACGAAGAAGATAAAATA
31979735 TAA
1 TAA
31979738 TTGAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.63, C:0.02, G:0.15, T:0.20
Consensus pattern (20 bp):
TAAACGAAGAAGATAAAATA
Found at i:31979919 original size:23 final size:23
Alignment explanation
Indices: 31979893--31979959 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
31979883 TTGGTTTGGG
* *
31979893 TTTGGTACGAAATGGTAATGTAA
1 TTTGGTACGAAATGGAAATGGAA
31979916 TTTGGTACGAAATGGAAATGGAA
1 TTTGGTACGAAATGGAAATGGAA
31979939 TTTGGTACGAAATGGAAATGG
1 TTTGGTACGAAATGGAAATGG
31979960 TTCAAAAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.30, T:0.30
Consensus pattern (23 bp):
TTTGGTACGAAATGGAAATGGAA
Found at i:31980056 original size:12 final size:12
Alignment explanation
Indices: 31980039--31980073 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
31980029 GTTGAAATGG
31980039 TTGATAGGGACC
1 TTGATAGGGACC
*
31980051 TTGATA-TGACC
1 TTGATAGGGACC
31980062 TTGATAGGGACC
1 TTGATAGGGACC
31980074 AAGATCGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (12 bp):
TTGATAGGGACC
Found at i:32003174 original size:21 final size:21
Alignment explanation
Indices: 32003148--32003210 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
32003138 TTGGTATTTG
32003148 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
32003169 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
32003190 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
32003211 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:32015449 original size:22 final size:22
Alignment explanation
Indices: 32015421--32015464 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32015411 TTTTGAACCA
32015421 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
32015443 TTACCATTTCGTACCAACTCCC
1 TTACCATTTCGTACCAAATCCC
32015465 AAATACCAAA
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:0.25, C:0.39, G:0.05, T:0.32
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:32016334 original size:27 final size:27
Alignment explanation
Indices: 32016304--32016356 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32016294 CTGGACTTTG
*
32016304 GACATCATTAA-AACATGTAATAAAATT
1 GACA-CATTAATAACATGCAATAAAATT
*
32016331 GACACATTAATAACATGCATTAAAAT
1 GACACATTAATAACATGCAATAAAAT
32016357 AAAACACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (27 bp):
GACACATTAATAACATGCAATAAAATT
Found at i:32017173 original size:24 final size:24
Alignment explanation
Indices: 32017149--32017195 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
32017139 AAACTACTTC
32017149 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
32017174 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
32017196 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:32018242 original size:24 final size:24
Alignment explanation
Indices: 32018218--32018264 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
32018208 AAACTACTTC
32018218 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
32018243 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
32018265 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:32023662 original size:10 final size:10
Alignment explanation
Indices: 32023647--32023708 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
32023637 TTTGAACCAT
*
32023647 TACCAATTCG
1 TACCAATTCA
*
32023657 TACCAAATACCA
1 TACC-AAT-TCA
*
32023669 TACCATTTCA
1 TACCAATTCA
32023679 TACCAATTCCA
1 TACCAATT-CA
* *
32023690 TACCATTTCG
1 TACCAATTCA
32023700 TACCAATTC
1 TACCAATTC
32023709 CAAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:32023692 original size:21 final size:21
Alignment explanation
Indices: 32023647--32023710 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
32023637 TTTGAACCAT
* *
32023647 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
32023669 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
32023690 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
32023711 AAATACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 26 0.68
22 12 0.32
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:32024091 original size:31 final size:31
Alignment explanation
Indices: 32024053--32024114 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
32024043 TTTTCAACTC
32024053 TCATTGTTCTCCAAAGACTCGTCTGACTTAT
1 TCATTGTTCTCCAAAGACTCGTCTGACTTAT
