Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 135 of 235
Found at i:45621279 original size:30 final size:30
Alignment explanation
Indices: 45621239--45621340 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
45621229 ATTTAGGATT
*
45621239 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
45621269 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
45621299 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
45621329 AAAATGCAATTT
1 AAAATGAAATTT
45621341 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:45621355 original size:14 final size:15
Alignment explanation
Indices: 45621336--45621370 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
45621326 GTCAAAATGC
45621336 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
*
45621350 AATTTTTTTTTTTGA
1 AATTTTTATTTTTGA
45621365 AATTTT
1 AATTTT
45621371 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:45625877 original size:15 final size:17
Alignment explanation
Indices: 45625857--45625890 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
45625847 TCGTAAAGTA
45625857 AAATAT-TAAAA-AAAT
1 AAATATGTAAAAGAAAT
45625872 AAATATGTAAAAGAAAT
1 AAATATGTAAAAGAAAT
45625889 AA
1 AA
45625891 GACACATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAATATGTAAAAGAAAT
Found at i:45632772 original size:131 final size:131
Alignment explanation
Indices: 45632255--45632783 Score: 482
Period size: 131 Copynumber: 4.0 Consensus size: 131
45632245 TTGCCTCACC
* * * **
45632255 TTAGAAAATACGAGTGAAATTTCAAA-GAGCTATTCGATTATTTTGAACAAACGGGAAATTGCAA
1 TTAGAAAACACGAGTGAAATTTCAAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAA
* * * * * * *
45632319 CCCAGCACAATAGGGTACTATTCCCCGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGG
65 CCCAGCACGATAGGGCACGATT-CCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGA
45632384 TTT
129 TTT
** * * *
45632387 TTAGAAAACGTGAGTGAAATTTCGAAA-GAATCTTCGATTGTTTTGAAAAAACGAGAAATCACAA
1 TTAGAAAACACGAGTGAAATTTC-AAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAA
* * * * * *
45632451 CCCAACACGTTAGGGCACGATTCCCGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGG-
65 CCCAGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTT-AAAGGA
45632515 TTT
129 TTT
** * * *
45632518 TTA-ATAAACACGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAGTCACA
1 TTAGA-AAACACGAGTGAAATTTC-AAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACA
* * * * *
45632581 AACCAGCACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGA
64 ACCCAGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGA
45632646 TTT
129 TTT
* ** * * **
45632649 TTAGAAGACACGAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAAACG-GAAAATTGCA
1 TTAGAAAACACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAA-CAAACGAG-AAATCACA
* * * * * * *
45632712 ACCTAGCACGTTAGGGCGCGATTCCGCGAATTGCCAAATATCGCA-TATCGCCTTCG-TTTAAGG
64 ACCCAGCACGATAGGGCACGATTCC-CGAATTACCAAACACCG-AGTATCGCCTTCGTTTTAAAG
45632775 GATTT
127 GATTT
45632780 TTAG
1 TTAG
45632784 TAATTGTGAA
Statistics
Matches: 324, Mismatches: 62, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
130 11 0.03
131 214 0.66
132 93 0.29
133 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
TTAGAAAACACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAAC
CCAGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGATT
T
Found at i:45635153 original size:84 final size:84
Alignment explanation
Indices: 45635012--45635179 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
45635002 TTTTTTACAA
45635012 TATGCGTGTATATTCCCTTGCTATTCTATTCATTAAAAGAAACAAGAAACCTCCCCCCCCCCGGT
1 TATGCGTGTATATTCCCTTGCTATTCTATTCATTAAAAGAAACAAGAAACCTCCCCCCCCCCGGT
45635077 TACAATCCAAGTCCTAATG
66 TACAATCCAAGTCCTAATG
*
45635096 TATGCGTGTATATTCCCTTTCTATTCTATTCATTAAAAGAAACAAGAAACCTCCCCCCCCCCGGT
1 TATGCGTGTATATTCCCTTGCTATTCTATTCATTAAAAGAAACAAGAAACCTCCCCCCCCCCGGT
45635161 TACAATCCAAGTCCTAATG
66 TACAATCCAAGTCCTAATG
45635180 ACTTTATAGC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (84 bp):
TATGCGTGTATATTCCCTTGCTATTCTATTCATTAAAAGAAACAAGAAACCTCCCCCCCCCCGGT
TACAATCCAAGTCCTAATG
Found at i:45635251 original size:12 final size:13
Alignment explanation
Indices: 45635234--45635262 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45635224 GTTCCTATTC
45635234 TTTTGCT-TGCTG
1 TTTTGCTGTGCTG
45635246 TTTTGCTGTGCTG
1 TTTTGCTGTGCTG
45635259 TTTT
1 TTTT
45635263 TTTGTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.00, C:0.14, G:0.24, T:0.62
Consensus pattern (13 bp):
TTTTGCTGTGCTG
Found at i:45647869 original size:18 final size:18
Alignment explanation
Indices: 45647842--45647885 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
45647832 ATTGTTCCGA
*
45647842 TCACTTCTTTCCATACTT
1 TCACTACTTTCCATACTT
45647860 TCACTACTTTCCATACTT
1 TCACTACTTTCCATACTT
45647878 TCACTACT
1 TCACTACT
45647886 CCATTGTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.45
Consensus pattern (18 bp):
TCACTACTTTCCATACTT
Found at i:45650010 original size:7 final size:7
Alignment explanation
Indices: 45649998--45650023 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45649988 TTAATAAACA
45649998 TATTAAT
1 TATTAAT
45650005 TATTAAT
1 TATTAAT
45650012 TATTAAT
1 TATTAAT
45650019 TATTA
1 TATTA
45650024 CAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTAAT
Found at i:45650758 original size:28 final size:28
Alignment explanation
Indices: 45650706--45650762 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
45650696 ATAAAAATCG
*
45650706 TAAAAAAATATTTAAAATATTAAAATTA
1 TAAAAAAATATTTAAAATATGAAAATTA
45650734 TAAAAAAAT-TATTAGAAAT-TGAAAATTA
1 TAAAAAAATAT-TTA-AAATATGAAAATTA
45650762 T
1 T
45650763 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
TAAAAAAATATTTAAAATATGAAAATTA
Found at i:45653407 original size:31 final size:30
Alignment explanation
Indices: 45653338--45653408 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
45653328 ATTTTTAAAA
* *
