Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 59 of 103
Found at i:22361215 original size:104 final size:104
Alignment explanation
Indices: 22361035--22361230 Score: 374
Period size: 104 Copynumber: 1.9 Consensus size: 104
22361025 TCAATTGAGA
22361035 ATGACAAGTGTCAAGCAATTGACCCAATCAATTATCTTACTTTTATATATATTATAGATATATTG
1 ATGACAAGTGTCAAGCAATTGACCCAATCAATTATCTTACTTTTATATATATTATAGATATATTG
22361100 GCTAGAGACTTTATTGGTGTAGAAATATATATTATAGAT
66 GCTAGAGACTTTATTGGTGTAGAAATATATATTATAGAT
* *
22361139 ATGACAAGTGTCAAGCAATTGACCCAATTAATTATCTTACTTTTATATATATTATAGATATGTTG
1 ATGACAAGTGTCAAGCAATTGACCCAATCAATTATCTTACTTTTATATATATTATAGATATATTG
22361204 GCTAGAGACTTTATTGGTGTAGAAATA
66 GCTAGAGACTTTATTGGTGTAGAAATA
22361231 CAATTTTGTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 90 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (104 bp):
ATGACAAGTGTCAAGCAATTGACCCAATCAATTATCTTACTTTTATATATATTATAGATATATTG
GCTAGAGACTTTATTGGTGTAGAAATATATATTATAGAT
Found at i:22370225 original size:21 final size:21
Alignment explanation
Indices: 22370201--22370274 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
22370191 TCATGCAATT
*
22370201 CATGGCAAAGACAGATGCCTA
1 CATGACAAAGACAGATGCCTA
* * * *
22370222 CATGATAAAGA-ATAACGCCTT
1 CATGACAAAGACA-GATGCCTA
* *
22370243 GATGACAAAGACTGATGCCTA
1 CATGACAAAGACAGATGCCTA
22370264 CATGACAAAGA
1 CATGACAAAGA
22370275 ATAATGACAT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 1 0.03
21 38 0.97
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (21 bp):
CATGACAAAGACAGATGCCTA
Found at i:22371632 original size:31 final size:32
Alignment explanation
Indices: 22371561--22371651 Score: 112
Period size: 31 Copynumber: 2.8 Consensus size: 32
22371551 GACTCATGAT
* **
22371561 CAAATTTAGAAAGTTTCTTAATTTGATTAGGAC
1 CAAATTTGGAAAGTTTCTTAAAATG-TTAGGAC
* *
22371594 CAAATTTGGAAAGTTTCCTAAACTGTTAGGA-
1 CAAATTTGGAAAGTTTCTTAAAATGTTAGGAC
*
22371625 CAAATTTGGTAAGTTTCTTAAAATGTT
1 CAAATTTGGAAAGTTTCTTAAAATGTT
22371652 TAAGGCGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 24 0.47
32 6 0.12
33 21 0.41
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (32 bp):
CAAATTTGGAAAGTTTCTTAAAATGTTAGGAC
Found at i:22390798 original size:16 final size:16
Alignment explanation
Indices: 22390773--22390853 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 16
22390763 CAAAATCTTC
*
22390773 AAAAAA-AATATAAAT
1 AAAAAATAATAAAAAT
22390788 AAAAAATAATAAAAAT
1 AAAAAATAATAAAAAT
* *
22390804 AATAAATAGACAAATAAT
1 AAAAAATA-ATAAA-AAT
*
22390822 AAAGAAT-ATCAAAGAAT
1 AAAAAATAAT-AAA-AAT
*
22390839 AAATAAAAAATAAAA
1 AAA-AAATAATAAAA
22390854 TGATAATAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
15 6 0.12
16 16 0.31
17 14 0.27
18 13 0.25
19 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAAATAATAAAAAT
Found at i:22390801 original size:24 final size:24
Alignment explanation
Indices: 22390774--22390859 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
22390764 AAAATCTTCA
22390774 AAAAAAATATAAATAAAAAATAAT
1 AAAAAAATATAAATAAAAAATAAT
* *
22390798 AAAAATA-ATAAATAGACAAATAAT
1 AAAAAAATATAAATA-AAAAATAAT
* * * *
22390822 -AAAGAATATCAAAGAATAAATAAA
1 AAAAAAATAT-AAATAAAAAATAAT
22390846 AAATAAAATGATAA
1 AAA-AAAAT-ATAA
22390860 TAACAATGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
23 11 0.23
24 23 0.48
25 6 0.12
26 6 0.12
27 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAAAAATATAAATAAAAAATAAT
Found at i:22391463 original size:3 final size:3
Alignment explanation
Indices: 22391455--22391539 Score: 60
Period size: 3 Copynumber: 29.7 Consensus size: 3
22391445 GCTTACACAA
22391455 AAT AAT AAT AAT AAT AAT AAT -AT AAT CAA- AAT -AT AAT AAAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT A-AT
* *
22391500 AAT AAAT AAT -AT AAA AAT AA- AA- AAT AGT AA- AA- AAT AAT AA
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22391540 AATTCTTGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
2 16 0.24
3 41 0.60
4 11 0.16
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:22391493 original size:22 final size:23
Alignment explanation
Indices: 22391458--22391519 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
22391448 TACACAAAAT
*
22391458 AATAATAATAATAATAATATAATC
1 AATAAT-ATAATAATAATATAATA
22391482 AA-AATATAATAA-ATATATAATA
1 AATAATATAATAATA-ATATAATA
*
22391504 AATAATATAAAAATAA
1 AATAATATAATAATAA
22391520 AAAATAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.48
23 13 0.39
24 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAATATAATAATAATATAATA
Found at i:22391541 original size:9 final size:9
Alignment explanation
Indices: 22391453--22391541 Score: 67
Period size: 11 Copynumber: 9.3 Consensus size: 9
22391443 TTGCTTACAC
22391453 AAAATAATA
1 AAAATAATA
*
22391462 ATAATAATA
1 AAAATAATA
22391471 ATAATATAATCA
1 A-AA-ATAAT-A
22391483 AAATATAATA
1 AAA-ATAATA
22391493 AATATATAATA
1 AA-A-ATAATA
22391504 AATAAT-ATA
1 AA-AATAATA
22391513 AAAAT-A-A
1 AAAATAATA
*
22391520 AAAATAGTAA
1 AAAATAAT-A
22391530 AAAATAATA
1 AAAATAATA
22391539 AAA
1 AAA
22391542 TTCTTGTTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.09
8 4 0.06
9 18 0.26
10 14 0.20
11 25 0.36
12 2 0.03
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAATAATA
Found at i:22391666 original size:25 final size:23
Alignment explanation
Indices: 22391654--22391700 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
22391644 ATAATTAAAC
*
22391654 ATAAAATAGAAAACATGATAAAAAA
1 ATAAAAT-GAAAA-ATAATAAAAAA
22391679 ATAAAATG-AAAATAATAAAAAA
1 ATAAAATGAAAAATAATAAAAAA
22391701 TGACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 1 0.05
25 7 0.33
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
ATAAAATGAAAAATAATAAAAAA
Found at i:22391700 original size:24 final size:25
Alignment explanation
Indices: 22391638--22391700 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 25
22391628 TAAGGTATAA
** *
22391638 AAAATAATAATTAAACATAAAATAG
1 AAAATAATAAAAAAAAATAAAATAG
* *
22391663 AAAA-CATGATAAAAAAATAAAAT-G
1 AAAATAAT-AAAAAAAAATAAAATAG
22391687 AAAATAATAAAAAA
1 AAAATAATAAAAAA
22391701 TGACAAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (25 bp):
AAAATAATAAAAAAAAATAAAATAG
Found at i:22403703 original size:36 final size:37
Alignment explanation
Indices: 22403609--22403898 Score: 381
Period size: 36 Copynumber: 7.8 Consensus size: 37
22403599 GAAAAAGGTT
* *
22403609 TCGTTACCTTAGTTTTGAGGAGTTCATTTTTAAAAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCA-TTTT--AAAAGTC
* *
22403649 TCATTGTCTCAGTTTTGAGGAGTTCATTTTAAAAGT-
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTC
* *
22403685 TCGTTGCCTCAGCTTTGAGGAGTTTATTTTAAAAGT-
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTC
22403721 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTAAAAGTC
* * *
22403759 CCATTGCCTCAGTTTTGAGGAGTTCATTTTAAAAAT-
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTC
*
22403795 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTC
* * *
22403832 TCGTGGCCTCAGTGTTGAGGAGTTCCTTTTTAAAA-TC
1 TCGTTGCCTCAGTTTTGAGGAGTT-CATTTTAAAAGTC
*
22403869 TCGTTGCCTCAGTTTTAAGGAGTTCATTTT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTT
22403899 TAAATTTTGA
Statistics
Matches: 221, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
36 93 0.42
37 70 0.32
38 32 0.14
39 4 0.02
40 22 0.10
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (37 bp):
TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTC
Found at i:22403788 original size:74 final size:75
Alignment explanation
Indices: 22403609--22403902 Score: 393
Period size: 74 Copynumber: 3.9 Consensus size: 75
22403599 GAAAAAGGTT
* * * *
22403609 TCGTTACCTTAGTTTTGAGGAGTTCATTTTTAAAAAAGTCTCATTGTCTCAGTTTTGAGGAGTTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCA-TTTT--AAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTC
22403674 A-TTTTAAAAGT-
63 ATTTTTAAAAGTC
* *
22403685 TCGTTGCCTCAGCTTTGAGGAGTTTATTTTAAAAGT-TCGTTGCCTCAGTTTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATT
22403749 TTTAAAAGTC
66 TTTAAAAGTC
* * *
22403759 CCATTGCCTCAGTTTTGAGGAGTTCATTTTAAAAAT-TCGTTGCCTCAGTTTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATT
22403823 TTT-AAAGTC
66 TTTAAAAGTC
* * * *
22403832 TCGTGGCCTCAGTGTTGAGGAGTTCCTTTTTAAAA-TCTCGTTGCCTCAGTTTTAAGGAGTTCAT
1 TCGTTGCCTCAGTTTTGAGGAGTT-CATTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCAT
22403896 TTTTAAA
65 TTTTAAA
22403903 TTTTGAGGAA
Statistics
Matches: 196, Mismatches: 17, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
72 24 0.12
73 43 0.22
74 101 0.52
75 6 0.03
76 22 0.11
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (75 bp):
TCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATT
TTTAAAAGTC
Found at i:22403803 original size:110 final size:110
Alignment explanation
Indices: 22403608--22403898 Score: 431
Period size: 110 Copynumber: 2.6 Consensus size: 110
22403598 AGAAAAAGGT
* * *
22403608 TTCGTTACCTTAGTTTTGAGGAGTTCATTTTTAAAAAAGTCTCATTGTCTCAGTTTTGAGGAGTT
1 TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT--AAAAGTCTCATTGCCTCAGTTTTGAGGAGTT
* *
22403673 CATTTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTTATTTTAAAAG
64 CATTTTAAAAATTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAG
*
22403720 TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCCCATTGCCTCAGTTTTGAGGAGTTCA
1 TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCTCATTGCCTCAGTTTTGAGGAGTTCA
* *
22403785 TTTTAAAAATTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAG
66 TTTTAAAAATTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAG
* * * * *
22403830 TCTCGTGGCCTCAGTGTTGAGGAGTTCCTTTTTAAAA-TCTCGTTGCCTCAGTTTTAAGGAGTTC
1 T-TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCTCATTGCCTCAGTTTTGAGGAGTTC
22403894 ATTTT
65 ATTTT
22403899 TAAATTTTGA
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
110 102 0.62
111 32 0.20
112 30 0.18
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (110 bp):
TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCTCATTGCCTCAGTTTTGAGGAGTTCA
TTTTAAAAATTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAG
Found at i:22403906 original size:22 final size:22
Alignment explanation
Indices: 22403881--22403924 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22403871 GTTGCCTCAG
*
22403881 TTTTAAGGAGTTCATTTTTAAA
1 TTTTAAGGAATTCATTTTTAAA
*
22403903 TTTTGAGGAATTCATTTTTAAA
1 TTTTAAGGAATTCATTTTTAAA
22403925 AGTTTTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTTAAGGAATTCATTTTTAAA
Found at i:22403946 original size:134 final size:135
Alignment explanation
Indices: 22403771--22404105 Score: 462
Period size: 137 Copynumber: 2.5 Consensus size: 135
22403761 ATTGCCTCAG
* *
22403771 TTTTGAGGAGTTCATTTTAAAAATTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTA-AAGTCTCG
1 TTTTGAGGAGTTCATTTTAAAAGTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAGAAGTTTCG
* * *
22403835 TGGCCTCAGTGTTGAGGAG-T-TCCTTTTTAAAATCTCGTTGCCTCAGTTTTAAGGAGTTCATTT
66 TGGCCTCAATGTTGAGGAGTTATCCTTTTTAAAATCCCATTGCCTCAGTTTTAAGGAGTTCATTT
22403898 TTAAA
131 TTAAA
* * *
22403903 TTTTGAGGAATTCATTTTTAAAAGTTTTGTTGCCTTAGTTTTGAGGAGTTCA-TTTTAGAAGTTT
1 TTTTGAGGAGTTCA-TTTTAAAAG-TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAGAAGTTT
* * ** * *
22403967 CGTTGCCTCAATTTTGAGGAGTTTATTTTTTTTAAAGTCCCATTGCCTCAGTTTTGAGGAGTTCA