32024084 TCATTGTTCTCCAAAGACTCGTCTGACTTAT
1 TCATTGTTCTCCAAAGACTCGTCTGACTTAT
32024115 CAAGTAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (31 bp):
TCATTGTTCTCCAAAGACTCGTCTGACTTAT
Found at i:32024582 original size:10 final size:10
Alignment explanation
Indices: 32024567--32024604 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
32024557 ACGGTATTGT
32024567 AAAAAAATCA
1 AAAAAAATCA
32024577 AAAAAAATTCA
1 AAAAAAA-TCA
*
32024588 AAAAAATTCA
1 AAAAAAATCA
32024598 AAAAAAA
1 AAAAAAA
32024605 AGTTTGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:32024583 original size:11 final size:11
Alignment explanation
Indices: 32024567--32024605 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32024557 ACGGTATTGT
32024567 AAAAAAATCAA
1 AAAAAAATCAA
*
32024578 AAAAAATTC-A
1 AAAAAAATCAA
*
32024588 AAAAAATTCAA
1 AAAAAAATCAA
32024599 AAAAAAA
1 AAAAAAA
32024606 GTTTGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:32035304 original size:18 final size:18
Alignment explanation
Indices: 32035283--32035317 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32035273 TTTTTCTTTT
32035283 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
32035301 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
32035318 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:32042495 original size:30 final size:30
Alignment explanation
Indices: 32042439--32042495 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
32042429 TGGGCTCAAA
* **
32042439 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGAATCACAATCTTGTTT
32042469 TCAAGAAAATCAAGAAATCA-AATCTTG
1 TCAAGAAAATCAAG-AATCACAATCTTG
32042496 GCCCAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (30 bp):
TCAAGAAAATCAAGAATCACAATCTTGTTT
Found at i:32052802 original size:14 final size:16
Alignment explanation
Indices: 32052783--32052817 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
32052773 AAAAAAGCTC
32052783 AAAAAAA-TTC-AAAA
1 AAAAAAATTTCGAAAA
32052797 AAAAAAATTTCGAAAA
1 AAAAAAATTTCGAAAA
32052813 AAAAA
1 AAAAA
32052818 GTTTCCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 9 0.47
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAAAAATTTCGAAAA
Found at i:32052822 original size:15 final size:15
Alignment explanation
Indices: 32052783--32052822 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
32052773 AAAAAAGCTC
*
32052783 AAAAAAA-TTCAAAA
1 AAAAAAATTTCGAAA
32052797 AAAAAAATTTCGAAA
1 AAAAAAATTTCGAAA
*
32052812 AAAAAAGTTTC
1 AAAAAAATTTC
32052823 CATTCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (15 bp):
AAAAAAATTTCGAAA
Found at i:32052876 original size:13 final size:13
Alignment explanation
Indices: 32052852--32052904 Score: 72
Period size: 14 Copynumber: 4.0 Consensus size: 13
32052842 GGATGTCAAG
32052852 TTGTGAAAAAAAAA
1 TTGTG-AAAAAAAA
*
32052866 TTTTGAAAAAAAAA
1 TTGTG-AAAAAAAA
32052880 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
32052893 TTGT-AAAAAAAA
1 TTGTGAAAAAAAA
32052905 AGAGCTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.22
13 12 0.32
14 17 0.46
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:32052905 original size:13 final size:14
Alignment explanation
Indices: 32052852--32052905 Score: 85
Period size: 13 Copynumber: 4.0 Consensus size: 14
32052842 GGATGTCAAG
32052852 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
*
32052866 TTTTGAAAAAAAAA
1 TTGTGAAAAAAAAA
32052880 TTGTG-AAAAAAAA
1 TTGTGAAAAAAAAA
32052893 TTGT-AAAAAAAAA
1 TTGTGAAAAAAAAA
32052906 GAGCTAGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 20 0.54
14 17 0.46
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:32057618 original size:28 final size:28
Alignment explanation
Indices: 32057577--32057630 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
32057567 CCTATCATGT
32057577 GTTTAATTAAATGTTATTAA-TGTGTCTA
1 GTTTAATTAAATGTT-TTAATTGTGTCTA
* *
32057605 GTTTTATTACATGTTTTAATTGTGTC
1 GTTTAATTAAATGTTTTAATTGTGTC
32057631 CTAAGGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.54
Consensus pattern (28 bp):
GTTTAATTAAATGTTTTAATTGTGTCTA
Found at i:32061893 original size:18 final size:18
Alignment explanation
Indices: 32061872--32061906 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32061862 TTTTTCTTTT
32061872 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