45653338 AAAATAT-AAAAATTAAAATTGACAAATTC
1 AAAATATAAAAAATTAAAACTAACAAATTC
* *
45653367 AAAAAATAAAAATATTAAAACTAATCGAATT-
1 AAAATATAAAAA-ATTAAAACTAA-CAAATTC
45653398 AAAATATAAAA
1 AAAATATAAAA
45653409 TTTAACCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 6 0.18
30 4 0.12
31 19 0.56
32 5 0.15
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAATATAAAAAATTAAAACTAACAAATTC
Found at i:45655895 original size:14 final size:14
Alignment explanation
Indices: 45655878--45655961 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 14
45655868 TTTATAACAC
45655878 ATAATTTATTTTTT
1 ATAATTTATTTTTT
45655892 ATAATTTAATTTTTAT
1 ATAATTT-ATTTTT-T
45655908 CATAAATTTAGAATTTTTT
1 -AT-AATTT---ATTTTTT
** **
45655927 ATAATTTAAATAAT
1 ATAATTTATTTTTT
45655941 ATAATTT-TTTTGTT
1 ATAATTTATTTT-TT
45655955 ATAATTT
1 ATAATTT
45655962 TATAAAATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
13 1 0.02
14 25 0.45
15 6 0.11
16 1 0.02
17 7 0.13
18 7 0.13
19 1 0.02
20 7 0.13
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (14 bp):
ATAATTTATTTTTT
Found at i:45655930 original size:18 final size:16
Alignment explanation
Indices: 45655885--45655937 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 16
45655875 CACATAATTT
45655885 ATTTTTTATAATTT-A
1 ATTTTTTATAATTTAA
45655900 ATTTTTATCATAAATTTAGA
1 ATTTTT-T-AT-AATTTA-A
45655920 ATTTTTTATAATTTAA
1 ATTTTTTATAATTTAA
45655936 AT
1 AT
45655938 AATATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 8 0.24
18 7 0.21
19 1 0.03
20 7 0.21
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTTTTATAATTTAA
Found at i:45659445 original size:21 final size:22
Alignment explanation
Indices: 45659398--45659446 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
45659388 CAAGGGTTGC
45659398 ATGTCTAGAGACATTGGCATGT
1 ATGTCTAGAGACATTGGCATGT
* * *
45659420 ATGTCTTGAGACA-TGGTATTT
1 ATGTCTAGAGACATTGGCATGT
45659441 ATGTCT
1 ATGTCT
45659447 CAAGGCATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTCTAGAGACATTGGCATGT
Found at i:45661176 original size:27 final size:27
Alignment explanation
Indices: 45661146--45661200 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
45661136 ATTTACCAAA
45661146 CATCAAATATCAAATCACAACCATAAG
1 CATCAAATATCAAATCACAACCATAAG
45661173 CATCAAATATCAAATCACAACCATAAG
1 CATCAAATATCAAATCACAACCATAAG
45661200 C
1 C
45661201 TTATATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (27 bp):
CATCAAATATCAAATCACAACCATAAG
Found at i:45663526 original size:35 final size:35
Alignment explanation
Indices: 45663480--45663550 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45663470 AAGCTAAAGT
45663480 TACCATTATCGAAGAATATAAGGGTCTAGATGAGC
1 TACCATTATCGAAGAATATAAGGGTCTAGATGAGC
45663515 TACCATTATCGAAGAATATAAGGGTCTAGATGAGC
1 TACCATTATCGAAGAATATAAGGGTCTAGATGAGC
45663550 T
1 T
45663551 CATAGGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (35 bp):
TACCATTATCGAAGAATATAAGGGTCTAGATGAGC
Found at i:45666239 original size:81 final size:81
Alignment explanation
Indices: 45666104--45666265 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
45666094 TAGTCTTAGT
* *
45666104 TTTATTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCCTGCTGCTTTC
1 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCTGATTTC
45666169 ATGCCCTTGCCGTCCA
66 ATGCCCTTGCCGTCCA
*
45666185 TTTATTTAGTTAATTTTGCAATATTCTAATTTTACCCTTAATTTATCAATTTTCCTGCTGATTTC
1 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCTGATTTC
45666250 ATGCCCTTGCCGTCCA
66 ATGCCCTTGCCGTCCA
45666266 GCCATAATAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.09, T:0.48
Consensus pattern (81 bp):
TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCTGATTTC
ATGCCCTTGCCGTCCA
Found at i:45671451 original size:2 final size:2
Alignment explanation
Indices: 45671444--45671476 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45671434 ATAGAATGAA
45671444 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
45671477 AAGGTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45680562 original size:28 final size:28
Alignment explanation
Indices: 45680522--45680584 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
45680512 GTCATTATCA
45680522 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
45680550 ACCCCATAAGTTATGAGACTTTTTCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
45680578 ACCCCAT
1 ACCCCAT
45680585 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:45681653 original size:12 final size:12
Alignment explanation
Indices: 45681636--45681665 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45681626 GTAGTGTGCA
*
45681636 TGGCCGTGGTCG
1 TGGCCGTGGGCG
45681648 TGGCCGTGGGCG
1 TGGCCGTGGGCG
45681660 TGGCCG
1 TGGCCG
45681666 CAGACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.53, T:0.20
Consensus pattern (12 bp):
TGGCCGTGGGCG
Found at i:45685973 original size:28 final size:28
Alignment explanation
Indices: 45685933--45685995 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
45685923 GCCATTATCA
45685933 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
45685961 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
45685989 ACCCCAT
1 ACCCCAT
45685996 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:45691097 original size:6 final size:6
Alignment explanation
Indices: 45691086--45691117 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
45691076 TACACACTGC
45691086 CTCTTT CTCTTT CTCTTT CTC--T CTCTTT CTCT
1 CTCTTT CTCTTT CTCTTT CTCTTT CTCTTT CTCT
45691118 CTATAACGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (6 bp):
CTCTTT
Found at i:45691112 original size:10 final size:10
Alignment explanation
Indices: 45691086--45691119 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
45691076 TACACACTGC
45691086 CTCTTTCTCTTT
1 CTCTTTCTC--T
45691098 CTCTTTCTCT
1 CTCTTTCTCT
45691108 CTCTTTCTCT
1 CTCTTTCTCT
45691118 CT
1 CT
45691120 ATAACGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.59
12 9 0.41