64 CGTGGCCTCAATGTTGAGGAG-TTATCCTTTTTAAAATCCCATTGCCTCAGTTTTAAGGAGTTCA
22404032 TTTTTAAA
128 TTTTTAAA
* * *
22404040 TTTTGAGGAGTTTATTTTAAAAGTTCGTTCCCTCAGCTTTGAGGAGTTCATTTTTAGAAGTTTCG
1 TTTTGAGGAGTTCATTTTAAAAGTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAGAAGTTTCG
22404105 T
66 T
22404106 TACCTCAGCT
Statistics
Matches: 176, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
132 13 0.07
133 13 0.07
134 48 0.27
135 23 0.13
136 25 0.14
137 54 0.31
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (135 bp):
TTTTGAGGAGTTCATTTTAAAAGTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAGAAGTTTCG
TGGCCTCAATGTTGAGGAGTTATCCTTTTTAAAATCCCATTGCCTCAGTTTTAAGGAGTTCATTT
TTAAA
Found at i:22403950 original size:60 final size:59
Alignment explanation
Indices: 22403846--22403958 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 59
22403836 GGCCTCAGTG
* *
22403846 TTGAGGAGTTCCTTTTTAAAATCTCGTTGCCTCAGTTTTAAGGAGTTCATTTTTAAATT
1 TTGAGGAATTCATTTTTAAAATCTCGTTGCCTCAGTTTTAAGGAGTTCATTTTTAAATT
* * * *
22403905 TTGAGGAATTCATTTTTAAAAGTTTTGTTGCCTTAGTTTTGAGGAGTTCATTTT
1 TTGAGGAATTCATTTTTAAAA-TCTCGTTGCCTCAGTTTTAAGGAGTTCATTTT
22403959 AGAAGTTTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 19 0.40
60 28 0.60
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.48
Consensus pattern (59 bp):
TTGAGGAATTCATTTTTAAAATCTCGTTGCCTCAGTTTTAAGGAGTTCATTTTTAAATT
Found at i:22403959 original size:37 final size:38
Alignment explanation
Indices: 22403903--22404039 Score: 159
Period size: 37 Copynumber: 3.6 Consensus size: 38
22403893 CATTTTTAAA
* * *
22403903 TTTTGAGGAATTCATTTTTAAAAGTTTTGTTGCCTTAG
1 TTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAG
* *
22403941 TTTTGAGGAGTTCA-TTTTAGAAGTTTCGTTGCCTCAA
1 TTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAG
* * ** *
22403978 TTTTGAGGAGTTTATTTTTTTTAAAGTCCCATTGCCTCAG
1 TTTTGAGGAGTTCA--TTTTTAAAAGTTTCGTTGCCTCAG
22404018 TTTTGAGGAGTTCATTTTTAAA
1 TTTTGAGGAGTTCATTTTTAAA
22404040 TTTTGAGGAG
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
37 32 0.39
38 20 0.24
40 30 0.37
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (38 bp):
TTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAG
Found at i:22403987 original size:97 final size:96
Alignment explanation
Indices: 22403807--22403996 Score: 247
Period size: 97 Copynumber: 2.0 Consensus size: 96
22403797 GTTGCCTCAG
* *
22403807 TTTTGAGGAGTTCATTTTTAAAGTCTCGTGGCCTCAGTGTTGAGGAGTTCCTTTTTAAAATCTCG
1 TTTTGAGGAATTCATTTTTAAAGTCTCGTGGCCTCAGTGTTGAGGAGTTCCATTTTAAAATCTCG
*
22403872 TTGCCTCAGTTTTAAGGAGTTCATTTTTAAA
66 TTGCCTCAATTTTAAGGAGTTCATTTTTAAA
* * * * * * *
22403903 TTTTGAGGAATTCATTTTTAAAAGTTTTGTTGCCTTAGTTTTGAGGAGTT-CATTTTAGAAGTTT
1 TTTTGAGGAATTCATTTTT-AAAGTCTCGTGGCCTCAGTGTTGAGGAGTTCCATTTTA-AAATCT
* *
22403967 CGTTGCCTCAATTTTGAGGAGTTTATTTTT
64 CGTTGCCTCAATTTTAAGGAGTTCATTTTT
22403997 TTTAAAGTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 24 0.30
97 56 0.70
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (96 bp):
TTTTGAGGAATTCATTTTTAAAGTCTCGTGGCCTCAGTGTTGAGGAGTTCCATTTTAAAATCTCG
TTGCCTCAATTTTAAGGAGTTCATTTTTAAA
Found at i:22404081 original size:36 final size:38
Alignment explanation
Indices: 22404041--22404129 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
22404031 ATTTTTAAAT
* *
22404041 TTTGAGGAGTTTA-TTTTAAAAG-TTCGTTCCCTCAGC
1 TTTGAGGAGTTCATTTTTAAAAGTTTCGTTACCTCAGC
*
22404077 TTTGAGGAGTTCATTTTTAGAAGTTTCGTTACCTCAGC
1 TTTGAGGAGTTCATTTTTAAAAGTTTCGTTACCTCAGC
*
22404115 TTTGAAGAGTCTCAT
1 TTTGAGGAGT-TCAT
22404130 CTAAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.26
37 8 0.17
38 22 0.48
39 4 0.09
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (38 bp):
TTTGAGGAGTTCATTTTTAAAAGTTTCGTTACCTCAGC
Found at i:22404083 original size:58 final size:60
Alignment explanation
Indices: 22403976--22404095 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 60
22403966 TCGTTGCCTC
* * *
22403976 AATTTTGAGGAGTTTATTTTTTTTAAAGTCCCATTGCCTCAGTTTTGAGGAGTTCATTTTTA
1 AATTTTGAGGAGTTTA--TTTTTAAAAGTCCCATTCCCTCAGCTTTGAGGAGTTCATTTTTA
* *
22404038 AATTTTGAGGAGTTTA-TTTTAAAAGT-TCGTTCCCTCAGCTTTGAGGAGTTCATTTTTA
1 AATTTTGAGGAGTTTATTTTTAAAAGTCCCATTCCCTCAGCTTTGAGGAGTTCATTTTTA
22404096 GAAGTTTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
58 28 0.53
59 9 0.17
62 16 0.30
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (60 bp):
AATTTTGAGGAGTTTATTTTTAAAAGTCCCATTCCCTCAGCTTTGAGGAGTTCATTTTTA
Found at i:22404316 original size:12 final size:12
Alignment explanation
Indices: 22404291--22404340 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
22404281 CTAATTAATT
*
22404291 AAAAGTAAAC-A
1 AAAAATAAACAA
22404302 AAAAATAAACAA
1 AAAAATAAACAA
22404314 AAAAATAAA-AA
1 AAAAATAAACAA
* *
22404325 ACAAAAAAAAGAA
1 A-AAAATAAACAA
22404338 AAA
1 AAA
22404341 GGGAGAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 12 0.35
12 19 0.56
13 3 0.09
ACGTcount: A:0.84, C:0.06, G:0.04, T:0.06
Consensus pattern (12 bp):
AAAAATAAACAA
Found at i:22410226 original size:19 final size:19
Alignment explanation
Indices: 22410202--22410239 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22410192 CCATTTGACT
22410202 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
22410221 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
22410240 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:22417471 original size:13 final size:13
Alignment explanation
Indices: 22417453--22417484 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22417443 TGCGTTAGAT
22417453 AAAAAAATTTTCA
1 AAAAAAATTTTCA
22417466 AAAAAAATTTTCA
1 AAAAAAATTTTCA
22417479 AAAAAA
1 AAAAAA
22417485 GTTTGTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAAATTTTCA
Found at i:22434101 original size:19 final size:19
Alignment explanation
Indices: 22434077--22434114 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22434067 ACTTCTAAAC
22434077 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
22434096 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
22434115 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:22439410 original size:28 final size:28
Alignment explanation
Indices: 22439378--22439505 Score: 133
Period size: 28 Copynumber: 4.8 Consensus size: 28
22439368 TTATAATGGG
22439378 TTACATGTCCTTAACATGTTTTGATAGA
1 TTACATGTCCTTAACATGTTTTGATAGA
* *
22439406 TTACATGTCCTTAACATATTTTGAT-GG
1 TTACATGTCCTTAACATGTTTTGATAGA
*
22439433 GT---TGTCCTTAACATGTTTTGATAGA
1 TTACATGTCCTTAACATGTTTTGATAGA
* * * *
22439458 -TACATGTCTTTAACATATTTTGATGGG
1 TTACATGTCCTTAACATGTTTTGATAGA
*
22439485 TTACATAT-CTGTAACATGTTT
1 TTACATGTCCT-TAACATGTTT
22439506 CATTAGTGCC
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
24 20 0.24
25 1 0.01
27 22 0.27
28 39 0.48
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.45
Consensus pattern (28 bp):
TTACATGTCCTTAACATGTTTTGATAGA
Found at i:22439443 original size:24 final size:24
Alignment explanation
Indices: 22439411--22439486 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 24
22439401 ATAGATTACA
22439411 TGTCCTTAACATATTTTGATGGGT
1 TGTCCTTAACATATTTTGATGGGT
* * *
22439435 TGTCCTTAACATGTTTTGATAGAT
1 TGTCCTTAACATATTTTGATGGGT
*
22439459 ACATGTCTTTAACATATTTTGATGGGT
1 ---TGTCCTTAACATATTTTGATGGGT
22439486 T
1 T
22439487 ACATATCTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 22 0.52
27 20 0.48
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (24 bp):
TGTCCTTAACATATTTTGATGGGT
Found at i:22439482 original size:51 final size:52
Alignment explanation
Indices: 22439383--22439486 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 52
22439373 ATGGGTTACA
22439383 TGTCCTTAACATGTTTTGATAGATTACATGTCCTTAACATATTTTGATGGGT
1 TGTCCTTAACATGTTTTGATAGATTACATGTCCTTAACATATTTTGATGGGT
*
22439435 TGTCCTTAACATGTTTTGATAGA-TACATGTCTTTAACATATTTTGATGGGT
1 TGTCCTTAACATGTTTTGATAGATTACATGTCCTTAACATATTTTGATGGGT
22439486 T
1 T
22439487 ACATATCTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (52 bp):
TGTCCTTAACATGTTTTGATAGATTACATGTCCTTAACATATTTTGATGGGT
Found at i:22442540 original size:16 final size:17
Alignment explanation
Indices: 22442521--22442553 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22442511 ACTTTTCTTA
22442521 CTCTTGATTT-TTTTTG
1 CTCTTGATTTATTTTTG
*
22442537 CTCTTGTTTTATTTTTG
1 CTCTTGATTTATTTTTG
22442554 TTTTAATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.70
Consensus pattern (17 bp):
CTCTTGATTTATTTTTG
Found at i:22447756 original size:44 final size:43
Alignment explanation
Indices: 22447707--22447840 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 43
22447697 TTTGAAGTCT
22447707 AAAACATTTGTTTAAAGTAAAATTATAGTTATTTGAATATAATA
1 AAAACA-TTGTTTAAAGTAAAATTATAGTTATTTGAATATAATA
*** * *
22447751 AAAACA----TTAAA-TAAAA-TAT--TCTATTTTCTTANAAGTCT
1 AAAACATTGTTTAAAGTAAAATTATAGT-TATTTGAATATAA-T-A
22447789 AAAACATTCGTTTAAAGTAAAATTATAGTTATTTGAATATAATA
1 AAAACATT-GTTTAAAGTAAAATTATAGTTATTTGAATATAATA
22447833 AAAACATT
1 AAAACATT
22447841 AAATAAAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 24
0.67 0.10 0.24
Matches are distributed among these distances:
35 1 0.01
36 9 0.13
37 4 0.06
38 11 0.16
39 5 0.07
43 5 0.07
44 19 0.28
45 4 0.06
46 9 0.13
47 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (43 bp):
AAAACATTGTTTAAAGTAAAATTATAGTTATTTGAATATAATA
Found at i:22447766 original size:38 final size:39
Alignment explanation
Indices: 22447718--22447849 Score: 112
Period size: 39 Copynumber: 3.3 Consensus size: 39
22447708 AAACATTTGT
22447718 TTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACA
1 TTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACA
*** * *
22447757 TTAAA-TAAAA-TAT--TCTATTTTCTTANAAGTCTAAAACATTCGT
1 TTAAAGTAAAATTATAGT-TATTTGAATATAA---TAAAA-A--C-A
22447800 TTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACA
1 TTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACA
22447839 TTAAA-TAAAAT
1 TTAAAGTAAAAT
22447850 ATTCTATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 25
0.67 0.09 0.24
Matches are distributed among these distances:
35 1 0.01
36 9 0.13
37 3 0.04
38 11 0.15
39 15 0.21
40 2 0.03
42 2 0.03
43 10 0.14
44 5 0.07
45 3 0.04
46 9 0.13
47 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.38
Consensus pattern (39 bp):
TTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACA
Found at i:22447796 original size:82 final size:81
Alignment explanation
Indices: 22447701--22447865 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 81
22447691 TTAAATTTTG
*
22447701 AAGTCTAAAACATTTGTTTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACATTAAATAAA
1 AAGTCTAAAACATTCGTTTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACATTAAATAAA
22447766 ATATTCTATTTTCTTA
66 ATATTCTATTTTCTTA
22447782 NAAGTCTAAAACATTCGTTTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACATTAAATAA
1 -AAGTCTAAAACATTCGTTTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACATTAAATAA
22447847 AATATTCTATTTTCTTA
65 AATATTCTATTTTCTTA
22447864 AA
1 AA
22447866 ACACAATATT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 2 0.02
82 80 0.98
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (81 bp):
AAGTCTAAAACATTCGTTTAAAGTAAAATTATAGTTATTTGAATATAATAAAAACATTAAATAAA
ATATTCTATTTTCTTA
Found at i:22455459 original size:15 final size:16
Alignment explanation
Indices: 22455429--22455471 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22455419 TCATAGGAGC