32061890 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
32061907 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:32062813 original size:12 final size:12
Alignment explanation
Indices: 32062798--32062839 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
32062788 TTGTCACTTC
32062798 TTTTTTTTTAAT
1 TTTTTTTTTAAT
*
32062810 TTTTTTTTGAA-
1 TTTTTTTTTAAT
*
32062821 TTTTTTTTTGAT
1 TTTTTTTTTAAT
32062833 TTTTTTT
1 TTTTTTT
32062840 GTTACTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTAAT
Found at i:32062814 original size:11 final size:11
Alignment explanation
Indices: 32062798--32062839 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
32062788 TTGTCACTTC
32062798 TTTTTTTTTAA
1 TTTTTTTTTAA
32062809 TTTTTTTTTGAA
1 TTTTTTTTT-AA
*
32062821 TTTTTTTTTGA
1 TTTTTTTTTAA
32062832 TTTTTTTT
1 TTTTTTTT
32062840 GTTACTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:32068566 original size:21 final size:22
Alignment explanation
Indices: 32068523--32068601 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
32068513 GGAGAAGAGA
*
32068523 AAAAT-AAAAGTGAAAAATAAG
1 AAAATGAAAAGTGAAAAAGAAG
*
32068544 AAAATGAAAA-TGAAAAAGGAG
1 AAAATGAAAAGTGAAAAAGAAG
* * *
32068565 AAAA-GGAAAGTGAGAGAGAAG
1 AAAATGAAAAGTGAAAAAGAAG
32068586 TAAAA-GAAAATGTGAA
1 -AAAATGAAAA-GTGAA
32068602 TGAAGTGAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.09
21 26 0.57
22 12 0.26
23 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (22 bp):
AAAATGAAAAGTGAAAAAGAAG
Found at i:32068645 original size:33 final size:35
Alignment explanation
Indices: 32068600--32068668 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
32068590 AGAAAATGTG
*
32068600 AATGAAGTGAGTGAAAAAG-AGAGAGAGCTTAAAC
1 AATGAAGTGAGTGAAAAAGAAGAGAGAGCTCAAAC
* *
32068634 AATGAA-TGAGTGAAGAAGAAGAGAGTGCTCAAAC
1 AATGAAGTGAGTGAAAAAGAAGAGAGAGCTCAAAC
32068668 A
1 A
32068669 CAAGGGAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 11 0.35
34 20 0.65
ACGTcount: A:0.49, C:0.07, G:0.29, T:0.14
Consensus pattern (35 bp):
AATGAAGTGAGTGAAAAAGAAGAGAGAGCTCAAAC
Found at i:32082488 original size:36 final size:36
Alignment explanation
Indices: 32082462--32082551 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
32082452 CGCATTATCT
*
32082462 TTCTTCGCCTAATTGTTCGTTCCTGACGCGTTGTAC
1 TTCTTCGCCTAATTGTTCATTCCTGACGCGTTGTAC
* *
32082498 TTCTTCGCCTCATTGTTCATTCCTGATGCGTTGTAC
1 TTCTTCGCCTAATTGTTCATTCCTGACGCGTTGTAC
*
32082534 TTCTTCACCTAATTGTTC
1 TTCTTCGCCTAATTGTTC
32082552 CAATTGTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.44
Consensus pattern (36 bp):
TTCTTCGCCTAATTGTTCATTCCTGACGCGTTGTAC
Found at i:32085369 original size:21 final size:21
Alignment explanation
Indices: 32085340--32085380 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32085330 TCTCTCTCGC
*
32085340 TTTCCTTTTCACCTTTTTCAT
1 TTTCATTTTCACCTTTTTCAT
**
32085361 TTTCATTTTCTTCTTTTTCA
1 TTTCATTTTCACCTTTTTCA
32085381 CTTGTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCATTTTCACCTTTTTCAT
Found at i:32101963 original size:33 final size:34
Alignment explanation
Indices: 32101915--32101980 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
32101905 ATCACTCTCC
*
32101915 CTCATTTAAATGCCG-TCCATTGCATGTGGAACAT
1 CTCATTTAAATGCCGTTCCA-TGCATGTAGAACAT
*
32101949 CTCA-TTAATTGCCGTTCCATGCATGTAGAACA
1 CTCATTTAAATGCCGTTCCATGCATGTAGAACA
32101981 ACATCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (34 bp):
CTCATTTAAATGCCGTTCCATGCATGTAGAACAT
Found at i:32101991 original size:34 final size:33
Alignment explanation
Indices: 32101919--32101991 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
32101909 CTCTCCCTCA
* * *
32101919 TTTAAATGCCGTCCATTGCATGTGGAACATCTC
1 TTTAATTGCCGTCCATTGCATGTAGAACAACTC
*
32101952 ATTAATTGCCGTTCCA-TGCATGTAGAACAACATC
1 TTTAATTGCCG-TCCATTGCATGTAGAACAAC-TC
32101986 TTTAAT
1 TTTAAT
32101992 GCATGTCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (33 bp):
TTTAATTGCCGTCCATTGCATGTAGAACAACTC
Found at i:32113164 original size:20 final size:20
Alignment explanation
Indices: 32113139--32113183 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
32113129 GTCCAAACCG
32113139 AATTAATTAG-GTCTTAG-TTT
1 AATTAATT-GTGTCTT-GTTTT
32113159 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTGTTTT
32113179 AATTA
1 AATTA
32113184 TGTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