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTCTTTCTCT
Found at i:45692274 original size:5 final size:5
Alignment explanation
Indices: 45692264--45692289 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45692254 ATAGAAAATA
45692264 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
45692290 AAAAGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:45693179 original size:22 final size:22
Alignment explanation
Indices: 45693141--45693186 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45693131 TCTTATTAGA
* *
45693141 TTTTATTAAAATTAATTTTTAT
1 TTTTATTAAAATAAATTTATAT
45693163 TTTTATATAAAA-AAATTTATAT
1 TTTTAT-TAAAATAAATTTATAT
45693185 TT
1 TT
45693187 AACAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATTAAAATAAATTTATAT
Found at i:45705638 original size:27 final size:27
Alignment explanation
Indices: 45705597--45705650 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45705587 TGTCATGTGA
* *
45705597 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
45705624 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
45705651 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:45705969 original size:49 final size:50
Alignment explanation
Indices: 45705896--45706141 Score: 248
Period size: 49 Copynumber: 4.9 Consensus size: 50
45705886 ATCTATTGTG
* * * *
45705896 AGGTCACGTGTGAAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
45705946 -GGTCACATGTGTAGTACTAAGTGCAGGCTAGTATGCGTACTC-GATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-TT
* * * * * **
45705996 CGATCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
45706046 AGGTCACATGTGTAGTACTAAGTGTAGGCTCCTACGTGTGCCAAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
45706096 -GGTTACATGTGTAGTATTAAGTGCAGGCTACTATGCT-TACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATA
45706142 GCCTTGTCTG
Statistics
Matches: 158, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
49 76 0.48
50 46 0.29
51 36 0.23
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:45722713 original size:19 final size:18
Alignment explanation
Indices: 45722665--45722715 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
45722655 GACTATATTA
45722665 AAAAAATAAGAAAATAAAT
1 AAAAAA-AAGAAAATAAAT
45722684 AAAAGAAAAGAAAATAAAT
1 AAAA-AAAAGAAAATAAAT
*
45722703 GAAAAACAAGAAA
1 -AAAAAAAAGAAA
45722716 TCAAATAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAAAAGAAAATAAAT
Found at i:45724927 original size:26 final size:26
Alignment explanation
Indices: 45724891--45724944 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
45724881 TTCTTGTAGC
45724891 TTCTGAAAATACACGCAATGATCAAA
1 TTCTGAAAATACACGCAATGATCAAA
45724917 TTCTGAAAATACACGCAATGATCAAA
1 TTCTGAAAATACACGCAATGATCAAA
45724943 TT
1 TT
45724945 TACTTCTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (26 bp):
TTCTGAAAATACACGCAATGATCAAA
Found at i:45725094 original size:19 final size:19
Alignment explanation
Indices: 45725070--45725108 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45725060 ATCAGCAACC
45725070 TTGAATCTATCTAGCTGAG
1 TTGAATCTATCTAGCTGAG
45725089 TTGAATCTATCTAGCTGAG
1 TTGAATCTATCTAGCTGAG
45725108 T
1 T
45725109 CATATAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGAATCTATCTAGCTGAG
Found at i:45733850 original size:16 final size:16
Alignment explanation
Indices: 45733829--45733860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45733819 TAATTGATTT
*
45733829 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
45733845 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
45733861 GATTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:45735790 original size:63 final size:64
Alignment explanation
Indices: 45735710--45735892 Score: 185
Period size: 63 Copynumber: 2.8 Consensus size: 64
45735700 AGACATTATG
* *
45735710 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGA-CTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
45735773 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
45735838 AA
63 AA
* * * *
45735840 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
45735893 CGAACTATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.40
64 5 0.05
65 6 0.06
66 34 0.35
67 10 0.10
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45735870 original size:66 final size:65
Alignment explanation
Indices: 45735743--45735870 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 65
45735733 TACTATGTGT
* * * *
45735743 ACACCATGTAGACAAGAGACTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGACTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAG
45735808 G
65 G
* *
45735809 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGA-CTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
45735871 TTCACCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 42 0.78
67 10 0.19
68 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGACTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:45742546 original size:20 final size:18
Alignment explanation
Indices: 45742521--45742567 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
45742511 AACGAGCTTG
45742521 TTTTATTGCGTTTTACATGT
1 TTTTATTGCGTTTT-CAT-T
*
45742541 TTTTATTTCGTTTTCATT
1 TTTTATTGCGTTTTCATT
45742559 TTTTATTGC
1 TTTTATTGC
45742568 TTTGTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 3 0.12
20 13 0.52
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTATTGCGTTTTCATT
Found at i:45743433 original size:17 final size:17
Alignment explanation
Indices: 45743411--45743444 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45743401 TAAGAAGTCA
45743411 TTTAGGATAAACGAGGT
1 TTTAGGATAAACGAGGT
45743428 TTTAGGATAAACGAGGT
1 TTTAGGATAAACGAGGT
45743445 CGAGAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
TTTAGGATAAACGAGGT
Found at i:45743654 original size:22 final size:22
Alignment explanation
Indices: 45743629--45743676 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
45743619 TGAATTAAGC
* *