* *
22455429 TTTTTCAAAAGTTTTTT
1 TTTTTGAAAA-TTTTAT
*
22455446 TTTTTTAAAATTTTAT
1 TTTTTGAAAATTTTAT
22455462 TTTTTGAAAA
1 TTTTTGAAAA
22455472 AAAAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTTGAAAATTTTAT
Found at i:22464118 original size:17 final size:18
Alignment explanation
Indices: 22464096--22464130 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22464086 TACTACTTGT
*
22464096 TTTATACTGTGTT-ATTG
1 TTTATAATGTGTTGATTG
22464113 TTTATAATGTGTTGATTG
1 TTTATAATGTGTTGATTG
22464131 CAGGAAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (18 bp):
TTTATAATGTGTTGATTG
Found at i:22465866 original size:26 final size:28
Alignment explanation
Indices: 22465837--22465889 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
22465827 AAAACCTGGG
22465837 AAATAAA-AATTAAAAAAATTA-AGAAT
1 AAATAAAGAATTAAAAAAATTAGAGAAT
**
22465863 AAATAAAGAATTGGAAAAATTAGAGAA
1 AAATAAAGAATTAAAAAAATTAGAGAA
22465890 AATCAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (28 bp):
AAATAAAGAATTAAAAAAATTAGAGAAT
Found at i:22466689 original size:34 final size:34
Alignment explanation
Indices: 22466644--22466714 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
22466634 AACATGGGAA
22466644 ATTGGACGAAACTCTAGTGCAACAAATCTGATAC
1 ATTGGACGAAACTCTAGTGCAACAAATCTGATAC
* *
22466678 ATTGGATGAAACTCTAGTGCAACAATTCTGATAC
1 ATTGGACGAAACTCTAGTGCAACAAATCTGATAC
22466712 ATT
1 ATT
22466715 CTTGTATAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (34 bp):
ATTGGACGAAACTCTAGTGCAACAAATCTGATAC
Found at i:22471399 original size:74 final size:74
Alignment explanation
Indices: 22471278--22471428 Score: 275
Period size: 74 Copynumber: 2.0 Consensus size: 74
22471268 GCAATCAATC
* *
22471278 TCATAAGTTGAAAAATGAGATAGTTGGAAGCTTAAAAGATGAGACTTTAAAGTTTGTAATTAATA
1 TCATAAGTTGAAAAATGAGATAGTTGGAAGCTTAAAAGATGAAACTTTAAAGTTAGTAATTAATA
22471343 AATACCTCA
66 AATACCTCA
22471352 TCATAAGTTGAAAAATGAGATAGTTGGAAGCTTAAAAGATGAAACTTTAAAGTTAGTAATTAATA
1 TCATAAGTTGAAAAATGAGATAGTTGGAAGCTTAAAAGATGAAACTTTAAAGTTAGTAATTAATA
*
22471417 AATACCTTA
66 AATACCTCA
22471426 TCA
1 TCA
22471429 AATATTAAGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (74 bp):
TCATAAGTTGAAAAATGAGATAGTTGGAAGCTTAAAAGATGAAACTTTAAAGTTAGTAATTAATA
AATACCTCA
Found at i:22473322 original size:55 final size:55
Alignment explanation
Indices: 22473238--22473354 Score: 234
Period size: 55 Copynumber: 2.1 Consensus size: 55
22473228 GTAATTCAGA
22473238 TGTTGGTGGAGGCATTGTTGATACAGTTGCACTAGTAACAGTGGGAGTTAAGGAT
1 TGTTGGTGGAGGCATTGTTGATACAGTTGCACTAGTAACAGTGGGAGTTAAGGAT
22473293 TGTTGGTGGAGGCATTGTTGATACAGTTGCACTAGTAACAGTGGGAGTTAAGGAT
1 TGTTGGTGGAGGCATTGTTGATACAGTTGCACTAGTAACAGTGGGAGTTAAGGAT
22473348 TGTTGGT
1 TGTTGGT
22473355 CTTCGATTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.24, C:0.09, G:0.35, T:0.32
Consensus pattern (55 bp):
TGTTGGTGGAGGCATTGTTGATACAGTTGCACTAGTAACAGTGGGAGTTAAGGAT
Found at i:22474936 original size:171 final size:170
Alignment explanation
Indices: 22474205--22476588 Score: 2293
Period size: 170 Copynumber: 14.0 Consensus size: 170
22474195 TTAGGTAATG
* * * * *
22474205 ATCAATGGATGGCTTTCGCTTCAC-ATTCCTCAAGGTAAACCTCTAATTATGATCTGTTTGAA-T
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCT-AAGGTAAACATCCAATTATGATCTGTTTTAACT
* * * *
22474268 AAAAAATGAAAAAAAAATCAACTTAAATTCATTTATAAGATTATAAAATCATTTAACG-TGAGTA
65 -AAAAATG-AAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCT-AGTA
* ** * *
22474332 ATTAAGT-TTTTAAAGGCATTAGTGACTATAAATAGACTTGTCTT
127 ACT-AGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * * ** ** *
22474376 ATCAATAGATGACTTTCGCTTCACGTTTCCCAAAATTTACATCCAATTATGATCTGTTTTAACAA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
* * *
22474441 AAAATAAAAAAAATTCAACTTAAAATTATTTATAAGATTATAAAACC-TTTGAAAGCGAGTAACT
66 AAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTT-AAAGCTAGTAACT
* ** * *
22474505 AGTCTTTTAAAGGTATGAGTGACTATAAATGGACTTTTCTT
130 AGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * ** * * *
22474546 ATCAATGGTTGGTTTTCACTTCATATTTT-TCGAGGAAAACATCTAATTATGATCTGTTTTAA-T
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCT-AAGGTAAACATCCAATTATGATCTGTTTTAACT
* * * *
22474609 CAAAAATAAAAAAAAATT-AACTTAAAATCATTTATAAAATTATAAATCCATTTAAAG-TGTGTA
65 -AAAAAT-GAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCT-AGTA
* *
22474672 ACTAG-ATTTTCGAAGGCATGAGTGACTATAAATGGATTTTTCTT
127 ACTAGTA-TTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * * * *
22474716 ATCAATAGATGGTTTTCGCTTTACG-TTTCTTTAGGTTAACATCCAATTATGATATGTTTTAACT
1 ATCAATGGATGGCTTTCGCTTCACGTTTTC-TAAGGTAAACATCCAATTATGATCTGTTTTAACT
* * * * *
22474780 GAAAATGAAAAAAATTTAACTTAGAATCATTTATAAGATTATAAAACTATTTAAAGCTAGTAACA
65 AAAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAACT
* *
22474845 AGTATTTCGAAAGTATGAGTGACTATAAAATAGACTTTTCTT
130 AGTATTTCGAAGGCATGAGTGACTAT-AAATAGACTTTTCTT
* * * * *
22474887 ATCAATGGATGGTTTTCGCTTCACGTTTTCTGAGGTAAACATCCAATTATGATATGTTTTAGC-C
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
22474951 AAAATGAAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTT-AA-CATGAGT
66 AAAATG---AAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGC-T-AGT
* * * *
22475014 AATTAG-ACTTTCGAAGGTATGAGTGACTATAAATGGACTTGTCTT
126 AACTAGTA-TTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * *
22475059 GTCAATGGATGACTTTCGCTTCA--TATTTCTCAAGGCT--A-A-CCAATTATGATATGTTTTAA
1 ATCAATGGATGGCTTTCGCTTCACGT-TTTCT-AAGG-TAAACATCCAATTATGATCTGTTTTAA
* * * * *
22475118 C-AAAAGATGAAAAACAATTCAACTTAAAATCATATACAAGATTATAAAACTATTGAAAGCGAGT
63 CTAAAA-ATGAAAAA-AATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGT
* * * * * *
22475182 AACTAGTTTTTCAAATGCATAAGTGACTACAAAT-GAATTTTCTT
126 AACTAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * *
22475226 ATCAATAGATGGCTTTCGCTTCACATTTCTCT-AGATAAACATCCAATTATGATCTGTTTTGACT
1 ATCAATGGATGGCTTTCGCTTCACGTTT-TCTAAGGTAAACATCCAATTATGATCTGTTTTAACT
* * * * **
22475290 GAAAATGAAAAAAAATCAACATAAAATGATTTATAAGATTATAAATTCATTTCAAA--TAAGTAA
65 AAAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTT-AAAGCT-AGTAA
* * * * *
22475353 CAAGTTTTTCGAAGGCATGAGTAACTATAAGTGGACTTTTCTT
128 CTAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * * * * *
22475396 GTGAATAGATAGTTTTCGCTTCATGTTTTCTAAGGTAAACATTCAATTATGATCTGTTTTAA-T-
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
* * * * * *
22475459 CAAA--AAAAAAACTCAATTTAAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTA
66 AAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAACTA
* *
22475522 GTCTTTCGAAGGTATGAGTGA-TATAAATAGACTTTTCTT
131 GTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* ** * * * ** *
22475561 -TTAATGGATGGCTTTCATTTCATGTTTTTTGAGACAAACATCCAATTATGATCTGTTTTAATTA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
* * * * *
22475625 AAAATAAAAAAAATTCAAATTAAAATCATTTATAAGATTATATATCCATTTAAATCGT-GTAACT
66 AAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGC-TAGTAACT
* * * *
22475689 AGTTTTTTGAAGGCAT-ACATGACTATAAATAAACTTTTCTT
130 AGTATTTCGAAGGCATGA-GTGACTATAAATAGACTTTTCTT
* * * * * *
22475730 ATCAATTGATGGTTTTCACTTCACGTTTTTTTAGGTAAACATCCAATTATGATATGTTTTAA-TC
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACT-
* * *
22475794 AAAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCGAGTAA-
65 AAAAATG-AAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAAC
* *
22475858 TTGATATTTCGAAGGCATGAGTGACTATAAATAGA-TTTTTTT
129 TAG-TATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * *
22475900 AGTCAATGGATGGCTTTCGCTTCACGTGTTCCT-AGGCAAACATCCAATTATGATCTGTTTTAGC
1 A-TCAATGGATGGCTTTCGCTTCACGT-TTTCTAAGGTAAACATCCAATTATGATCTGTTTTAAC
* * *
22475964 CAAAAGTGAAAAAAAAGTTCAACTTAAAATCATTTATAAGATTATAAAACCATTT-AA-CATGGG
64 TAAAAATG-AAAAAAA-TTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGC-T-AG
* * * *
22476027 TAATTAAG-CTTTCGAAGGCATGAGTGAATATAAATGGACTTTTCTT
125 TAACT-AGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * * * * * *
22476073 ATCAATGGATGGTTTTTGTTTCACGTTTCCCAAGACT-AACATCCAATTATGATCTGTTTTGACA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAG-GTAAACATCCAATTATGATCTGTTTTAACT
* * * * *
22476137 AAAAATAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAATCATTGAAAACGAGTAACT
65 AAAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAACT
* * * *
22476202 AGTATTTCAAAAGCACGAGTGACTATAAATAGACTTTTTTT
130 AGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * *
22476243 AGT-AATGGATGGCTTTCGCTTCATG-TTTCTTGAGGCAAACATCCAATTATGATCTGTTTTAAC
1 A-TCAATGGATGGCTTTCGCTTCACGTTTTC-TAAGGTAAACATCCAATTATGATCTGTTTTAAC
** * * * * * *
22476306 CGAAAATGAAAAAAAATTCAACATAAAATTATTTATAAAATTATAAATCCATTTAAAACAAGTAA
64 TAAAAATG-AAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAA
* * * *
22476371 CTAGTTTTTCGAAGGTATGAGTGACTATCAATGGACTTTTCTT
128 CTAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
* * * * * *
22476414 GTCAATAGATGGCTTTCGCTTCACGTTTTCTAAAGCAAACATCCAATTATGATATGTTTTAGCTA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
* * *
22476479 AAAATGAAAAAAAATCAACTTAAAATCATATATAAGATTATAAAACCATTGAAAGCTAGTAACTA
66 AAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAACTA
* * * *
22476544 GTCTTCCGAAGGCATAAATGACTATAAAT-GAACTTTTCTT
131 GTATTTCGAAGGCATGAGTGACTATAAATAG-ACTTTTCTT
*
22476584 GTCAA
1 ATCAA
22476589 AAGATGACTT
Statistics
Matches: 1834, Mismatches: 298, Indels: 163
0.80 0.13 0.07
Matches are distributed among these distances:
164 50 0.03
165 20 0.01
166 66 0.04
167 36 0.02
168 136 0.07
169 137 0.07
170 694 0.38
171 438 0.24
172 177 0.10
173 79 0.04
174 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
ATCAATGGATGGCTTTCGCTTCACGTTTTCTAAGGTAAACATCCAATTATGATCTGTTTTAACTA
AAAATGAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCTAGTAACTA
GTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTT
Found at i:22475209 original size:341 final size:340
Alignment explanation
Indices: 22474205--22476588 Score: 2559
Period size: 341 Copynumber: 7.0 Consensus size: 340
22474195 TTAGGTAATG
* * * * * * * *
22474205 ATCAATGGATGGCTTTCGCTTCAC-ATTCCTCAAGGTAAACCTCTAATTATGATCTGTTTGAATA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCT-GAGGCAAACATCCAATTATGATCTGTTTTAA-C
* * *
22474269 AAAAATGAAAAAAAAA-TCAACTTAAATTCATTTATAAGATTATAAAAT-CATTTAACGTGAGTA
64 CAAAATGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTAT-AAATCCATTTAA-ATGAGTA
* ** * * * **
22474332 ATTA-AGTTTTTAAAGGCATTAGTGACTATAAATAGACTTGTCTTATCAATAGATGACTTTCGCT
127 ACTAGA-TTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCT
* *** * *
22474396 TCACGTTTCCCAAAATTTACATCCAATTATGATCTGTTTTAACAAAAAAT-AAAAAAAATTCAAC
191 TCACGTTTCTCAAGGCTAACATCCAATTATGATATGTTTTAAC-AAAAATGAAAAAAAATTCAAC
* * * *
22474460 TTAAAATTATTTATAAGATTATAAAACCT-TTGAAAGCGAGTAACTAGTCTTTTAAAGGTATGAG
255 TTAAAATCATTTATAAGATTATAAAA-CTATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAG
*
22474524 TGACTATAAATGGACTTTTCTT
319 TGACTATAAATAGACTTTTCTT
* * * ** * *
22474546 ATCAATGGTTGGTTTTCACTTCATATTTT-TCGAGGAAAACATCTAATTATGATCTGTTTTAATC
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCT-GAGGCAAACATCCAATTATGATCTGTTTTAA-C
* * *
22474610 AAAAAT-AAAAAAAAATT-AACTTAAAATCATTTATAAAATTATAAATCCATTTAAAGTGTGTAA
64 CAAAATGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAA-TGAGTAA
* *
22474673 CTAGATTTTCGAAGGCATGAGTGACTATAAATGGATTTTTCTTATCAATAGATGGTTTTCGCTTT