AATTAATTGTGTCTTGTTTT
Found at i:32115590 original size:23 final size:22
Alignment explanation
Indices: 32115538--32115590 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
32115528 TCCTTGTCTT
*
32115538 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
32115560 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
32115583 TTTCTTTT
1 TTTCTTTT
32115591 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:32115604 original size:18 final size:18
Alignment explanation
Indices: 32115583--32115622 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32115573 CTTTCTTCAA
* * *
32115583 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
32115601 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
32115619 TTTC
1 TTTC
32115623 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:32120088 original size:8 final size:8
Alignment explanation
Indices: 32120075--32120099 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32120065 TTTTAAATAA
32120075 TATTTTAT
1 TATTTTAT
32120083 TATTTTAT
1 TATTTTAT
32120091 TATTTTAT
1 TATTTTAT
32120099 T
1 T
32120100 GCTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:32128145 original size:12 final size:12
Alignment explanation
Indices: 32128128--32128152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32128118 AAAATCTGAT
32128128 TTCAATGTGTAA
1 TTCAATGTGTAA
32128140 TTCAATGTGTAA
1 TTCAATGTGTAA
32128152 T
1 T
32128153 GTCTATAAGG
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:32134105 original size:12 final size:12
Alignment explanation
Indices: 32134088--32134112 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32134078 AAAATCTGAT
32134088 TTCAATGTGTAA
1 TTCAATGTGTAA
32134100 TTCAATGTGTAA
1 TTCAATGTGTAA
32134112 T
1 T
32134113 GTCTATAAAG
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:32139528 original size:19 final size:21
Alignment explanation
Indices: 32139495--32139542 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
32139485 AGGAAGACAC
32139495 AAAAAGA-AATCAAAAA-AG-
1 AAAAAGAGAATCAAAAAGAGA
*
32139513 AAAAAGAGAATGAAAAAGAGA
1 AAAAAGAGAATCAAAAAGAGA
32139534 AAAAAGAGA
1 AAAAAGAGA
32139543 TTGAGAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 2 0.08
21 9 0.35
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAAGAGAATCAAAAAGAGA
Found at i:32145830 original size:21 final size:21
Alignment explanation
Indices: 32145779--32145835 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
32145769 CTCAATCTCT
*
32145779 CTTCTTTC-TTTTCTTTTTCA
1 CTTCTTTCAATTTCTTTTTCA
* *
32145799 CTCTCTCTCAATTTCTTTTTCT
1 CT-TCTTTCAATTTCTTTTTCA
* *
32145821 GTTCTTTCAAATTCT
1 CTTCTTTCAATTTCT
32145836 CCAAAGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 16 0.55
22 11 0.38
ACGTcount: A:0.11, C:0.26, G:0.02, T:0.61
Consensus pattern (21 bp):
CTTCTTTCAATTTCTTTTTCA
Found at i:32148725 original size:45 final size:45
Alignment explanation
Indices: 32148676--32148908 Score: 385
Period size: 45 Copynumber: 5.2 Consensus size: 45
32148666 TCGGCCATGG
* * * * *
32148676 TGCTTCCTCAATTTGTTCTATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
32148721 TGCTTCCTTAAATTCTTCCATGAATTATGCGTGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
32148766 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
32148811 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
32148856 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
32148901 TGCTTCCT
1 TGCTTCCT
32148909 TAATTTCATG
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 178 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:32155002 original size:46 final size:46
Alignment explanation
Indices: 32154950--32155043 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
32154940 ATAGTGTGGC
*
32154950 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
*
32154996 GTTCATCATATACCAAGGTTCCTGTCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
32155042 GT
1 GT
32155044 CCTTTCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:32168072 original size:84 final size:85
Alignment explanation
Indices: 32167929--32168100 Score: 265
Period size: 84 Copynumber: 2.0 Consensus size: 85
32167919 TTTCTTTTTG
* *
32167929 TGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCC
1 TGATACGAGTCACAAAGGCCCAACCCAAACCCAAGAAAGTGATGGGCTCAAATTACCACAAGGCC