45743629 TTTTGCTTGTTTTATTAGGTT-A
1 TTTTGATTGTTTAATTA-GTTGA
*
45743651 TTTTTATTGTTTAATTAGTTGA
1 TTTTGATTGTTTAATTAGTTGA
45743673 TTTT
1 TTTT
45743677 TAGTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (22 bp):
TTTTGATTGTTTAATTAGTTGA
Found at i:45743677 original size:22 final size:22
Alignment explanation
Indices: 45743635--45743687 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
45743625 AAGCTTTTGC
*
45743635 TTGTTTTATTAGGTTATTTTTA
1 TTGTTTAATTAGGTTATTTTTA
45743657 TTGTTTAATTA-GTTGATTTTTA
1 TTGTTTAATTAGGTT-ATTTTTA
45743679 --GTTTAATTA
1 TTGTTTAATTA
45743688 ATTTTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 3 0.10
22 17 0.59
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (22 bp):
TTGTTTAATTAGGTTATTTTTA
Found at i:45754979 original size:17 final size:17
Alignment explanation
Indices: 45754914--45754981 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
45754904 AATGTATAGT
45754914 AAAATAAATAATAT-A-
1 AAAATAAATAATATAAC
*
45754929 AAAATACATATAACATATAGC
1 AAAATA-A-AT-A-ATATAAC
*
45754950 AAAAATACA-AATATAAC
1 -AAAATAAATAATATAAC
45754967 AAAATAAATAATATA
1 AAAATAAATAATATA
45754982 TATAATGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 14 0.34
18 2 0.05
19 4 0.10
20 1 0.02
22 6 0.15
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (17 bp):
AAAATAAATAATATAAC
Found at i:45756101 original size:189 final size:188
Alignment explanation
Indices: 45755782--45756158 Score: 736
Period size: 189 Copynumber: 2.0 Consensus size: 188
45755772 TCTGTGTGTA
45755782 TATTTCTCTCTGGAAAATCATGTATTACAAATCAGAAAAAGATGGGTTTTTATAACCCTTTGTAA
1 TATTTCTCTCTGGAAAATCATGTATTACAAATCAGAAAAAGATGGGTTTTTATAACCCTTTGTAA
45755847 GTGATTTACAATCTGGGAAAGAAATCTTTTGATTTCTTTTCATATTTTGCCTCTGTTTTCTGTTG
66 GTGATTTACAATCTGGGAAAGAAATCTTTTGATTTCTTTTCATATTTTGCCTCTGTTTTCTGTTG
45755912 TGGTTTTTTCATTTTGCAGATGTCTCGCAAGGAAATCAGTGAACCAAGATGATTAGGC
131 TGGTTTTTTCATTTTGCAGATGTCTCGCAAGGAAATCAGTGAACCAAGATGATTAGGC
45755970 TATTTCTCTCTGGAAAATCATGTATTACAAATCAGAAAAAGATGGGTTTTTATAACCCTTTTGTA
1 TATTTCTCTCTGGAAAATCATGTATTACAAATCAGAAAAAGATGGGTTTTTATAACCC-TTTGTA
45756035 AGTGATTTACAATCTGGGAAAGAAATCTTTTGATTTCTTTTCATATTTTGCCTCTGTTTTCTGTT
65 AGTGATTTACAATCTGGGAAAGAAATCTTTTGATTTCTTTTCATATTTTGCCTCTGTTTTCTGTT
*
45756100 GTGGTTTTTTCATTTTGCAGATGTCTCGCAAGGAAATCAGTGAACCAGGATGATTAGGC
130 GTGGTTTTTTCATTTTGCAGATGTCTCGCAAGGAAATCAGTGAACCAAGATGATTAGGC
45756159 CCTGATGGCG
Statistics
Matches: 187, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
188 58 0.31
189 129 0.69
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (188 bp):
TATTTCTCTCTGGAAAATCATGTATTACAAATCAGAAAAAGATGGGTTTTTATAACCCTTTGTAA
GTGATTTACAATCTGGGAAAGAAATCTTTTGATTTCTTTTCATATTTTGCCTCTGTTTTCTGTTG
TGGTTTTTTCATTTTGCAGATGTCTCGCAAGGAAATCAGTGAACCAAGATGATTAGGC
Found at i:45757782 original size:21 final size:21
Alignment explanation
Indices: 45757757--45757821 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
45757747 TAGCCTTCGG
45757757 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
45757778 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
45757796 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
45757817 GCTTC
1 GCTTC
45757822 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:45757782 original size:39 final size:39
Alignment explanation
Indices: 45757739--45757839 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
45757729 GCTCTGATGA
*
45757739 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
45757778 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
45757817 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
45757840 AGATTATGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.13, C:0.27, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:45758693 original size:26 final size:26
Alignment explanation
Indices: 45758664--45758715 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45758654 TAGTAAATTG
45758664 CTTATTATTTTCATGCGAGCTTACTA
1 CTTATTATTTTCATGCGAGCTTACTA
45758690 CTTATTATTTTCATGCGAGCTTACTA
1 CTTATTATTTTCATGCGAGCTTACTA
45758716 AGCGTAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (26 bp):
CTTATTATTTTCATGCGAGCTTACTA
Found at i:45761113 original size:21 final size:21
Alignment explanation
Indices: 45761075--45761191 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
45761065 CCTGATCAGT
** * *
45761075 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
* *
45761096 AAACGACACACTAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
45761117 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
45761138 ATATGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
45761159 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
45761180 AAATACGACACA
1 --ATACGACACA
45761192 TAAAGTGTCT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
21 75 0.88
23 10 0.12
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:45761594 original size:14 final size:14
Alignment explanation
Indices: 45761575--45761630 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
45761565 CATGTATATT
*
45761575 ATATAAGTCAATCA
1 ATATAATTCAATCA
45761589 ATATAAATTCAATCA
1 ATAT-AATTCAATCA
45761604 A-ATAATTTCAATCA
1 ATATAA-TTCAATCA
45761618 ATATAAATTCAAT
1 ATAT-AATTCAAT
45761631 AAATTCATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 2 0.05
14 15 0.41
15 18 0.49
16 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:45761602 original size:15 final size:15
Alignment explanation
Indices: 45761582--45761630 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
45761572 ATTATATAAG
45761582 TCAATCAATATAAAT
1 TCAATCAATATAAAT
*
45761597 TCAATCAA-ATAATT
1 TCAATCAATATAAAT
45761611 TCAATCAATATAAAT
1 TCAATCAATATAAAT
45761626 TCAAT
1 TCAAT
45761631 AAATTCATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (15 bp):
TCAATCAATATAAAT
Found at i:45764194 original size:38 final size:38
Alignment explanation
Indices: 45764134--45764211 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