128 CTAGATTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTTC
** * * *
22474738 ACGTTTCTTTAGGTTAACATCCAATTATGATATGTTTTAACTGAAAATG-AAAAAAATTTAACTT
193 ACGTTTCTCAAGGCTAACATCCAATTATGATATGTTTTAAC-AAAAATGAAAAAAAATTCAACTT
* * * * *
22474802 AGAATCATTTATAAGATTATAAAACTATTTAAAGCTAGTAACAAGTATTTCGAAA-GTATGAGTG
257 AAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTATTTC-AAAGGCATGAGTG
22474866 ACTATAAAATAGACTTTTCTT
321 ACTAT-AAATAGACTTTTCTT
* * * *
22474887 ATCAATGGATGGTTTTCGCTTCACGTTTTCTGAGGTAAACATCCAATTATGATATGTTTTAGCCA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTGAGGCAAACATCCAATTATGATCTGTTTTAACCA
* *
22474952 AAATGAAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAACATGAGTAAT
66 AAATG-AAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTTAA-ATGAGTAAC
* * * * * **
22475017 TAGACTTTCGAAGGTATGAGTGACTATAAATGGACTTGTCTTGTCAATGGATGACTTTCGCTTCA
129 TAGATTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTTCA
** *
22475082 TATTTCTCAAGGCT-A-A-CCAATTATGATATGTTTTAACAAAAGATGAAAAACAATTCAACTTA
194 CGTTTCTCAAGGCTAACATCCAATTATGATATGTTTTAACAAAA-ATGAAAAAAAATTCAACTTA
* * * * *
22475144 AAATCATATACAAGATTATAAAACTATTGAAAGCGAGTAACTAGTTTTTCAAATGCATAAGTGAC
258 AAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAGTGAC
* *
22475209 TACAAAT-GAATTTTCTT
323 TATAAATAGACTTTTCTT
* * ** *
22475226 ATCAATAGATGGCTTTCGCTTCACATTTCTCT-AGATAAACATCCAATTATGATCTGTTTTGACT
1 ATCAATGGATGGCTTTCGCTTCACGTTT-TCTGAGGCAAACATCCAATTATGATCTGTTTTAAC-
* * * * *
22475290 GAAAATG-AAAAAAAA-TCAACATAAAATGATTTATAAGATTATAAATTCATTTCAAATAAGTAA
64 CAAAATGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTT-AAATGAGTAA
* * * * * * *
22475353 CAAGTTTTTCGAAGGCATGAGTAACTATAAGTGGACTTTTCTTGTGAATAGATAGTTTTCGCTTC
128 CTAGATTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTTC
* * * * *
22475418 ATGTTT-TCTAAGG-TAAACATTCAATTATGATCTGTTTTAATC---AA--AAAAAAAACTCAAT
193 ACGTTTCTC-AAGGCT-AACATCCAATTATGATATGTTTTAA-CAAAAATGAAAAAAAATTCAAC
* * *
22475476 TTAAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTCTTTCGAAGGTATGAGT
255 TTAAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAGT
22475541 GA-TATAAATAGACTTTTCTT
320 GACTATAAATAGACTTTTCTT
* ** * * * **
22475561 -TTAATGGATGGCTTTCATTTCATGTTTTTTGAGACAAACATCCAATTATGATCTGTTTTAATTA
1 ATCAATGGATGGCTTTCGCTTCACGTTTTCTGAGGCAAACATCCAATTATGATCTGTTTTAACCA
* * *
22475625 AAA--ATAAAAAAAATTCAAATTAAAATCATTTATAAGATTATATATCCATTTAAATCGTGTAAC
66 AAATGA-AAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAT-GAGTAAC
* * * ** * *
22475688 TAGTTTTTTGAAGGCAT-ACATGACTATAAATAAACTTTTCTTATCAATTGATGGTTTTCACTTC
129 TAGATTTTCGAAGGCATGA-GTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTTC
* ** *
22475752 ACGTTTTTTTAGG-TAAACATCCAATTATGATATGTTTTAATCAAAAATGAAAAAAAAATCAACT
193 ACGTTTCTCAAGGCT-AACATCCAATTATGATATGTTTTAA-CAAAAATGAAAAAAAATTCAACT
* * * * *
22475816 TAAAATCATTTATAAGATTATAAATCCATTTAAAGCGAGTAA-TTGATATTTCGAAGGCATGAGT
256 TAAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAG-TATTTCAAAGGCATGAGT
*
22475880 GACTATAAATAGA-TTTTTTT
320 GACTATAAATAGACTTTTCTT
* *
22475900 AGTCAATGGATGGCTTTCGCTTCACGTGTTCCT-AGGCAAACATCCAATTATGATCTGTTTTAGC
1 A-TCAATGGATGGCTTTCGCTTCACGT-TTTCTGAGGCAAACATCCAATTATGATCTGTTTTAAC
* * *
22475964 CAAAAGTGAAAAAAAAGTTCAACTTAAAATCATTTATAAGATTATAAAACCATTTAACATGGGTA
64 CAAAA-TGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTTAA-ATGAGTA
* * * * * *
22476029 ATTA-AGCTTTCGAAGGCATGAGTGAATATAAATGGACTTTTCTTATCAATGGATGGTTTTTGTT
127 ACTAGA-TTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCT
* * * *
22476093 TCACGTTTCCCAAGACTAACATCCAATTATGATCTGTTTTGACAAAAAAT-AAAAAAAATTCAAC
191 TCACGTTTCTCAAGGCTAACATCCAATTATGATATGTTTTAAC-AAAAATGAAAAAAAATTCAAC
* * *
22476157 TTAAAATCATTTATAAGATTATAAAA-TCATTGAAAACGAGTAACTAGTATTTCAAAAGCACGAG
255 TTAAAATCATTTATAAGATTATAAAACT-ATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAG
*
22476221 TGACTATAAATAGACTTTTTTT
319 TGACTATAAATAGACTTTTCTT
*
22476243 AGT-AATGGATGGCTTTCGCTTCATG-TTTCTTGAGGCAAACATCCAATTATGATCTGTTTTAAC
1 A-TCAATGGATGGCTTTCGCTTCACGTTTTC-TGAGGCAAACATCCAATTATGATCTGTTTTAAC
* * * **
22476306 CGAAAATG-AAAAAAAATTCAACATAAAATTATTTATAAAATTATAAATCCATTTAAAACAAGTA
64 C-AAAATGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTT-AAATGAGTA
* * * * *
22476370 ACTAGTTTTTCGAAGGTATGAGTGACTATCAATGGACTTTTCTTGTCAATAGATGGCTTTCGCTT
127 ACTAGATTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTT
* * *
22476435 CACGTTT-TCTAAAGCAAACATCCAATTATGATATGTTTTAGCTAAAAATGAAAAAAAA-TCAAC
192 CACGTTTCTC-AAGGCTAACATCCAATTATGATATGTTTTAAC-AAAAATGAAAAAAAATTCAAC
* * * * * * * *
22476498 TTAAAATCATATATAAGATTATAAAACCATTGAAAGCTAGTAACTAGTCTTCCGAAGGCATAAAT
255 TTAAAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAGT
22476563 GACTATAAAT-GAACTTTTCTT
320 GACTATAAATAG-ACTTTTCTT
*
22476584 GTCAA
1 ATCAA
22476589 AAGATGACTT
Statistics
Matches: 1723, Mismatches: 255, Indels: 130
0.82 0.12 0.06
Matches are distributed among these distances:
333 19 0.01
334 177 0.10
335 81 0.05
336 3 0.00
337 104 0.06
338 14 0.01
339 147 0.09
340 286 0.17
341 466 0.27
342 162 0.09
343 258 0.15
344 6 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (340 bp):
ATCAATGGATGGCTTTCGCTTCACGTTTTCTGAGGCAAACATCCAATTATGATCTGTTTTAACCA
AAATGAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAATGAGTAACTA
GATTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTATCAATAGATGGTTTTCGCTTCACG
TTTCTCAAGGCTAACATCCAATTATGATATGTTTTAACAAAAATGAAAAAAAATTCAACTTAAAA
TCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTATTTCAAAGGCATGAGTGACTAT
AAATAGACTTTTCTT
Found at i:22476202 original size:513 final size:512
Alignment explanation
Indices: 22474205--22476588 Score: 2594
Period size: 513 Copynumber: 4.7 Consensus size: 512
22474195 TTAGGTAATG
* * * ** * * * **
22474205 ATCAATGGATGGCTTTCGCTTCACATTCCTCAAGGTAAACCTCTAATTATGATCTGTTTGAATAA
1 ATCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAA-CG
* * **
22474270 AAAATGAAAAAAAAATCAACTTAAATTCATTTATAAGATTATAAAAT-CATTTAACGTGAGTAAT
65 AAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTAT-AAATCCATTTAAAGCAAGTAA-
** * * *
22474334 TAAGT-TTTTAAAGGCATTAGTGACTATAAATAGACTTGTCTTA-TCAATAGATGACTTTCGCTT
128 TAAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTT
* * ***** * *
22474397 CACGTTTCCCAAAATTTACATCCAATTATGATCTGTTTTAACAAAAAAT-AAAAAAAATTCAACT
193 CACGTTTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGC-CAAAATGAAAAAAAATTCAACT
* **
22474461 TAAAATTATTTATAAGATTATAAAACC-TTTGAAAGCGAGTAACTAGTCTTTTAAAGGTATGAGT
257 TAAAATCATTTATAAGATTATAAAACCATTT-AAAGCGAGTAACTAGTCTTTCGAAGGTATGAGT
* * * * * * *
22474525 GACTATAAATGGACTTTTCTTATCAATGGTTGGTTTTCACTTCATATTTTTCGAGGA-AAACATC
321 GAATATAAATGGACTTTTCTTATCAATGGATGGCTTTCACTTCAT-GTTTCCCAAGACAAACATC
* *
22474589 TAATTATGATCTGTTTTAATC-AAAAATAAAAAAAAATT-AACTTAAAATCATTTATAAAATTAT
385 CAATTATGATCTGTTTTAA-CAAAAAATAAAAAAAAATTCAACTTAAAATCATTTATAAGATTAT
* * * * * * ** *
22474652 AAATCCATTTAAAGTGTGTAACTAGATTTTCGAAGGCATGAGTGACTATAAATGGATTTTTCTT
449 AAATCCATTGAAAGCGAGTAACTAGTTTTTCAAAGGCATAAGTGACTATAAATAAACTTTTCTT
* * * *
22474716 ATCAATAGATGGTTTTCGCTTTACGTTTCTTTAGGTTAACATCCAATTATGATATGTTTTAACTG
1 ATCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAAC-G
* * * * * * *
22474781 AAAATG-AAAAAAATTTAACTTAGAATCATTTATAAGATTATAAAACTATTTAAAGCTAGTAACA
65 AAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCAAGTAATA
* * * *
22474845 AGTATTTCGAAAGTATGAGTGACTATAAAATAGACTTTTCTTA-TCAATGGATGGTTTTCGCTTC
130 AGTATTTCGAAGGCATGAGTGACTAT-AAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTTC
* * *
22474909 ACGTTTTCTGAGGTAAACATCCAATTATGATATGTTTTAGCCAAAATGAAAAAAAAAATTCAACT
194 ACGTTTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGCCAAAATG--AAAAAAAATTCAACT
* * *
22474974 TAAAATCATTTATAAGATTATAAAACCATTTAACA-TGAGTAATTAGACTTTCGAAGGTATGAGT
257 TAAAATCATTTATAAGATTATAAAACCATTTAA-AGCGAGTAACTAGTCTTTCGAAGGTATGAGT
* * * * * * * * *
22475038 GACTATAAATGGACTTGTCTTGTCAATGGATGACTTTCGCTTCATATTTCTCAAGGC-TA-A-CC
321 GAATATAAATGGACTTTTCTTATCAATGGATGGCTTTCACTTCATGTTTCCCAAGACAAACATCC
* * * * * *
22475100 AATTATGATATGTTTTAACAAAAGATGAAAAACAATTCAACTTAAAATCATATACAAGATTATAA
386 AATTATGATCTGTTTTAACAAAAAATAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAA
* * * * *
22475165 AACTATTGAAAGCGAGTAACTAGTTTTTCAAATGCATAAGTGACTACAAATGAA-TTTTCTT
451 ATCCATTGAAAGCGAGTAACTAGTTTTTCAAAGGCATAAGTGACTATAAATAAACTTTTCTT
* * * *
22475226 ATCAATAGATGGCTTTCGCTTCACATTTCTCTAGATAAACATCCAATTATGATCTGTTTTGACTG
1 ATCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAAC-G
* * * * *
22475291 AAAATG-AAAAAAAATCAACATAAAATGATTTATAAGATTATAAATTCATTTCAAA-TAAGTAAC
65 AAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTT-AAAGCAAGTAAT
* * * * * * *
22475354 AAGTTTTTCGAAGGCATGAGTAACTATAAGTGGACTTTTCTT-GTGAATAGATAGTTTTCGCTTC
129 AAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTTC
* * * ** * *
22475418 ATGTTTTCTAAGGTAAACATTCAATTATGATCTGTTTTAATC--AA--AAAAAAAACTCAATTTA
194 ACGTTTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGCCAAAATGAAAAAAAATTCAACTTA
* *
22475479 AAATCATTTATAAGATTATAAAACTATTGAAAGCGAGTAACTAGTCTTTCGAAGGTATGAGTG-A
259 AAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGTCTTTCGAAGGTATGAGTGAA
* * * ****
22475543 TATAAATAGACTTTTCTT-TTAATGGATGGCTTTCATTTCATGTTTTTTGAGACAAACATCCAAT
324 TATAAATGGACTTTTCTTATCAATGGATGGCTTTCACTTCATGTTTCCCAAGACAAACATCCAAT
** * *
22475607 TATGATCTGTTTTAATTAAAAAT-AAAAAAAATTCAAATTAAAATCATTTATAAGATTATATATC
389 TATGATCTGTTTTAACAAAAAATAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATC
* * * **
22475671 CATTTAAATCGTGTAACTAGTTTTTTGAAGGCATACA-TGACTATAAATAAACTTTTCTT
454 CATTGAAAGCGAGTAACTAGTTTTTCAAAGGCATA-AGTGACTATAAATAAACTTTTCTT
* * * * * *
22475730 ATCAATTGATGGTTTTCACTTCACGTTTTTTTAGGTAAACATCCAATTATGATATGTTTTAATCA
1 ATCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAA-CG
*
22475795 AAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCGAGTAAT-
65 AAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCAAGTAATA
* * *
22475859 TGATATTTCGAAGGCATGAGTGACTATAAATAGA-TTTTTTTAGTCAATGGATGGCTTTCGCTTC
130 AG-TATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTTC
*
22475923 ACGTGTTCCT-AGGCAAACATCCAATTATGATCTGTTTTAGCCAAAAGTGAAAAAAAAGTTCAAC
194 ACGT-TTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGCCAAAA-TGAAAAAAAA-TTCAAC
* *
22475987 TTAAAATCATTTATAAGATTATAAAACCATTTAACATG-G-GTAATTAAG-CTTTCGAAGGCATG
256 TTAAAATCATTTATAAGATTATAAAACCATTTAA-A-GCGAGTAACT-AGTCTTTCGAAGGTATG
* *** * *
22476049 AGTGAATATAAATGGACTTTTCTTATCAATGGATGGTTTTTGTTTCACGTTTCCCAAGACTAACA
318 AGTGAATATAAATGGACTTTTCTTATCAATGGATGGCTTTCACTTCATGTTTCCCAAGACAAACA
*
22476114 TCCAATTATGATCTGTTTTGACAAAAAAT-AAAAAAAATTCAACTTAAAATCATTTATAAGATTA
383 TCCAATTATGATCTGTTTTAACAAAAAATAAAAAAAAATTCAACTTAAAATCATTTATAAGATTA
* * * ** * *
22476178 TAAAAT-CATTGAAAACGAGTAACTAGTATTTCAAAAGCACGAGTGACTATAAATAGACTTTTTT
448 T-AAATCCATTGAAAGCGAGTAACTAGTTTTTCAAAGGCATAAGTGACTATAAATAAACTTTTCT
22476242 T
512 T
* * * *
22476243 AGT-AATGGATGGCTTTCGCTTCATGTTTCTTGAGGCAAACATCCAATTATGATCTGTTTTAACC
1 A-TCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAA-C
* * * * *
22476307 GAAAATGAAAAAAAATTCAACATAAAATTATTTATAAAATTATAAATCCATTTAAAACAAGTAAC
64 GAAAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCAAGTAA-
* * * *
22476372 T-AGTTTTTCGAAGGTATGAGTGACTATCAATGGACTTTTCTT-GTCAATAGATGGCTTTCGCTT