32167994 CAATAACGAGATCAAA-GCC
66 CAATAACGAGATCAAAGGCC
* * ** * *
32168013 TGATATGAGTCATAAAGGCCCAACCCAAATTCAAGAAAGTGATGGGCTCAAGTTGCCACAAGGCC
1 TGATACGAGTCACAAAGGCCCAACCCAAACCCAAGAAAGTGATGGGCTCAAATTACCACAAGGCC
32168078 CAATAACGAGATCAAAGGCC
66 CAATAACGAGATCAAAGGCC
32168098 TGA
1 TGA
32168101 CAAATGCGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 73 0.92
85 6 0.08
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.15
Consensus pattern (85 bp):
TGATACGAGTCACAAAGGCCCAACCCAAACCCAAGAAAGTGATGGGCTCAAATTACCACAAGGCC
CAATAACGAGATCAAAGGCC
Found at i:32182000 original size:18 final size:18
Alignment explanation
Indices: 32181977--32182012 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
32181967 TAAAGGCGAG
32181977 GCCCAAT-AAGCAAATCCA
1 GCCCAATCAAG-AAATCCA
32181995 GCCCAATCAAGAAATCCA
1 GCCCAATCAAGAAATCCA
32182013 TACATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.11
Consensus pattern (18 bp):
GCCCAATCAAGAAATCCA
Found at i:32183749 original size:20 final size:18
Alignment explanation
Indices: 32183713--32183748 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
32183703 TCTAAATTTG
32183713 ATAGAAAAAAATAATAAT
1 ATAGAAAAAAATAATAAT
32183731 ATAG-AAAAAATAATAAT
1 ATAGAAAAAAATAATAAT
32183748 A
1 A
32183749 AGATGTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
ATAGAAAAAAATAATAAT
Found at i:32185385 original size:23 final size:22
Alignment explanation
Indices: 32185333--32185385 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
32185323 TTCCACGTCT
*
32185333 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
32185355 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
32185378 TTTCTTTT
1 TTTCTTTT
32185386 TCACTCACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:32195083 original size:19 final size:20
Alignment explanation
Indices: 32195061--32195106 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
32195051 TGGGTTAAAT
*
32195061 TGAGCTGAATTGAGCT-GTG
1 TGAGCTGAATTGAGCTCGAG
* *
32195080 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
32195100 TGAGCTG
1 TGAGCTG
32195107 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:32202269 original size:21 final size:21
Alignment explanation
Indices: 32202243--32202305 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
32202233 TTGGTATTTG
32202243 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
32202264 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
32202285 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
32202306 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:32204379 original size:132 final size:132
Alignment explanation
Indices: 32204138--32204406 Score: 531
Period size: 132 Copynumber: 2.0 Consensus size: 132
32204128 AGCCTTCTCA
32204138 TGTA-AGGATTTCACCAACTCAGCTTTCTGTTCGCCATCTAAATTAATAATGTGTTCAAGTGGTA
1 TGTAGAGGATTTCACCAACTCAGCTTTCTGTTCGCCATCTAAATTAATAATGTGTTCAAGTGGTA
32204202 ATGGCGTAAGATCAAGTACTGTTAGTGGGTTGAAACCATAAACAAGTTCAAATGGAGAATAACCA
66 ATGGCGTAAGATCAAGTACTGTTAGTGGGTTGAAACCATAAACAAGTTCAAATGGAGAATAACCA
32204267 GT
131 GT
32204269 TGTAGAGGATTTCACCAACTCAGCTTTCTGTTCGCCATCTAAATTAATAATGTGTTCAAGTGGTA
1 TGTAGAGGATTTCACCAACTCAGCTTTCTGTTCGCCATCTAAATTAATAATGTGTTCAAGTGGTA
32204334 ATGGCGTAAGATCAAGTACTGTTAGTGGGTTGAAACCATAAACAAGTTCAAATGGAGAATAACCA
66 ATGGCGTAAGATCAAGTACTGTTAGTGGGTTGAAACCATAAACAAGTTCAAATGGAGAATAACCA
32204399 GT
131 GT
32204401 TGTAGA
1 TGTAGA
32204407 ATAAATAGAT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 4 0.03
132 133 0.97
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (132 bp):
TGTAGAGGATTTCACCAACTCAGCTTTCTGTTCGCCATCTAAATTAATAATGTGTTCAAGTGGTA
ATGGCGTAAGATCAAGTACTGTTAGTGGGTTGAAACCATAAACAAGTTCAAATGGAGAATAACCA
GT
Found at i:32224120 original size:10 final size:10
Alignment explanation
Indices: 32224104--32224161 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32224094 CAACTCCGAC
32224104 CAGCTCAATT
1 CAGCTCAATT
* *
32224114 GAGCTCATTT
1 CAGCTCAATT
32224124 CAGCTCAA-T
1 CAGCTCAATT
32224133 CGAGCTCAATT
1 C-AGCTCAATT
*
32224144 TAGCTGCAATT
1 CAGCT-CAATT
32224155 CAGCTCA
1 CAGCTCA
32224162 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32224127 original size:20 final size:20
Alignment explanation
Indices: 32224104--32224164 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32224094 CAACTCCGAC