45764124 TTCACATACG
45764134 CCCCTTTCCTCGAACTTAGAAGACCCAAGCCTGTCTTT
1 CCCCTTTCCTCGAACTTAGAAGACCCAAGCCTGTCTTT
* * *
45764172 CCCCTTTCCTTTG-ACTTGGAAGACCCAAGCTTGTCTTT
1 CCCCTTTCC-TCGAACTTAGAAGACCCAAGCCTGTCTTT
45764210 CC
1 CC
45764212 TTAGACCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 34 0.94
39 2 0.06
ACGTcount: A:0.18, C:0.36, G:0.14, T:0.32
Consensus pattern (38 bp):
CCCCTTTCCTCGAACTTAGAAGACCCAAGCCTGTCTTT
Found at i:45772127 original size:50 final size:49
Alignment explanation
Indices: 45772007--45772201 Score: 210
Period size: 50 Copynumber: 3.8 Consensus size: 49
45771997 ACCGAAAAAA
* * *
45772007 ATGAATGCAACAAAAACAAACAATGAAACATAATTAAAAACACCACTATATTT
1 ATGAATGCAAC-AAAACAATCAATGAAACATAAAT-AAAACA--ACTTTATTT
* *
45772060 ATAAATGCAACAAAACAATCAATGAAAGCATAAATAAAATAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAA-CATAAATAAAACAACTTTATTT
* * *
45772110 ATGAATGTAACAAAACAATCAATGAAGCATAAGTAAAGAAAACACAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAA--A-CA-TAAA-TAAA-ACAACTTTATTT
*
45772165 ATGAATGCAACAAAACATTCAATGAAACATAAATAAA
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAA
45772202 TAAATAAAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
50 35 0.29
51 4 0.03
52 23 0.19
53 21 0.17
54 3 0.02
55 35 0.29
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.23
Consensus pattern (49 bp):
ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACAACTTTATTT
Found at i:45772166 original size:55 final size:53
Alignment explanation
Indices: 45772007--45772232 Score: 237
Period size: 55 Copynumber: 4.2 Consensus size: 53
45771997 ACCGAAAAAA
* * * *
45772007 ATGAATGCAACAAAAACAAACAATGAAACATAAT-TAAAAACACCACTATATTT
1 ATGAATGCAAC-AAAACAATCAATGAAACATAATAAAAAAACACAACTTTATTT
* * *
45772060 ATAAATGCAACAAAACAATCAATGAAAGC---ATAAATAAA-ATAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAA-CATAATAAAAAAACACAACTTTATTT
* *
45772110 ATGAATGTAACAAAACAATCAATGAAGCATAAGTAAAGAAAACACAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAACATAA-TAAA-AAAACACAACTTTATTT
* *
45772165 ATGAATGCAACAAAACATTCAATGAAACATAAATAAATAAATAAAAACAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAACAT-AAT--A-AAA-AAACACAACTTTATTT
45772223 ATGAATGCAA
1 ATGAATGCAA
45772233 ATTTGATTAA
Statistics
Matches: 144, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
49 1 0.01
50 35 0.24
51 4 0.03
52 16 0.11
53 15 0.10
54 3 0.02
55 39 0.27
56 2 0.01
57 2 0.01
58 27 0.19
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (53 bp):
ATGAATGCAACAAAACAATCAATGAAACATAATAAAAAAACACAACTTTATTT
Found at i:45777430 original size:2 final size:2
Alignment explanation
Indices: 45777423--45777472 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
45777413 AAGAAATACC
*
45777423 AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45777465 AG AG AG AG
1 AG AG AG AG
45777473 TTTATATGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45792254 original size:27 final size:27
Alignment explanation
Indices: 45792192--45792333 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
45792182 AGCATGGCTG
* *
45792192 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
45792218 CAAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
45792246 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
45792273 CCAGATCCGATATTTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * * *
45792300 CCAGATCAGATATTTCTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
45792327 CCAGAAC
1 CCAGAAC
45792334 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 79 0.78
28 16 0.16
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:45792478 original size:26 final size:27
Alignment explanation
Indices: 45792434--45792508 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
45792424 CAAAATTAAC
* ** *
45792434 CCTAGGGGTATAACGGTAATTGTGC-A
1 CCTAAGGGTATAATAGTAATTGTCCAA
*
45792460 CCTAAGGGTATAATAGTAATTTTCCATA
1 CCTAAGGGTATAATAGTAATTGTCCA-A
* *
45792488 CATAAGGGTATTATAGTAATT
1 CCTAAGGGTATAATAGTAATT
45792509 TAGCTACTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 20 0.50
28 20 0.50
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (27 bp):
CCTAAGGGTATAATAGTAATTGTCCAA
Found at i:45793985 original size:26 final size:26
Alignment explanation
Indices: 45793949--45794058 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
45793939 CATGAAATTC
45793949 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
45793975 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
45794001 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
45794027 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
45794053 TTATCA
1 TTATCA
45794059 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:45801490 original size:26 final size:26
Alignment explanation
Indices: 45801455--45801507 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
45801445 CTTTTGTTTC
45801455 TCTAATTAGATCAACCTCGTGAATCT
1 TCTAATTAGATCAACCTCGTGAATCT
45801481 TCTAATTAGATCAACCTCGTGAATCT
1 TCTAATTAGATCAACCTCGTGAATCT
45801507 T
1 T
45801508 ATTCTCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (26 bp):
TCTAATTAGATCAACCTCGTGAATCT
Found at i:45802531 original size:30 final size:30
Alignment explanation
Indices: 45802486--45802544 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
45802476 CTTAACAAGA
*
45802486 AAATACCTCTAAAATAATAATAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* *
45802516 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
45802545 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:45810146 original size:5 final size:5
Alignment explanation
Indices: 45810136--45810163 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45810126 AATAATTAAG
45810136 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
45810164 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:45819215 original size:52 final size:52
Alignment explanation
Indices: 45819147--45819251 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