128 TAAGTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTT
* * *
22476435 CACGTTTTCTAAAGCAAACATCCAATTATGATATGTTTTAGCTAAAAATGAAAAAAAA-TCAACT
193 CACGTTTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGC-CAAAATGAAAAAAAATTCAACT
* * * * * * *
22476499 TAAAATCATATATAAGATTATAAAACCATTGAAAGCTAGTAACTAGTCTTCCGAAGGCATAAATG
257 TAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGTCTTTCGAAGGTATGAGTG
* * *
22476564 ACTATAAATGAACTTTTCTTGTCAA
322 AATATAAATGGACTTTTCTTATCAA
22476589 AAGATGACTT
Statistics
Matches: 1571, Mismatches: 255, Indels: 94
0.82 0.13 0.05
Matches are distributed among these distances:
501 26 0.02
502 18 0.01
503 147 0.09
504 101 0.06
505 124 0.08
506 4 0.00
507 4 0.00
509 76 0.05
510 244 0.16
511 329 0.21
512 33 0.02
513 445 0.28
514 20 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (512 bp):
ATCAATAGATGGCTTTCGCTTCACGTTTCTTTAGGTAAACATCCAATTATGATCTGTTTTAACGA
AAATGAAAAAAAAATCAACTTAAAATCATTTATAAGATTATAAATCCATTTAAAGCAAGTAATAA
GTATTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTAGTCAATAGATGGCTTTCGCTTCAC
GTTTTCTAAGGCAAACATCCAATTATGATCTGTTTTAGCCAAAATGAAAAAAAATTCAACTTAAA
ATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGTCTTTCGAAGGTATGAGTGAATA
TAAATGGACTTTTCTTATCAATGGATGGCTTTCACTTCATGTTTCCCAAGACAAACATCCAATTA
TGATCTGTTTTAACAAAAAATAAAAAAAAATTCAACTTAAAATCATTTATAAGATTATAAATCCA
TTGAAAGCGAGTAACTAGTTTTTCAAAGGCATAAGTGACTATAAATAAACTTTTCTT
Found at i:22479749 original size:49 final size:49
Alignment explanation
Indices: 22479656--22479749 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
22479646 GCTGGTGGAG
* * * *
22479656 ACGGCTGCAGTTGCAACTGTGACCGCCGTAAGTAGTGTCGTTGGTGCAA
1 ACGGCGGCAGTTGCAACTGTGACCACCGTAAGTAGGGTCATTGGTGCAA
* *
22479705 ACGGCGGCAGTTGCTA-TGGTGACCACCGTAAGTTGGGTCATTGGT
1 ACGGCGGCAGTTGCAACT-GTGACCACCGTAAGTAGGGTCATTGGT
22479750 TATTGGTGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.03
49 37 0.97
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (49 bp):
ACGGCGGCAGTTGCAACTGTGACCACCGTAAGTAGGGTCATTGGTGCAA
Found at i:22486500 original size:17 final size:17
Alignment explanation
Indices: 22486478--22486510 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22486468 AGTTTTCAAG
*
22486478 TTCTATCTAATTAGAAC
1 TTCTATCCAATTAGAAC
22486495 TTCTATCCAATTAGAA
1 TTCTATCCAATTAGAA
22486511 ATGCTGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
TTCTATCCAATTAGAAC
Found at i:22486630 original size:21 final size:21
Alignment explanation
Indices: 22486604--22486657 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
22486594 TTTGATAAGG
*
22486604 CATTGCGTGACTGACTTTTGA
1 CATTGCGTGACTGACTTTGGA
22486625 CATTGCGTGACTGACTTTGGA
1 CATTGCGTGACTGACTTTGGA
*
22486646 TATTGCGTGACT
1 CATTGCGTGACT
22486658 AGTTTTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (21 bp):
CATTGCGTGACTGACTTTGGA
Found at i:22486687 original size:26 final size:26
Alignment explanation
Indices: 22486647--22486971 Score: 233
Period size: 26 Copynumber: 13.6 Consensus size: 26
22486637 GACTTTGGAT
*
22486647 ATTGCGTGACTAGTTTTTGATAAGTC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* * **
22486673 ATTCCGTGACTAGTTTCTGATAAAAC
1 ATTGCGTGACTAGTTTTTGATAAGGC
22486699 ATTGCGTGACTAG---TTGAT-AGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
**
22486721 ATTGCGTGACTA-ACTTTG----GGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
22486742 ATTGCGTGACTAGTTTTTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* *
22486768 ATTGCGTGACTAGTTTCTGATAAGGT
1 ATTGCGTGACTAGTTTTTGATAAGGC
**
22486794 ATTGCGTGA--A-TAATTGAT-AGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* **
22486816 ATTACGTGACTA-ACTTTG---A-GC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* *
22486837 A-TGACGTGATTAGTTTTTAATAAGGC
1 ATTG-CGTGACTAGTTTTTGATAAGGC
*
22486863 ATTGCGTGACTAGTTTCTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
*
22486889 ATTGCGTGACTAG---TTGAT-AGGT
1 ATTGCGTGACTAGTTTTTGATAAGGC
*
22486911 ATTGCGTGAC---TTATT-ATTAAGGC
1 ATTGCGTGACTAGTTTTTGA-TAAGGC
* *
22486934 ATTGCGTGACT--TGTTAG-TAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
22486957 ATTGCGTGACTAGTT
1 ATTGCGTGACTAGTT
22486972 AGTAAAGAAT
Statistics
Matches: 238, Mismatches: 35, Indels: 53
0.73 0.11 0.16
Matches are distributed among these distances:
20 1 0.00
21 26 0.11
22 49 0.21
23 43 0.18
24 10 0.04
25 2 0.01
26 105 0.44
27 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (26 bp):
ATTGCGTGACTAGTTTTTGATAAGGC
Found at i:22486758 original size:95 final size:95
Alignment explanation
Indices: 22486591--22486971 Score: 468
Period size: 95 Copynumber: 4.0 Consensus size: 95
22486581 TTTGTGCTTG
* * * * * **
22486591 GTTTTTGATAAGGCATTGCGTGACTGACTT--TTGACATTGCGTGACTGACTTTGGATATTGCGT
1 GTTTCTGATAAGGCATTGCGTGACT-AGTTGATAGGCATTGCGTGACTAACTTTGGGCATTGCGT
* *
22486654 GACTAGTTTTTGATAAGTCATTCCGTGACTA
65 GACTAGTTTTTGATAAGGCATTGCGTGACTA
**
22486685 GTTTCTGATAAAACATTGCGTGACTAGTTGATAGGCATTGCGTGACTAACTTTGGGCATTGCGTG
1 GTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTGCGTGACTAACTTTGGGCATTGCGTG
22486750 ACTAGTTTTTGATAAGGCATTGCGTGACTA
66 ACTAGTTTTTGATAAGGCATTGCGTGACTA
* * * * *
22486780 GTTTCTGATAAGGTATTGCGTGAATAATTGATAGGCATTACGTGACTAACTTTGAGCA-TGACGT
1 GTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTGCGTGACTAACTTTGGGCATTG-CGT
* *
22486844 GATTAGTTTTTAATAAGGCATTGCGTGACTA
65 GACTAGTTTTTGATAAGGCATTGCGTGACTA
* * * *
22486875 GTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGTATTGCGTGACTTATTATTAAGGCATTGCG
1 GTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTGCGTGACTAACT-TT-GGGCATTGCG
* *
22486940 TGACT--TGTTAG-TAAGGCATTGCGTGACTA
64 TGACTAGTTTTTGATAAGGCATTGCGTGACTA
22486969 GTT
1 GTT
22486972 AGTAAAGAAT
Statistics
Matches: 248, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
93 3 0.01
94 45 0.18
95 187 0.75
96 2 0.01
97 9 0.04
98 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (95 bp):
GTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTGCGTGACTAACTTTGGGCATTGCGTG
ACTAGTTTTTGATAAGGCATTGCGTGACTA
Found at i:22486941 original size:23 final size:24
Alignment explanation
Indices: 22486857--22486972 Score: 120
Period size: 23 Copynumber: 5.0 Consensus size: 24
22486847 TAGTTTTTAA
*
22486857 TAAGGCATTGCGTGAC-TAGTTTCT
1 TAAGGCATTGCGTGACTTAG-TTAT
22486881 GATAAGGCATTGCGTGAC-TAGTTGA-
1 --TAAGGCATTGCGTGACTTAGTT-AT
*
22486906 T-AGGTATTGCGTGACTTA-TTAT
1 TAAGGCATTGCGTGACTTAGTTAT
*
22486928 TAAGGCATTGCGTGACTT-GTTAG
1 TAAGGCATTGCGTGACTTAGTTAT
22486951 TAAGGCATTGCGTGAC-TAGTTA
1 TAAGGCATTGCGTGACTTAGTTA
22486973 GTAAAGAATG
Statistics
Matches: 80, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 41 0.51
25 2 0.03
26 19 0.24
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (24 bp):
TAAGGCATTGCGTGACTTAGTTAT
Found at i:22490013 original size:13 final size:13
Alignment explanation
Indices: 22489995--22490019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22489985 ATTTTCAAAA
22489995 ATTTTATAAAATT
1 ATTTTATAAAATT
22490008 ATTTTATAAAAT
1 ATTTTATAAAAT
22490020 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:22493003 original size:15 final size:15
Alignment explanation
Indices: 22492983--22493028 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
22492973 TTCTTAAAAC
22492983 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
22492998 AACTTTAAAATCC-AT
1 AACTTTAAAA-CCAAA
*
22493013 ATCTTTAAAACCAAA
1 AACTTTAAAACCAAA
22493028 A
1 A
22493029 TATTTGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:22497075 original size:27 final size:27
Alignment explanation
Indices: 22497045--22497098 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22497035 ATTTTGTCGT
22497045 CAAATTGCAATATGACCATTTTGCCCC
1 CAAATTGCAATATGACCATTTTGCCCC
22497072 CAAATTGCAATATGACCATTTTGCCCC
1 CAAATTGCAATATGACCATTTTGCCCC
22497099 ATAACCGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (27 bp):
CAAATTGCAATATGACCATTTTGCCCC
Found at i:22499514 original size:15 final size:15
Alignment explanation
Indices: 22499492--22499552 Score: 86
Period size: 15 Copynumber: 4.1 Consensus size: 15
22499482 TGTTATATTC
*
22499492 CCTGCAATCACATTG
1 CCTGCAATCACATTA
*
22499507 CTTGCAATCACATTA
1 CCTGCAATCACATTA
*
22499522 CCTGCAATCATATTA
1 CCTGCAATCACATTA
*
22499537 CCTGTAATCACATTA
1 CCTGCAATCACATTA
22499552 C
1 C
22499553 ATTGTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:22507714 original size:43 final size:43
Alignment explanation
Indices: 22507619--22507786 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
22507609 CCTGCCACAC
*
22507619 TCAGCTCATGTGCACTCCCTACACGCACA-ATG-C-AAT-ATCA
1 TCAGCTCATGTGCACTCCCTACACGCACATA-GCCGAGTCATCA
*
22507659 TCA--TCATGTGCACTCCCTACTCGCACATAGCCGAGTCATCA
1 TCAGCTCATGTGCACTCCCTACACGCACATAGCCGAGTCATCA
* *
22507700 TCAGCTCATGTGCACTCCC-ACACTGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACAC-GCACATAGCCGAGTCATCA
* * * *
22507743 TCAGCTCATGTGCACTCTC-ACACCACACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACA-CGCACATAGCCGAGTCATCA
22507786 T
1 T
22507787 TATCACACAA
Statistics
Matches: 113, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
38 24 0.21
39 2 0.02
40 5 0.04
41 7 0.06
42 3 0.03
43 71 0.63
44 1 0.01
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCTACACGCACATAGCCGAGTCATCA
Found at i:22526496 original size:5 final size:5
Alignment explanation
Indices: 22526490--22526519 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22526480 CTATTCAACC
*
22526490 TAACC TAACT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT
22526520 AGGGGCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
TAACT
Found at i:22526579 original size:22 final size:22
Alignment explanation
Indices: 22526554--22526597 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22526544 TTCAAAACGA
* *
22526554 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
22526576 CTTTAAAACCAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
22526598 ACCAATCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:22543118 original size:3 final size:3
Alignment explanation
Indices: 22543110--22543135 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22543100 AAAGGTAACT
22543110 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
22543136 TTTTCCTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:22549624 original size:16 final size:17
Alignment explanation
Indices: 22549603--22549634 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22549593 TTTTGTTATT
22549603 TTTAG-TTATTTTTCTA
1 TTTAGTTTATTTTTCTA
22549619 TTTAGTTTATTTTTCT
1 TTTAGTTTATTTTTCT
22549635 TAAGTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTAGTTTATTTTTCTA
Found at i:22569865 original size:93 final size:93
Alignment explanation
Indices: 22569713--22569889 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
22569703 TCAATCTTAC
* * * * * *
22569713 AATAAAATATGTAATAACTCAATATCTCTCAAGACTTTATCTTTAGCTAGTGGATATGC-ACCAC
1 AATAAAATATATAATAACTCAATATCTCACAAAACCTCATCTTTAGCTAGTGGAAATGCAACC-C
* *
22569777 TTTATATTAGTTACATTTAATTCTTGAAA
65 TTTACATTAATTACATTTAATTCTTGAAA
* * * * *
22569806 AATAGAATATATAATAAGTCAATCTCTCACAAAACCTCATCTTTAGTTAGCT-GAAATGCAACCT
1 AATAAAATATATAATAACTCAATATCTCACAAAACCTCATCTTTAGCTAG-TGGAAATGCAACCC
22569870 TTTACATTAATTACATTTAA
65 TTTACATTAATTACATTTAA
22569890 CACTAAAAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