32224104 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32224124 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32224145 -AGCTGCAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32224165 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32228126 original size:56 final size:55
Alignment explanation
Indices: 32228010--32228127 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
32228000 TGCATGCTTT
* * * *
32228010 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
32228064 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
32228120 CATTAAAT
1 CATTAAAT
32228128 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:32228775 original size:20 final size:20
Alignment explanation
Indices: 32228750--32228804 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
32228740 ACGAGTTAAA
* *
32228750 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
32228770 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
32228790 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
32228805 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:32234854 original size:21 final size:21
Alignment explanation
Indices: 32234824--32234886 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
32234814 TTGGTATTTG
32234824 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
32234845 GGAATCGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
32234866 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
32234887 ATGGTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:32235766 original size:11 final size:10
Alignment explanation
Indices: 32235741--32235801 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32235731 ACCAATAAAA
32235741 TAAA-TGAGC
1 TAAATTGAGC
*
32235750 TGAATTGTAGC
1 TAAATTG-AGC
32235761 TAAATTGAGC
1 TAAATTGAGC
**
32235771 TCGATTGAGC
1 TAAATTGAGC
32235781 TGAAA-TGAGC
1 T-AAATTGAGC
*
32235791 TCAATTGAGC
1 TAAATTGAGC
32235801 T
1 T
32235802 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32235802 original size:20 final size:20
Alignment explanation
Indices: 32235742--32235802 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32235732 CCAATAAAAT
*
32235742 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32235762 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32235783 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32235803 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32237483 original size:11 final size:12
Alignment explanation
Indices: 32237453--32237484 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32237443 TTTCACTCTT
32237453 CTCTTTTTCAAA
1 CTCTTTTTCAAA
32237465 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
32237477 TTCTTTTT
1 CTCTTTTT
32237485 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:32237496 original size:27 final size:27
Alignment explanation
Indices: 32237466--32237527 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
32237456 TTTTTCAAAC
*
32237466 TCTTTTTCAAATTCTT-TTTTC-GCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTT
*
32237493 TCTTTTTCAATTTTCTTTTCTTCATTT
1 TCTTTTTCAATTTTCTTTTCTGCATTT
32237520 TCTTTTTC
1 TCTTTTTC
32237528 TCTCACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 20 0.65
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTTTTTCAATTTTCTTTTCTGCATTT
Found at i:32237506 original size:13 final size:12
Alignment explanation
Indices: 32237490--32237609 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 12
32237480 TTTTTTCGCT
32237490 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
32237503 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
32237517 TTTTCTTTTTC-
1 TTTTCTTTTTCA
**
32237528 TCTCACTTTTTCGA
1 T-TTTCTTTTTC-A
32237542 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
32237552 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
* *
32237565 TTTTCTTCTTCG
1 TTTTCTTTTTCA
*
32237577 TTTTCTTTTT-G
1 TTTTCTTTTTCA
32237588 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
32237598 ATTTCTTTTTCA
1 TTTTCTTTTTCA
32237610 ATCTCTTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 10 0.12
12 42 0.51
13 12 0.14
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:32237519 original size:14 final size:14
Alignment explanation
Indices: 32237468--32237526 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