45819137 TATTCATTCA
*
45819147 TTCTTAGTGTTGATTAATAGTAGCTTAAGTTTCTGTCAAATTGTATACATTT
1 TTCTGAGTGTTGATTAATAGTAGCTTAAGTTTCTGTCAAATTGTATACATTT
*
45819199 TTCTGAGTGTTTATTAATAGTAGCTTAAGTTTCTGTCAAATTGTATACATTT
1 TTCTGAGTGTTGATTAATAGTAGCTTAAGTTTCTGTCAAATTGTATACATTT
45819251 T
1 T
45819252 GAGCTTCTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (52 bp):
TTCTGAGTGTTGATTAATAGTAGCTTAAGTTTCTGTCAAATTGTATACATTT
Found at i:45824853 original size:4 final size:4
Alignment explanation
Indices: 45824846--45824878 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
45824836 AACAAAACAA
*
45824846 ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
45824879 TAATTCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:45825709 original size:27 final size:28
Alignment explanation
Indices: 45825679--45825739 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
45825669 GTATACTTTT
45825679 ATATATTTTAA-ATAAAT-TT-CAATAGAA
1 ATATATTTTAATATAAATATTAC-ATA-AA
*
45825706 ATATA-CTTAATATAAATATTACATAAA
1 ATATATTTTAATATAAATATTACATAAA
45825733 ATATATT
1 ATATATT
45825740 AAAGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
26 4 0.14
27 18 0.64
28 5 0.18
29 1 0.04
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATATTTTAATATAAATATTACATAAA
Found at i:45826725 original size:13 final size:13
Alignment explanation
Indices: 45826707--45826733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45826697 TGTCTTGACC
45826707 TCGAGGGGGCGAA
1 TCGAGGGGGCGAA
45826720 TCGAGGGGGCGAA
1 TCGAGGGGGCGAA
45826733 T
1 T
45826734 TTCAGGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.52, T:0.11
Consensus pattern (13 bp):
TCGAGGGGGCGAA
Found at i:45827213 original size:29 final size:29
Alignment explanation
Indices: 45827146--45827217 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
45827136 AGTCATATTT
*
45827146 AAAGGGCTCAATTAATTACTACCTTTCAAT
1 AAAGGGCTCAATTAATTAC-ACCTTTCAAC
* * * *
45827176 TAAGAGCTCAATTGATTGA-ACTTTTCAAC
1 AAAGGGCTCAATTAATT-ACACCTTTCAAC
45827205 AAAGGGCTCAATT
1 AAAGGGCTCAATT
45827218 TTTTAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 19 0.56
30 14 0.41
31 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (29 bp):
AAAGGGCTCAATTAATTACACCTTTCAAC
Found at i:45828148 original size:78 final size:78
Alignment explanation
Indices: 45828019--45828326 Score: 598
Period size: 78 Copynumber: 3.9 Consensus size: 78
45828009 GAGTCACATC
* *
45828019 TCATGTAATTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
45828084 AATGAATCATATA
66 AATGAATCATATA
45828097 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
45828162 AATGAATCATATA
66 AATGAATCATATA
45828175 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
45828240 AATGAATCATATA
66 AATGAATCATATA
45828253 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
45828318 AATGAATCA
66 AATGAATCA
45828327 GGAATAAATC
Statistics
Matches: 228, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 228 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
AATGAATCATATA
Found at i:45828376 original size:40 final size:40
Alignment explanation
Indices: 45828291--45828387 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
45828281 CTTTTCAGGT
* * ** **
45828291 CAAATCCTATCCACCTTAGGTTACCATAATGAATCAGGAA
1 CAAATCATATCCACTTTAAATTACCATAATGAATCAAAAA
* * *
45828331 TAAATCATATTCACTTTAAATTACCATAGTGAATCAAAAA
1 CAAATCATATCCACTTTAAATTACCATAATGAATCAAAAA
*
45828371 CAAATCCTATCCACTTT
1 CAAATCATATCCACTTT
45828388 GAGGTGTTAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (40 bp):
CAAATCATATCCACTTTAAATTACCATAATGAATCAAAAA
Found at i:45836256 original size:30 final size:28
Alignment explanation
Indices: 45836220--45836283 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
45836210 AATTATTCCA
*
45836220 AAAATAATATTATTTTAATAGTTTAATATT
1 AAAATAATATTATCTTAATA-TTTAAT-TT
45836250 AAAAT-A-ATTATCTTAATATTTAATTT
1 AAAATAATATTATCTTAATATTTAATTT
*
45836276 AATATAAT
1 AAAATAAT
45836284 GTTTATCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.20
27 7 0.23
28 11 0.37
29 1 0.03
30 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
AAAATAATATTATCTTAATATTTAATTT
Found at i:45838576 original size:21 final size:20
Alignment explanation
Indices: 45838532--45838576 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
45838522 TAAAACCCTA
45838532 ATTTCTCCTTTTTCTTTTCT
1 ATTTCTCCTTTTTCTTTTCT
45838552 -TTTCTCCTTTCTT-TCTTTCT
1 ATTTCTCCTTT-TTCT-TTTCT
45838572 ATTTC
1 ATTTC
45838577 GTTTGGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTCTCCTTTTTCTTTTCT
Found at i:45838795 original size:3 final size:3
Alignment explanation
Indices: 45838789--45838825 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
45838779 CAATTATTAG
45838789 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45838826 GTAAATATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45844650 original size:16 final size:17
Alignment explanation
Indices: 45844621--45844652 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45844611 GTTTCCATAT
45844621 ATCATTTATCATGTATC
1 ATCATTTATCATGTATC
45844638 ATCATTT-TCATGTAT
1 ATCATTTATCATGTAT
45844653 TTCAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (17 bp):
ATCATTTATCATGTATC
Found at i:45846500 original size:43 final size:43
Alignment explanation
Indices: 45846452--45846608 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
45846442 AGCTCATACA
45846452 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * *
45846495 ATGCC-ACTATCCCAAACAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* * *
45846537 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAT-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
*
45846581 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
45846609 CGAGAACACA
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.27
43 38 0.40
44 31 0.33
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:45848109 original size:17 final size:17