93 65 0.94
94 4 0.06
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (93 bp):
AATAAAATATATAATAACTCAATATCTCACAAAACCTCATCTTTAGCTAGTGGAAATGCAACCCT
TTACATTAATTACATTTAATTCTTGAAA
Found at i:22570457 original size:14 final size:14
Alignment explanation
Indices: 22570440--22570471 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22570430 TTATTATTCA
22570440 TTTTTCTCTTAACT
1 TTTTTCTCTTAACT
*
22570454 TTTTTCTCTTACCT
1 TTTTTCTCTTAACT
22570468 TTTT
1 TTTT
22570472 GTCATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCTCTTAACT
Found at i:22570598 original size:74 final size:74
Alignment explanation
Indices: 22570477--22570625 Score: 210
Period size: 74 Copynumber: 2.0 Consensus size: 74
22570467 TTTTTGTCAT
* * * *
22570477 AAATTTTAGATGCTAAGGTAGGCTTGAAATGGGGTATTATAGTAATATCAAATTTTATAAATGTT
1 AAATTTTAGATGATAAGATAGACTTGAAATGGGGTATTATAATAATATCAAATTTTATAAATGTT
22570542 TAAGAGAAA
66 TAAGAGAAA
* ***
22570551 AAATTTTAGATGATAAGATATACTTGAAATGGGGTATT-TCAATAATATCAAATTTTATGCGTGT
1 AAATTTTAGATGATAAGATAGACTTGAAATGGGGTATTAT-AATAATATCAAATTTTATAAATGT
22570615 TTAAGAGAAA
65 TTAAGAGAAA
22570625 A
1 A
22570626 TATATTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
73 1 0.02
74 65 0.98
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.36
Consensus pattern (74 bp):
AAATTTTAGATGATAAGATAGACTTGAAATGGGGTATTATAATAATATCAAATTTTATAAATGTT
TAAGAGAAA
Found at i:22572061 original size:20 final size:21
Alignment explanation
Indices: 22572027--22572069 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
22572017 CCTCAACGTC
22572027 ATATTCTTCCTTCTTCTCAAA
1 ATATTCTTCCTTCTTCTCAAA
22572048 ATATTCTT-CTTCTTCTCAAA
1 ATATTCTTCCTTCTTCTCAAA
22572068 AT
1 AT
22572070 TTATAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTCTTCCTTCTTCTCAAA
Found at i:22576144 original size:10 final size:10
Alignment explanation
Indices: 22576116--22576144 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
22576106 TAAATCCATT
22576116 TTTCATAAAA
1 TTTCATAAAA
22576126 TTT-ATAAAA
1 TTTCATAAAA
22576135 TTTCATAAAA
1 TTTCATAAAA
22576145 ACTACCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTCATAAAA
Found at i:22577220 original size:29 final size:30
Alignment explanation
Indices: 22577183--22577241 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22577173 TTTGGTAGAG
*
22577183 CAAA-TTTTTCAAAATTACACTTTTGCCCC
1 CAAACTTTTTAAAAATTACACTTTTGCCCC
*
22577212 CAAACTTTTTAAAAATTACATTTTTGCCCC
1 CAAACTTTTTAAAAATTACACTTTTGCCCC
22577242 AAAAATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
CAAACTTTTTAAAAATTACACTTTTGCCCC
Found at i:22578619 original size:20 final size:19
Alignment explanation
Indices: 22578575--22578621 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
22578565 GTTCTAGACC
22578575 AAATGTATCGATACATTTT
1 AAATGTATCGATACATTTT
22578594 AGAATGTATCGATACATTTT
1 A-AATGTATCGATACATTTT
22578614 GAAATGTA
1 -AAATGTA
22578622 CCAAAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (19 bp):
AAATGTATCGATACATTTT
Found at i:22578648 original size:21 final size:21
Alignment explanation
Indices: 22578624--22578665 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22578614 GAAATGTACC
22578624 AAAATGTATCGAAACATTTTG
1 AAAATGTATCGAAACATTTTG
* *
22578645 AAAATGTATCTATACATTTTG
1 AAAATGTATCGAAACATTTTG
22578666 GGCATAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAATGTATCGAAACATTTTG
Found at i:22578845 original size:21 final size:21
Alignment explanation
Indices: 22578821--22578885 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
22578811 AAACTAATTT
22578821 AAACAAGTTTAAAAACCATTC
1 AAACAAGTTTAAAAACCATTC
** *
22578842 AAACAAGTCCAAAAATCATTC
1 AAACAAGTTTAAAAACCATTC
* *
22578863 AAGCAA-TTTCAAAACTCATTC
1 AAACAAGTTTAAAAAC-CATTC
22578884 AA
1 AA
22578886 GTAATTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACAAGTTTAAAAACCATTC
Found at i:22578886 original size:21 final size:21
Alignment explanation
Indices: 22578832--22578899 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
22578822 AACAAGTTTA
* * *
22578832 AAAAC-CATTCAAACAAGTCC
1 AAAACTCATTCAAGCAATTTC
*
22578852 AAAAATCATTCAAGCAATTTC
1 AAAACTCATTCAAGCAATTTC
* *
22578873 AAAACTCATTCAAGTAATTTT
1 AAAACTCATTCAAGCAATTTC
22578894 AAAACT
1 AAAACT
22578900 TTTCACATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 4 0.10
21 36 0.90
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAACTCATTCAAGCAATTTC
Found at i:22578954 original size:22 final size:22
Alignment explanation
Indices: 22578927--22579007 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 22
22578917 TAGGGTCTTC
* *
22578927 AAAACTTAATT-AAACAAGTTTA
1 AAAACTT-ATTCAAACAAGGTCA
22578949 AAAAC-TATTCAAACAAGGTCA
1 AAAACTTATTCAAACAAGGTCA
* **
22578970 AAAACTCATTCAAACAACTTCA
1 AAAACTTATTCAAACAAGGTCA
*
22578992 AAAA-TCATTCAAACAA
1 AAAACTTATTCAAACAA
22579008 TTTCAAAGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.06
21 27 0.52
22 22 0.42
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.23
Consensus pattern (22 bp):
AAAACTTATTCAAACAAGGTCA
Found at i:22578962 original size:21 final size:22
Alignment explanation
Indices: 22578938--22579024 Score: 108
Period size: 21 Copynumber: 4.1 Consensus size: 22
22578928 AAACTTAATT
*
22578938 AAACAAGTTTAAAAACT-ATTC
1 AAACAAGTTCAAAAACTCATTC
*
22578959 AAACAAGGTCAAAAACTCATTC
1 AAACAAGTTCAAAAACTCATTC
*
22578981 AAACAACTTCAAAAA-TCATTC
1 AAACAAGTTCAAAAACTCATTC
* *
22579002 AAACAATTTCAAAGA-TCATTC
1 AAACAAGTTCAAAAACTCATTC
22579023 AA
1 AA
22579025 GTCATTTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 42 0.71
22 17 0.29
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.24
Consensus pattern (22 bp):
AAACAAGTTCAAAAACTCATTC
Found at i:22579004 original size:11 final size:11
Alignment explanation
Indices: 22578967--22579024 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 11
22578957 TCAAACAAGG
22578967 TCAAAAACTCAT
1 TCAAAAA-TCAT
22578979 TCAAACAA-C-T
1 TCAAA-AATCAT
22578989 TCAAAAATCAT
1 TCAAAAATCAT
22579000 TCAAACAAT--T
1 TCAAA-AATCAT
*
22579010 TCAAAGATCAT
1 TCAAAAATCAT
22579021 TCAA
1 TCAA
22579025 GTCATTTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
9 4 0.10
10 13 0.33
11 12 0.31
12 8 0.21
13 2 0.05
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (11 bp):
TCAAAAATCAT
Found at i:22579014 original size:43 final size:42
Alignment explanation
Indices: 22578938--22579024 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 42
22578928 AAACTTAATT
* *
22578938 AAACAAGTTTAAAAACTATTCAAACAAGGTCAAAAACTCATTC
1 AAACAACTTCAAAAACTATTCAAACAAGGTCAAAAA-TCATTC
** *
22578981 AAACAACTTCAAAAA-TCATTCAAACAATTTCAAAGATCATTC
1 AAACAACTTCAAAAACT-ATTCAAACAAGGTCAAAAATCATTC
22579023 AA
1 AA
22579025 GTCATTTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 9 0.24
43 29 0.76
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.24
Consensus pattern (42 bp):
AAACAACTTCAAAAACTATTCAAACAAGGTCAAAAATCATTC
Found at i:22579159 original size:21 final size:21
Alignment explanation
Indices: 22579117--22579182 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
22579107 TCCAAACCAT
* * *
22579117 ATTCAATCAACTTCAAAAATC
1 ATTCAAACAAGTTCAAAGATC
*
22579138 ATTCAAACAAGTTCAAGGATC
1 ATTCAAACAAGTTCAAAGATC
22579159 ACTT-AAACAAGTTCAAAGATC
1 A-TTCAAACAAGTTCAAAGATC
22579180 ATT
1 ATT
22579183 GAAGCAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (21 bp):
ATTCAAACAAGTTCAAAGATC
Found at i:22579884 original size:22 final size:21
Alignment explanation
Indices: 22579859--22579913 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
22579849 TGCGTCTTTG
22579859 GTTTTTAGGCATTGCATGACTA
1 GTTTTTAGGCATTGCATGA-TA
* *
22579881 GTTTTGAGGCATTGCATGATT
1 GTTTTTAGGCATTGCATGATA
22579902 GATTTTTAGGCA
1 G-TTTTTAGGCA
22579914 ATGCCTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (21 bp):
GTTTTTAGGCATTGCATGATA
Found at i:22579953 original size:23 final size:23
Alignment explanation
Indices: 22579921--22579981 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
22579911 GCAATGCCTA
*
22579921 AGTCATGCAATGCCTTAG-TAACT
1 AGTCATGCAATGCCTT-GCTAAAT
*
22579944 AGTCACGCAATGCCTTGCTAAAT
1 AGTCATGCAATGCCTTGCTAAAT
*
22579967 AGACATGCAATGCCT
1 AGTCATGCAATGCCT
22579982 ATCAATCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (23 bp):
AGTCATGCAATGCCTTGCTAAAT
Found at i:22580022 original size:23 final size:22
Alignment explanation
Indices: 22579921--22580027 Score: 74
Period size: 23 Copynumber: 4.7 Consensus size: 22
22579911 GCAATGCCTA
*
22579921 AGTCATGCAATGCCTTAGT-AACT
1 AGTCATGCAATGCC-TA-TCAACC
* **
22579944 AGTCACGCAATGCCT-TGCTAAAT
1 AGTCATGCAATGCCTAT-C-AACC
* *
22579967 AGACATGCAATGCCTATCAATC
1 AGTCATGCAATGCCTATCAACC
**
22579989 AGTCACACAATGCCATATCAACC
1 AGTCATGCAATGCC-TATCAACC
*
22580012 AGTCATGCAATACCTA
1 AGTCATGCAATGCCTA
22580028 AAAATTAGTC
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
20 1 0.02
22 16 0.24
23 48 0.73
24 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (22 bp):
AGTCATGCAATGCCTATCAACC
Found at i:22580051 original size:22 final size:22
Alignment explanation
Indices: 22580012--22580080 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
22580002 CATATCAACC
* *
22580012 AGTCATGCAATACCTAAAAATT
1 AGTCATGCAACACCTAAAAACT
* *
22580034 AGTCATGCAACGCTTAAAAACT
1 AGTCATGCAACACCTAAAAACT
* * **
22580056 AATCATGCAAAATTTAAAAACT
1 AGTCATGCAACACCTAAAAACT
22580078 AGT
1 AGT
22580081 TACGTACTGC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.26
Consensus pattern (22 bp):
AGTCATGCAACACCTAAAAACT
Found at i:22580263 original size:9 final size:9
Alignment explanation
Indices: 22580249--22580278 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22580239 AAACCATTCC
22580249 AAAATGCTT
1 AAAATGCTT
22580258 AAAATGCTT
1 AAAATGCTT
*
22580267 AAAACGCTT
1 AAAATGCTT
22580276 AAA
1 AAA
22580279 GGTTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (9 bp):
AAAATGCTT
Found at i:22580556 original size:29 final size:28
Alignment explanation
Indices: 22580502--22580557 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
22580492 TTTATGATTT
*
22580502 TGAACTTTAGAACAAATTAAATGTTTTG
1 TGAACTTTAGAACAAATTAAACGTTTTG
*
22580530 TGAACTTTA-AATCCAAATTCAACGTTTT
1 TGAACTTTAGAA--CAAATTAAACGTTTT
22580558 AAGAATGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.08
28 9 0.38
29 13 0.54
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (28 bp):
TGAACTTTAGAACAAATTAAACGTTTTG
Found at i:22582570 original size:4 final size:4
Alignment explanation
Indices: 22582561--22582613 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
22582551 AGTTTTAAGA
*
22582561 AAAG AAAG AAA- AAA- AAAG AAAC AAA- AAAG AAGAG AAAG AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
22582606 AAAAG AAA
1 -AAAG AAA
22582614 CACAAGCAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
3 12 0.28
4 24 0.56
5 7 0.16
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22582596 original size:16 final size:16
Alignment explanation
Indices: 22582557--22582615 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
22582547 ACGTAGTTTT
*
22582557 AAGAAAAGAAA-GAAA
1 AAGAAAAGAAACAAAA
22582572 AA-AAAAGAAACAAAA
1 AAGAAAAGAAACAAAA
* * *
22582587 AAGAAGAGAAAGAAAG
1 AAGAAAAGAAACAAAA
22582603 AAGAAAAGAAACA
1 AAGAAAAGAAACA
22582616 CAAGCAAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 8 0.22
15 7 0.19