32237458 TTTCAAACTC
*
32237468 TTTTTCAA-ATTCT
1 TTTTTCAATTTTCT
**
32237481 TTTTTCGCTTTT-T
1 TTTTTCAATTTTCT
32237494 CTTTTTCAATTTTCT
1 -TTTTTCAATTTTCT
32237509 TTTCTTC-ATTTTCT
1 TTT-TTCAATTTTCT
32237523 TTTT
1 TTTT
32237527 CTCTCACTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCT
Found at i:32237554 original size:18 final size:18
Alignment explanation
Indices: 32237533--32237591 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
32237523 TTTTCTCTCA
32237533 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
32237551 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
32237569 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
32237587 GTTTT
1 CTTTT
32237592 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:32237608 original size:6 final size:6
Alignment explanation
Indices: 32237488--32237595 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
32237478 TCTTTTTTCG
* * * **
32237488 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
32237539 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
32237587 -GTTTT CTTT
1 CTTTTT CTTT
32237596 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
5 4 0.06
6 56 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:32238658 original size:18 final size:18
Alignment explanation
Indices: 32238637--32238698 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
32238627 TTTAACTCGA
32238637 TTTTTTTTTGTCACTTCT
1 TTTTTTTTTGTCACTTCT
32238655 TTTTTTTCCTT-T---TT-T
1 TTTTTTT--TTGTCACTTCT
*
32238670 TCTTTTTTTGCTCACTTCT
1 TTTTTTTTTG-TCACTTCT
32238689 TTTTTTTTTG
1 TTTTTTTTTG
32238699 AATTTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
13 2 0.06
15 8 0.24
16 2 0.06
18 9 0.26
19 11 0.32
20 2 0.06
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTGTCACTTCT
Found at i:32238711 original size:34 final size:32
Alignment explanation
Indices: 32238640--32238712 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
32238630 AACTCGATTT
* *
32238640 TTTTTTGTCACTTCTTTTTTTTCCTTTTTTTCT
1 TTTTTTGTCACTTCTTTTTTTT-CTTATTTTCA
*
32238673 TTTTTTGCTCACTTCTTTTTTTT-TTGAATTTTGA
1 TTTTTTG-TCACTTCTTTTTTTTCTT--ATTTTCA
32238707 TTTTTT
1 TTTTTT
32238713 TTGAAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 7 0.21
34 25 0.74
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (32 bp):
TTTTTTGTCACTTCTTTTTTTTCTTATTTTCA
Found at i:32240003 original size:11 final size:10
Alignment explanation
Indices: 32239978--32240038 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32239968 ACCAATAAAA
32239978 TAAA-TGAGC
1 TAAATTGAGC
*
32239987 TGAATTGTAGC
1 TAAATTG-AGC
32239998 TAAATTGAGC
1 TAAATTGAGC
**
32240008 TCGATTGAGC
1 TAAATTGAGC
32240018 TGAAA-TGAGC
1 T-AAATTGAGC
*
32240028 TCAATTGAGC
1 TAAATTGAGC
32240038 T
1 T
32240039 GGTCAGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32240039 original size:20 final size:20
Alignment explanation
Indices: 32239979--32240039 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32239969 CCAATAAAAT
*
32239979 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32239999 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32240020 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32240040 GTCAGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32241806 original size:23 final size:22
Alignment explanation
Indices: 32241754--32241806 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
32241744 TCCACGTCTT
*
32241754 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
32241776 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
32241799 TTTCTTTT
1 TTTCTTTT
32241807 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:32265294 original size:19 final size:18
Alignment explanation
Indices: 32265258--32265297 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32265248 TTTCCACTCG
*
32265258 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
32265276 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
32265295 TTT
1 TTT
32265298 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:32266370 original size:13 final size:12
Alignment explanation
Indices: 32266352--32266401 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 12
32266342 AAACTAGCTC
*
32266352 TTTTTTTTTACA
1 TTTTTTTTCACA
32266364 TTTTTTTTCACAA
1 TTTTTTTTCAC-A
*
32266377 TTTTTTTTCAAA
1 TTTTTTTTCACA