Alignment explanation
Indices: 45848087--45848119 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45848077 TTTTTATTAT
*
45848087 TTATCATTTATCGGGCA
1 TTATCATTAATCGGGCA
45848104 TTATCATTAATCGGGC
1 TTATCATTAATCGGGC
45848120 TTTTTCGATT
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:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (17 bp):
TTATCATTAATCGGGCA
Found at i:45858162 original size:22 final size:20
Alignment explanation
Indices: 45858114--45858153 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
45858104 ATAATAATTA
45858114 ATTATTTTCTTTTATTTTAC
1 ATTATTTTCTTTTATTTTAC
45858134 ATTATTTATCTCTTTATTTT
1 ATTATTT-TCT-TTTATTTT
45858154 TCTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTATTTTCTTTTATTTTAC
Found at i:45859590 original size:6 final size:6
Alignment explanation
Indices: 45859579--45859620 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
45859569 GTATTCGATT
45859579 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
45859621 GGTGTTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCTCC
Found at i:45866328 original size:9 final size:9
Alignment explanation
Indices: 45866316--45866342 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45866306 ATATAGGGGC
45866316 TAAAATGAA
1 TAAAATGAA
45866325 TAAAATGAA
1 TAAAATGAA
45866334 TAAAATGAA
1 TAAAATGAA
45866343 AAATATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (9 bp):
TAAAATGAA
Found at i:45866880 original size:36 final size:37
Alignment explanation
Indices: 45866834--45866917 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 37
45866824 TTTAAACATC
*
45866834 TGATGAGGTGCGAT-GCACATTTTACTTCAGCTATAT
1 TGATGAGGTGCGATAGAACATTTTACTTCAGCTATAT
* * *
45866870 TGATGGGGTGC-ATAGAACATTTTACTTCGGTTATAT
1 TGATGAGGTGCGATAGAACATTTTACTTCAGCTATAT
45866906 TGATGAGGTGCG
1 TGATGAGGTGCG
45866918 GAGTGCAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 2 0.05
36 39 0.95
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (37 bp):
TGATGAGGTGCGATAGAACATTTTACTTCAGCTATAT
Found at i:45870201 original size:39 final size:39
Alignment explanation
Indices: 45870158--45870237 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
45870148 TAACTCGGGC
* * *
45870158 CTGATTACTGGACTAGGTGAGGGGTGTTATAGTTTTTTT
1 CTGATTACCGGACCAGGCGAGGGGTGTTATAGTTTTTTT
*
45870197 CTGATTACCGGACCGGGCGAGGGGTGTTATAGTTTTTTT
1 CTGATTACCGGACCAGGCGAGGGGTGTTATAGTTTTTTT
45870236 CT
1 CT
45870238 TAGTATATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.40
Consensus pattern (39 bp):
CTGATTACCGGACCAGGCGAGGGGTGTTATAGTTTTTTT
Found at i:45871754 original size:40 final size:42
Alignment explanation
Indices: 45871704--45871785 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
45871694 GTTTAGGGTT
45871704 TCCTCATTTGGC-TATTATA-ACACTTTCCCTAGGGTAAATC
1 TCCTCATTTGGCTTATTATAGACACTTTCCCTAGGGTAAATC
* * * **
45871744 TCCTCCTTTGGCTTTTTATAGGCTTTTTCCCTAGGGTAAATC
1 TCCTCATTTGGCTTATTATAGACACTTTCCCTAGGGTAAATC
45871786 CAACAACCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 11 0.31
41 6 0.17
42 18 0.51
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (42 bp):
TCCTCATTTGGCTTATTATAGACACTTTCCCTAGGGTAAATC
Found at i:45873946 original size:52 final size:48
Alignment explanation
Indices: 45873861--45874031 Score: 201
Period size: 46 Copynumber: 3.6 Consensus size: 48
45873851 TTTGAGTACT
* *
45873861 TCTGATCAAGTGAC--AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* * ** *
45873907 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGAGACAA----AAAGTGATAAGTGATAGCTTTAGCTACACTTA
45873959 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
45874005 TCTGATCAAGAGAC--AAAGTGATAAGTG
1 TCTGATCAAGAGACAAAAAGTGATAAGTG
45874032 GCTACACTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 69 0.63
52 40 0.37
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:45874039 original size:37 final size:37
Alignment explanation
Indices: 45873995--45874103 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
45873985 GATAGCTTTA
45873995 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
45874032 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
45874069 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
45874104 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:45876716 original size:20 final size:19
Alignment explanation
Indices: 45876666--45876718 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
45876656 CTATAAAATA
45876666 AATATTAAATT-A-AATCT
1 AATATTAAATTAATAATCT
*
45876683 AATATTAAGA-TAATCAATTT
1 AATATTAA-ATTAAT-AATCT
45876703 AATATTAAATTAATAA
1 AATATTAAATTAATAA
45876719 AATATTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 3 0.10
20 16 0.53
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATTAAATTAATAATCT
Found at i:45876774 original size:68 final size:70
Alignment explanation
Indices: 45876611--45876777 Score: 180
Period size: 68 Copynumber: 2.4 Consensus size: 70
45876601 TATAAGTATT
* * *
45876611 ATATTAAATCTAATATTAAAT-CTATTAAATTAATAGAATATTTATCTATAAAATAAATATTAAA
1 ATATTAAATCT-AT-TAAAATAATATTAAATTAATAAAATATTTATC--TAAAATAAATATTAAA
45876675 TTAAATCTA
62 TTAAATCTA
* * ** *
45876684 ATATTAAGAT-AATCAATTTAATATTAAATTAATAAAATA-TTATC-AAGATAAATATTAAATTA
1 ATATTAA-ATCTATTAAAATAATATTAAATTAATAAAATATTTATCTAAAATAAATATTAAATTA
*
45876746 AATTTA
65 AATCTA
45876752 ATATTAAATCTATTAAAATAATATTA
1 ATATTAAATCTATTAAAATAATATTA
45876778 CTTTTAGAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
67 2 0.03
68 41 0.53
71 7 0.09
72 19 0.24
73 7 0.09
74 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (70 bp):
ATATTAAATCTATTAAAATAATATTAAATTAATAAAATATTTATCTAAAATAAATATTAAATTAA
ATCTA
Found at i:45877111 original size:36 final size:36
Alignment explanation
Indices: 45877061--45877141 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
45877051 TGACCAGATT
45877061 TAATATTAAATTAAA-TTAATA-AAATACTATCAAAA
1 TAATATTAAATTAAATTTAATATAAATA-TATCAAAA
*