16 21 0.58
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAACAAAA
Found at i:22583191 original size:223 final size:223
Alignment explanation
Indices: 22582798--22583244 Score: 867
Period size: 223 Copynumber: 2.0 Consensus size: 223
22582788 CTTGGGTTCG
*
22582798 AACCTCACCAAAAGCATATTATGTTTTTAAGAATAAAAGTACCACATGTCAATGTCTTGATGTGC
1 AACCCCACCAAAAGCATATTATGTTTTTAAGAATAAAAGTACCACATGTCAATGTCTTGATGTGC
22582863 CATGTGTCAGCTCAAATCCAAAAAGTGACATGGCAATGCCACATCAGTAACCTAGACTCGAAATG
66 CATGTGTCAGCTCAAATCCAAAAAGTGACATGGCAATGCCACATCAGTAACCTAGACTCGAAATG
*
22582928 TGATGTGACACTACCACGTCATCATGAGGGTGACATGGCACTGCCACATCAGCAACCAAACCCAC
131 TGATGTGACACTACCACGTCATCATGAGGGTGACATGGCACTGCCACATAAGCAACCAAACCCAC
22582993 TTTATATGTCACATCAGCATCTTGTGCC
196 TTTATATGTCACATCAGCATCTTGTGCC
22583021 AACCCCACCAAAAGCATATTATGTTTTTAAGAATAAAAGTACCACATGTCAATGTCTTGATGTGC
1 AACCCCACCAAAAGCATATTATGTTTTTAAGAATAAAAGTACCACATGTCAATGTCTTGATGTGC
22583086 CATGTGTCAGCTCAAATCCAAAAAGTGACATGGCAATGCCACATCAGTAACCTAGACTCGAAATG
66 CATGTGTCAGCTCAAATCCAAAAAGTGACATGGCAATGCCACATCAGTAACCTAGACTCGAAATG
*
22583151 TGATGTGACACTACCACGTCATCATGAGGGTGACATGGCACTGCCACATAAGTAACCAAACCCAC
131 TGATGTGACACTACCACGTCATCATGAGGGTGACATGGCACTGCCACATAAGCAACCAAACCCAC
22583216 TTTATATGTCACATCAGCATCTTGTGCC
196 TTTATATGTCACATCAGCATCTTGTGCC
22583244 A
1 A
22583245 TGTCAACATC
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 221 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (223 bp):
AACCCCACCAAAAGCATATTATGTTTTTAAGAATAAAAGTACCACATGTCAATGTCTTGATGTGC
CATGTGTCAGCTCAAATCCAAAAAGTGACATGGCAATGCCACATCAGTAACCTAGACTCGAAATG
TGATGTGACACTACCACGTCATCATGAGGGTGACATGGCACTGCCACATAAGCAACCAAACCCAC
TTTATATGTCACATCAGCATCTTGTGCC
Found at i:22606504 original size:26 final size:27
Alignment explanation
Indices: 22606472--22606540 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
22606462 AAAACAGAAA
*
22606472 TACAAATAAATATTAATA-TAAAAAAT
1 TACAAATAAATATTAAAATTAAAAAAT
* **
22606498 TATAAATATTTATTAAAATTAAAAAAT
1 TACAAATAAATATTAAAATTAAAAAAT
22606525 TACAAATTATAATATT
1 TACAAA-TA-AATATT
22606541 TTCATTCAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 14 0.42
27 13 0.39
28 2 0.06
29 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (27 bp):
TACAAATAAATATTAAAATTAAAAAAT
Found at i:22607308 original size:40 final size:40
Alignment explanation
Indices: 22607184--22607359 Score: 169
Period size: 40 Copynumber: 4.3 Consensus size: 40
22607174 AATTAAATTG
* *
22607184 ACAACACAATAACAATACAAAGACATTTATAAA-TTT-T-
1 ACAACACAATAACAACACAAACACATTTATAAATTTTATA
* *
22607221 ACAACATAATAACAACACAAACACAATAAAAATTTATAAATTATATA
1 ACAACACAATAACAACACAAACAC-------ATTTATAAATTTTATA
*
22607268 ACAACACAATAATAACACAAACACATTTATAAATTTTATA
1 ACAACACAATAACAACACAAACACATTTATAAATTTTATA
* * * *
22607308 ATAATACAATAACAACACAAACACATTTACAAATTTTGTA
1 ACAACACAATAACAACACAAACACATTTATAAATTTTATA
* *
22607348 ACCACATAATAA
1 ACAACACAATAA
22607360 TTACAACACA
Statistics
Matches: 113, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
37 21 0.19
40 58 0.51
44 9 0.08
45 2 0.02
46 1 0.01
47 22 0.19
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (40 bp):
ACAACACAATAACAACACAAACACATTTATAAATTTTATA
Found at i:22618762 original size:17 final size:17
Alignment explanation
Indices: 22618736--22618770 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22618726 TTTTATGTAT
*
22618736 GCATATATTAAGGGGGA
1 GCATAGATTAAGGGGGA
22618753 GCATAGATTAAGGGGGA
1 GCATAGATTAAGGGGGA
22618770 G
1 G
22618771 TAATCCCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.40, T:0.20
Consensus pattern (17 bp):
GCATAGATTAAGGGGGA
Found at i:22631812 original size:62 final size:62
Alignment explanation
Indices: 22631723--22631852 Score: 233
Period size: 62 Copynumber: 2.1 Consensus size: 62
22631713 GTATCCATTG
22631723 GTTATTCCGATGATTCTTTGACTAGCTTTCCATTCTTTCAGCATCCCTCCATGGATCCAATA
1 GTTATTCCGATGATTCTTTGACTAGCTTTCCATTCTTTCAGCATCCCTCCATGGATCCAATA
* * *
22631785 GTTATTCTGATGATTCTTTGACTAGCTTTCCATTCTTTCAGTATCCCTCCATGGATCCAGTA
1 GTTATTCCGATGATTCTTTGACTAGCTTTCCATTCTTTCAGCATCCCTCCATGGATCCAATA
22631847 GTTATT
1 GTTATT
22631853 TTTTGTTTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (62 bp):
GTTATTCCGATGATTCTTTGACTAGCTTTCCATTCTTTCAGCATCCCTCCATGGATCCAATA
Found at i:22639274 original size:26 final size:26
Alignment explanation
Indices: 22639218--22639276 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
22639208 GGCCGGCCAT
* *
22639218 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
22639244 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
22639270 AAGGAAA
1 AAGGAAA
22639277 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:22641925 original size:20 final size:20
Alignment explanation
Indices: 22641900--22641941 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22641890 AAAAGGGAAA
22641900 TAAGAC-TCACATTAATCAAT
1 TAAGACTTC-CATTAATCAAT
*
22641920 TAAGACTTCCTTTAATCAAT
1 TAAGACTTCCATTAATCAAT
22641940 TA
1 TA
22641942 GAACATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAGACTTCCATTAATCAAT
Found at i:22654139 original size:2 final size:2
Alignment explanation
Indices: 22654132--22654173 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22654122 GTTATGTATG
22654132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22654174 NTATTTATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22656836 original size:55 final size:55
Alignment explanation
Indices: 22656775--22657038 Score: 449
Period size: 55 Copynumber: 4.8 Consensus size: 55
22656765 TGATGATGGG
22656775 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * *
22656830 TGATTCCAACTATGTGCGGTGTGGGAATGCACATGAGCTGATGACTGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
*
22656885 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
*
22656940 TGATTCCAAG-TATGTGCGGTGTGGGAGTGCACATGAGCTGATGACTGGTGGATGA
1 TGATTCC-AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* *
22656995 TGATTCCAGCTATTTTCGGTGTGGGAGTGCACATGAGCTGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
22657039 GCTGGTGGTT
Statistics
Matches: 196, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
54 2 0.01
55 192 0.98
56 2 0.01
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
Found at i:22658070 original size:2 final size:2
Alignment explanation
Indices: 22658063--22658098 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
22658053 ATAATATTTC
*
22658063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22658099 CTACGCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22660282 original size:2 final size:2
Alignment explanation
Indices: 22660223--22660268 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
22660213 CATGCACAGG
22660223 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
22660265 CA CA
1 CA CA
22660269 TATAGATACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:22674870 original size:26 final size:23
Alignment explanation
Indices: 22674809--22674868 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
22674799 TATACATATA
*
22674809 CCCATCACCATCATGCACACAAT
1 CCCATCATCATCATGCACACAAT
*
22674832 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACAAT
22674855 CCCATCATCATCAT
1 CCCATCATCATCAT
22674869 CACCAGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.43, G:0.03, T:0.22
Consensus pattern (23 bp):
CCCATCATCATCATGCACACAAT
Found at i:22683928 original size:20 final size:20
Alignment explanation
Indices: 22683896--22683933 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22683886 TTGGATGCTA
22683896 AATTGTTTTTGGATAAATTG
1 AATTGTTTTTGGATAAATTG
22683916 AATT-TTTTGTGGATAAAT
1 AATTGTTTT-TGGATAAAT
22683934 GTTTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (20 bp):
AATTGTTTTTGGATAAATTG
Found at i:22684575 original size:68 final size:67
Alignment explanation
Indices: 22684386--22684577 Score: 231
Period size: 68 Copynumber: 2.8 Consensus size: 67
22684376 TAAAGCTTGG
* ** * * *
22684386 TGTGAGGGTAAGAATCCCACAAGACCAAGATGGACGAATGTACCCATTCTTATCCTTTTTAAAGC
1 TGTGAGGGTAAGAATACCACAAGGTCTAGATGGGCGAATGTACCCATT-TT-TCCCTTTTAAAGC
22684451 CCGA
64 CCGA
* * * *
22684455 TGTAAGGGTAAGAATACCACAAGGTCTAGTTGGGCGAATGTACACATATTTTCCCTTTTAGAGCC
1 TGTGAGGGTAAGAATACCACAAGGTCTAGATGGGCGAATGTACCCAT-TTTTCCCTTTTAAAGCC
22684520 CGA
65 CGA
* * *
22684523 TGTGGGGGTAAGAATACCACAAGGTCTAGCTGGGCGAATATACCCACTTTTTCCC
1 TGTGAGGGTAAGAATACCACAAGGTCTAGATGGGCGAATGTACCCA-TTTTTCCC
22684578 CTCCTCAAGC
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
68 63 0.59
69 42 0.40
70 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (67 bp):
TGTGAGGGTAAGAATACCACAAGGTCTAGATGGGCGAATGTACCCATTTTTCCCTTTTAAAGCCC
GA
Found at i:22687297 original size:23 final size:23
Alignment explanation
Indices: 22687263--22687306 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22687253 TGGGGTGCTG
* *
22687263 CAGCCACGAAGTTGTGACAGTCA
1 CAGCCACAAAGTGGTGACAGTCA
22687286 CAGCCACAAAGTGGTGACAGT
1 CAGCCACAAAGTGGTGACAGT
22687307 GTAGCCACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (23 bp):
CAGCCACAAAGTGGTGACAGTCA
Found at i:22688663 original size:4 final size:4
Alignment explanation
Indices: 22688654--22688695 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
22688644 TATAATACAT
22688654 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
22688696 GTAAGTTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:22688804 original size:28 final size:29
Alignment explanation
Indices: 22688751--22688815 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
22688741 TCAAACAAGC
22688751 AAAGTATAAGCCACCTCATGGAAAAT-CA
1 AAAGTATAAGCCACCTCATGGAAAATCCA
* ** *
22688779 AAAGTTTAAGCCACCTTGTGGCAAATCCA
1 AAAGTATAAGCCACCTCATGGAAAATCCA
22688808 AAA-TATAA
1 AAAGTATAA
22688816 CATTTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.22
Consensus pattern (29 bp):
AAAGTATAAGCCACCTCATGGAAAATCCA
Found at i:22696520 original size:15 final size:15
Alignment explanation
Indices: 22696500--22696544 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
22696490 TGTTGTATAA
22696500 TTTAAATATTAATT-T
1 TTTAAA-ATTAATTAT
22696515 TTT-AAATTAATTAT
1 TTTAAAATTAATTAT
*
22696529 TTTAAAGTTAATTAT
1 TTTAAAATTAATTAT
22696544 T
1 T
22696545 AATATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 7 0.26
14 6 0.22
15 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTAAAATTAATTAT
Found at i:22696525 original size:13 final size:14
Alignment explanation
Indices: 22696507--22696544 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
22696497 TAATTTAAAT
22696507 ATTAATT-TTTTAA
1 ATTAATTATTTTAA
22696520 ATTAATTATTTTAA
1 ATTAATTATTTTAA
22696534 AGTTAATTATT
1 A-TTAATTATT
22696545 AATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTAATTATTTTAA
Found at i:22698444 original size:44 final size:43
Alignment explanation
Indices: 22698328--22698464 Score: 213
Period size: 44 Copynumber: 3.2 Consensus size: 43
22698318 ACTAGAGCTA
*
22698328 ATCACAACACAATCATGGGAA-GTGGAGACCTTCTCAATCCAC
1 ATCACAACACAATCATGGGAATGTAGAGACCTTCTCAATCCAC
* *
22698370 TTCACAACACAATCATGGGAATGTAAAGACCTTCTCAATCCAC
1 ATCACAACACAATCATGGGAATGTAGAGACCTTCTCAATCCAC
*
22698413 ATCACAACACCAATCATGGGAATGTAGAGACCTTCTTAATCCAC
1 ATCACAACA-CAATCATGGGAATGTAGAGACCTTCTCAATCCAC
22698457 ATTCACAA
1 A-TCACAA
22698465 TACTCATATG
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
42 20 0.23
43 27 0.31