32266389 TTTTTTTTTCACA
1 -TTTTTTTTCACA
32266402 ACTTGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.33
13 22 0.67
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTTTCACA
Found at i:32266458 original size:11 final size:11
Alignment explanation
Indices: 32266442--32266482 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
32266432 GAAACTAGTT
32266442 TTTTTTTCGAA
1 TTTTTTTCGAA
*
32266453 TTTTTTTTGAA
1 TTTTTTTCGAA
*
32266464 TTTTTTTTCGAG
1 -TTTTTTTCGAA
32266476 TTTTTTT
1 TTTTTTT
32266483 TCGAGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.73
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:32266487 original size:12 final size:12
Alignment explanation
Indices: 32266441--32266486 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
32266431 GGAAACTAGT
32266441 TTTTTTTTCGAA
1 TTTTTTTTCGAA
32266453 TTTTTTTT-GAA
1 TTTTTTTTCGAA
*
32266464 TTTTTTTTCGAG
1 TTTTTTTTCGAA
32266476 TTTTTTTTCGA
1 TTTTTTTTCGA
32266487 GAAACTACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.34
12 21 0.66
ACGTcount: A:0.13, C:0.07, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:32279181 original size:19 final size:18
Alignment explanation
Indices: 32279145--32279184 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32279135 TTTCCACTCG
*
32279145 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
32279163 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
32279182 TTT
1 TTT
32279185 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:32281327 original size:11 final size:11
Alignment explanation
Indices: 32281311--32281340 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32281301 TTGGAGTAAC
32281311 AAAAAAATCAA
1 AAAAAAATCAA
*
32281322 AAAAAATTCAA
1 AAAAAAATCAA
32281333 AAAAAAAT
1 AAAAAAAT
32281341 TGATTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:32281335 original size:12 final size:12
Alignment explanation
Indices: 32281311--32281378 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
32281301 TTGGAGTAAC
32281311 AAAAAAA-TC-A
1 AAAAAAATTCAA
32281321 AAAAAAATTCAAA
1 AAAAAAATTC-AA
*
32281334 AAAAAATTGATTGAAA
1 AAAAAA---ATT-CAA
32281350 AAAAAAATTCAA
1 AAAAAAATTCAA
* *
32281362 AAAAAAAGTGAA
1 AAAAAAATTCAA
32281374 AAAAA
1 AAAAA
32281379 TCGAGCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 17 0.36
13 10 0.21
16 11 0.23
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:32281336 original size:13 final size:13
Alignment explanation
Indices: 32281320--32281368 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
32281310 CAAAAAAATC
32281320 AAAAAAAATTCAA
1 AAAAAAAATTCAA
*
32281333 AAAAAAATTGATTGAA
1 AAAAAAA---ATTCAA
32281349 AAAAAAAATTCAA
1 AAAAAAAATTCAA
32281362 AAAAAAA
1 AAAAAAA
32281369 GTGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 19 0.61
16 12 0.39
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:32286607 original size:14 final size:14
Alignment explanation
Indices: 32286588--32286640 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
32286578 ACTAGCTCTC
32286588 TTTTTTTT-ACAA-
1 TTTTTTTTCACAAT
32286600 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
*
32286614 TTTTTTTTCAAAAT
1 TTTTTTTTCACAAT
32286628 TTTTTTTTCACAA
1 TTTTTTTTCACAA
32286641 CTTGATATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.22
13 4 0.11
14 25 0.68
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:32286696 original size:11 final size:11
Alignment explanation
Indices: 32286680--32286719 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
32286670 GAAACTAGTT
32286680 TTTTTTTCGAA
1 TTTTTTTCGAA
*
32286691 TTTTTTTTGAA
1 TTTTTTTCGAA
*
32286702 TTTTTTTCGAG
1 TTTTTTTCGAA
32286713 TTTTTTT
1 TTTTTTT
32286720 TCGAGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.72
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:32286696 original size:12 final size:12
Alignment explanation
Indices: 32286679--32286723 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
32286669 GGAAACTAGT
32286679 TTTTTTTTCGAA
1 TTTTTTTTCGAA
32286691 TTTTTTTT-GAA
1 TTTTTTTTCGAA
*
32286702 -TTTTTTTCGAG
1 TTTTTTTTCGAA
32286713 TTTTTTTTCGA
1 TTTTTTTTCGA
32286724 GAAACTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 7 0.23
11 5 0.17
12 18 0.60
ACGTcount: A:0.13, C:0.07, G:0.11, T:0.69
Consensus pattern (12 bp):
TTTTTTTTCGAA
Done.