44 33 0.38
45 6 0.07
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (43 bp):
ATCACAACACAATCATGGGAATGTAGAGACCTTCTCAATCCAC
Found at i:22701085 original size:54 final size:54
Alignment explanation
Indices: 22701008--22701133 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
22700998 TGTAACCATG
* * *
22701008 CATGAGCTGGGTGAGATGTGGTGTCCAGCTATGTGCATGATGTGGTGGGATGCA
1 CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACGATGTGGTGAGATGCA
*
22701062 CATGAGCTGGGTGAGATATGGTGTCCGGCTATGTGCACGATGTGGTGAGATGCA
1 CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACGATGTGGTGAGATGCA
*
22701116 CATGACCTGGGTGAGATA
1 CATGAGCTGGGTGAGATA
22701134 AAATATTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (54 bp):
CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACGATGTGGTGAGATGCA
Found at i:22702383 original size:16 final size:15
Alignment explanation
Indices: 22702360--22702389 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22702350 AAAAAAATAT
22702360 AAAAAATCAAAATCC
1 AAAAAATCAAAATCC
22702375 AAAAGAATCAAAATC
1 AAAA-AATCAAAATC
22702390 TAGATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.17, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAATCAAAATCC
Found at i:22702858 original size:19 final size:19
Alignment explanation
Indices: 22702834--22702871 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22702824 CCATTTAACT
*
22702834 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
22702853 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
22702872 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:22710709 original size:13 final size:13
Alignment explanation
Indices: 22710691--22710716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22710681 AAGAGAAATT
22710691 ATGATTTTATAAA
1 ATGATTTTATAAA
22710704 ATGATTTTATAAA
1 ATGATTTTATAAA
22710717 TTTTCTGAAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:22714946 original size:19 final size:19
Alignment explanation
Indices: 22714906--22714947 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22714896 AGGCCTAAGG
* *
22714906 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
22714925 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
22714944 AATA
1 AATA
22714948 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:22715942 original size:2 final size:2
Alignment explanation
Indices: 22715935--22716003 Score: 102
Period size: 2 Copynumber: 34.0 Consensus size: 2
22715925 TATTGGTGTT
22715935 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
22715977 TA TC TA TA TA TT TGG TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA
22716004 CCAAATGAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 60 0.98
3 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22721625 original size:22 final size:22
Alignment explanation
Indices: 22721591--22721636 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
22721581 TTCAGGTGGT
* *
22721591 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
22721613 ATCAAAGCCTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
22721635 AT
1 AT
22721637 TAGAGTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (22 bp):
ATCAAAGCCTTTGGTTTTAAAG
Found at i:22733409 original size:95 final size:95
Alignment explanation
Indices: 22733246--22733426 Score: 335
Period size: 95 Copynumber: 1.9 Consensus size: 95
22733236 NNNNNNNNNN
22733246 CCTTCATATGCTTCATACTATATCCAAAAACATCCTATTTTGGCCTCCATACTCATTTGCCTTCA
1 CCTTCATATGCTTCATACTATATCCAAAAACATCCTATTTTGGCCTCCATACTCATTTGCCTTCA
22733311 TATTGCCTACTCTTATTGACCACTCATTTA
66 TATTGCCTACTCTTATTGACCACTCATTTA
* *
22733341 CCTTCATATGCTTCATACTATATCCAAAAACATCCTATTTTGGCCTCCATACTTATTTGCCTTTA
1 CCTTCATATGCTTCATACTATATCCAAAAACATCCTATTTTGGCCTCCATACTCATTTGCCTTCA
*
22733406 TATTGCCTACTCTTCTTGACC
66 TATTGCCTACTCTTATTGACC
22733427 TCCATATTTG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 83 1.00
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (95 bp):
CCTTCATATGCTTCATACTATATCCAAAAACATCCTATTTTGGCCTCCATACTCATTTGCCTTCA
TATTGCCTACTCTTATTGACCACTCATTTA
Found at i:22735849 original size:3 final size:3
Alignment explanation
Indices: 22735841--22735905 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
22735831 TAAATATAGT
* * *
22735841 TAC TAC TAC TAC TAC TAC TAC TAC TAC CAC TAT TAC TAC TAC TAC TAT
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
*
22735889 TAT TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TA
22735906 GAGATAAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:22741062 original size:43 final size:42
Alignment explanation
Indices: 22740991--22741115 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
22740981 TGTGATAATA
* * *
22740991 ATGACCCATCTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTG-GGAGTGAGAGTGCACATGAGCTGATG
* *
22741034 ATGACCCAGCTATGTGTGGGGTGAGAGTGCACATGAGCCGATG
1 ATGACCCAGCTATGTG-GGAGTGAGAGTGCACATGAGCTGATG
* * * *
22741077 ATGACTCGGCTATGTGCGAGTAAGGAGTGCACATGAGCT
1 ATGACCCAGCTATGTGGGAGTGA-GAGTGCACATGAGCT
22741116 AAGTGTGGCG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 4 0.06
43 66 0.94
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (42 bp):
ATGACCCAGCTATGTGGGAGTGAGAGTGCACATGAGCTGATG
Found at i:22744603 original size:12 final size:13
Alignment explanation
Indices: 22744576--22744607 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
22744566 AGACAATCAT
22744576 CAAAATTATCCCC
1 CAAAATTATCCCC
22744589 CAAAATTAT-CCC
1 CAAAATTATCCCC
22744601 CAAAATT
1 CAAAATT
22744608 TGAAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (13 bp):
CAAAATTATCCCC
Found at i:22749544 original size:13 final size:13
Alignment explanation
Indices: 22749526--22749551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22749516 TTCCAGAAAA
22749526 TTTATAAAATCAT
1 TTTATAAAATCAT
22749539 TTTATAAAATCAT
1 TTTATAAAATCAT
22749552 AATTTCTCCT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22760768 original size:13 final size:13
Alignment explanation
Indices: 22760750--22760774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22760740 TTTCAGAAAA
22760750 TTTATAAAATCAT
1 TTTATAAAATCAT
22760763 TTTATAAAATCA
1 TTTATAAAATCA
22760775 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22765426 original size:21 final size:21
Alignment explanation
Indices: 22765400--22765487 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 21
22765390 TTGAATGGAG
*
22765400 GCATCAGTCCTTATCATAAAT
1 GCATCAGTCCTTGTCATAAAT
* *
22765421 GCATCA-ACCTTTGT-ATGAAT
1 GCATCAGTCC-TTGTCATAAAT
* * *
22765441 GCATCAGTCTTTGTCATGAAC
1 GCATCAGTCCTTGTCATAAAT
*
22765462 GCATCAGTCTTTGTCATAAATT
1 GCATCAGTCCTTGTCATAAA-T
22765484 GCAT
1 GCAT
22765488 GAACATATCC
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 17 0.31
21 34 0.62
22 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (21 bp):
GCATCAGTCCTTGTCATAAAT
Found at i:22769318 original size:15 final size:14
Alignment explanation
Indices: 22769298--22769348 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
22769288 TTCTTAAAAC
22769298 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
*
22769313 AACTTTAAAATCCAG
1 AACTTTAAAAT-CAA
*
22769328 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
22769342 AATCTTT
1 AA-CTTT
22769349 GATCTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 3 0.10
15 26 0.87
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:22774605 original size:22 final size:21
Alignment explanation
Indices: 22774566--22774606 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22774556 CCTAGGTGGA
* *
22774566 AAAATTCATGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGTG
22774587 AAAATTCAAGGAAATAAGTG
1 AAAATTCAAGGAAA-AAGTG
22774607 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.24, T:0.22
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGTG
Found at i:22774611 original size:21 final size:20
Alignment explanation
Indices: 22774564--22774611 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
22774554 ACCCTAGGTG
* *
22774564 GAAAAATTCATGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
22774584 GTGAAAATTCAAGGAAATAAGT
1 G-AAAAATTCAAGGAAA-AAGT
22774606 GAAAAA
1 GAAAAA
22774612 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.54, C:0.04, G:0.23, T:0.19
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:22789072 original size:40 final size:39
Alignment explanation
Indices: 22789014--22789119 Score: 142
Period size: 38 Copynumber: 2.7 Consensus size: 39
22789004 CTCACCCAGC
* *
22789014 TCATGTGCATCCCCCCACATCGTGCACATAGCTGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AGCTAGAGCCA
* * * *
22789054 TCGTGTGCATCCCCCCACATCTTGCAC-AGTTAGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCTAGAGCCA
22789092 TCATGTGCATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
22789120 CGGGCACTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 32 0.56
40 25 0.44
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.24
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACAAGCTAGAGCCA
Found at i:22793548 original size:19 final size:19
Alignment explanation
Indices: 22793510--22793548 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22793500 CCCAATTTTC
* * *
22793510 TCTTCATTTTCTTCCTATT
1 TCTTCATTCTCTACCCATT
22793529 TCTTCATTCTCTACCCATT
1 TCTTCATTCTCTACCCATT
22793548 T
1 T
22793549 TCTCCTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (19 bp):
TCTTCATTCTCTACCCATT
Found at i:22795861 original size:4 final size:4
Alignment explanation
Indices: 22795842--22795915 Score: 59
Period size: 4 Copynumber: 19.2 Consensus size: 4
22795832 ATCAATTGGG
* *
22795842 AGAA AG-A AGAA TAGAA AGAA AGAA AG-G AGAA AGGAA AGAA AGAA AG-G
1 AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA
* *
22795889 AGAA AG-A A-AA AGAG AGAA AGGA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
22795916 AAGCTTGGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
3 11 0.20
4 36 0.65
5 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:22795896 original size:24 final size:20
Alignment explanation
Indices: 22795842--22795915 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
22795832 ATCAATTGGG
*
22795842 AGAAAGAAGAATA-GAAAGAA
1 AGAAAGGAGAA-AGGAAAGAA
22795862 AGAAAGGAGAAAGGAAAGAA
1 AGAAAGGAGAAAGGAAAGAA
* *
22795882 AGAAAGGAGAAAGAAAAAGAG
1 AGAAAGGAGAAAG-GAAAGAA
22795903 AGAAAGGAAGAAA
1 AGAAAGG-AGAAA
22795916 AAGCTTGGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 30 0.62
21 12 0.25
22 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (20 bp):
AGAAAGGAGAAAGGAAAGAA
Found at i:22797090 original size:37 final size:37
Alignment explanation
Indices: 22797029--22797176 Score: 183
Period size: 37 Copynumber: 4.0 Consensus size: 37
22797019 GGGAGTGCGT
*
22797029 ATGATGATATTGAAATGTGTGTGTAGGGAGTGCACATG
1 ATGAT-ATATTGAAATGTGCGTGTAGGGAGTGCACATG
*
22797067 ATGATATATTGAAATGTACGTGTAGGGAGTGCACATG
1 ATGATATATTGAAATGTGCGTGTAGGGAGTGCACATG
* * **
22797104 ATGATATATTAAAATGTGCGAGTAGAAAGTGCACATG
1 ATGATATATTGAAATGTGCGTGTAGGGAGTGCACATG
*** *
22797141 ATG--ATATTGCCTTGTGCATGTAGGGAGTGCACATG
1 ATGATATATTGAAATGTGCGTGTAGGGAGTGCACATG
22797176 A
1 A
22797177 GCTGAGTAAG
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
35 25 0.26
37 65 0.68
38 5 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (37 bp):
ATGATATATTGAAATGTGCGTGTAGGGAGTGCACATG
Done.