45877096 TAAGTATTAAATTAAATTTAATATTAAATATATTAAAA
1 TAA-TATTAAATTAAATTTAATA-TAAATATATCAAAA
45877134 TAATATTA
1 TAATATTA
45877142 TTTTTGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 12 0.29
37 11 0.27
38 10 0.24
39 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (36 bp):
TAATATTAAATTAAATTTAATATAAATATATCAAAA
Found at i:45880002 original size:26 final size:28
Alignment explanation
Indices: 45879973--45880024 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
45879963 TTGTTAAAAC
*
45879973 TCTTCTAAA-AAAAACTCA-AGAGAAAT
1 TCTTCAAAAGAAAAACTCAGAGAGAAAT
*
45879999 TCTTGAAAAGAAAAACTCAGAGAGAA
1 TCTTCAAAAGAAAAACTCAGAGAGAA
45880025 TTTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 9 0.41
28 6 0.27
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (28 bp):
TCTTCAAAAGAAAAACTCAGAGAGAAAT
Found at i:45880713 original size:30 final size:29
Alignment explanation
Indices: 45880677--45880744 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
45880667 ATTTTATCAT
*
45880677 AAATTATATATGC-AATAGATTTTAAAAA
1 AAATTATATATACAAATAGATTTTAAAAA
* *
45880705 CATAATTATGTATACAAATAGATTTTAACAA
1 -A-AATTATATATACAAATAGATTTTAAAAA
45880736 AAATTATAT
1 AAATTATAT
45880745 GTATAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.24
30 11 0.33
31 14 0.42
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (29 bp):
AAATTATATATACAAATAGATTTTAAAAA
Found at i:45880725 original size:31 final size:30
Alignment explanation
Indices: 45880690--45880754 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
45880680 TTATATATGC
*
45880690 AATAGATTTTAA-AAACATAATTATGTATACA
1 AATAGATTTTAACAAAAATAA-TATGTATA-A
*
45880721 AATAGATTTTAACAAAAATTATATGTATAA
1 AATAGATTTTAACAAAAATAATATGTATAA
45880751 AATA
1 AATA
45880755 ACATGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 20 0.65
32 6 0.19
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (30 bp):
AATAGATTTTAACAAAAATAATATGTATAA
Found at i:45888948 original size:54 final size:54
Alignment explanation
Indices: 45888889--45888997 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
45888879 GATAAAAGTA
*
45888889 CTCCTAAACAAGACGTTTTTGAGGGAAAAAAATACTTTTCAAAAGTAGAAAATG
1 CTCCTAAACAAGACGTTTTTGAGGGAAAAAAACACTTTTCAAAAGTAGAAAATG
*
45888943 CTCCTAAACAAGACGTTTTTGAGGGAAAAAAACATTTTTCAAAAGTAGAAAATG
1 CTCCTAAACAAGACGTTTTTGAGGGAAAAAAACACTTTTCAAAAGTAGAAAATG
45888997 C
1 C
45888998 CCCAAAAGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (54 bp):
CTCCTAAACAAGACGTTTTTGAGGGAAAAAAACACTTTTCAAAAGTAGAAAATG
Found at i:45899161 original size:14 final size:15
Alignment explanation
Indices: 45899142--45899172 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45899132 TGATAGCAAG
45899142 TTAATTT-TATGCTT
1 TTAATTTATATGCTT
45899156 TTAATTTATATGCTT
1 TTAATTTATATGCTT
45899171 TT
1 TT
45899173 GGCTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (15 bp):
TTAATTTATATGCTT
Found at i:45901723 original size:98 final size:98
Alignment explanation
Indices: 45901617--45901814 Score: 351
Period size: 98 Copynumber: 2.0 Consensus size: 98
45901607 ATTGAAGCAT
* *
45901617 TTTCATTAATAGTGCAAATAATAATTTATTGAATAATTTCAATATCATTTTGGTATTTAAATTTT
1 TTTCATTAATAGTGCAAATAATAATTTATTGAATAATTTCAATATCATTTTGGCATTTAAAATTT
45901682 TTTAAATTCAATCAACATACAGATGTCATATAA
66 TTTAAATTCAATCAACATACAGATGTCATATAA
* * *
45901715 TTTCATTAATAGTGTAAATAATAATTTCTTGAATAATTTCAATATTATTTTGGCATTTAAAATTT
1 TTTCATTAATAGTGCAAATAATAATTTATTGAATAATTTCAATATCATTTTGGCATTTAAAATTT
45901780 TTTAAATTCAATCAACATACAGATGTCATATAA
66 TTTAAATTCAATCAACATACAGATGTCATATAA
45901813 TT
1 TT
45901815 ATTTGGTATA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (98 bp):
TTTCATTAATAGTGCAAATAATAATTTATTGAATAATTTCAATATCATTTTGGCATTTAAAATTT
TTTAAATTCAATCAACATACAGATGTCATATAA
Found at i:45909145 original size:7 final size:7
Alignment explanation
Indices: 45909134--45909173 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
45909124 TACAATATTA
45909134 AAAAATAT
1 AAAAA-AT
45909142 AAAAAAT
1 AAAAAAT
45909149 ACAAGAAAT
1 A-AA-AAAT
45909158 AAAAAAT
1 AAAAAAT
45909165 AAAAAAT
1 AAAAAAT
45909172 AA
1 AA
45909174 TTTTTTTACC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.53
8 9 0.30
9 5 0.17
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:45909161 original size:16 final size:14
Alignment explanation
Indices: 45909134--45909173 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
45909124 TACAATATTA
45909134 AAAAATATAAAAAAT
1 AAAAA-ATAAAAAAT
45909149 ACAAGAAATAAAAAAT
1 A-AA-AAATAAAAAAT
45909165 AAAAAATAA
1 AAAAAATAA
45909174 TTTTTTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 12 0.52
17 2 0.09
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:45909301 original size:16 final size:16
Alignment explanation
Indices: 45909282--45909317 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45909272 CTTTTCCCCC
45909282 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
45909298 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
45909314 CTCT
1 CTCT
45909318 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:45909851 original size:26 final size:25
Alignment explanation
Indices: 45909794--45909851 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
45909784 ATTCTTATTT
* *
45909794 TATTTTTATATCATTATATTTTATC
1 TATTTTTATATCATTATATTATATA
* *
45909819 CACTTTTTATATTATTATTATTATATA
1 TA-TTTTTATATCATTA-TATTATATA
45909846 TATTTT
1 TATTTT
45909852 AATCTTACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.04
26 17 0.65
27 8 0.31
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTTTATATCATTATATTATATA
Found at i:45923175 original size:76 final size:74
Alignment explanation
Indices: 45922880--45923215 Score: 437
Period size: 76 Copynumber: 4.5 Consensus size: 74
45922870 TTTGTTTTTC
*
45922880 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
*
45922944 TGTTGTTAAAA
65 TGTT-TTTAAA
** *
45922955 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
45923020 G-TTTT-CA
66 GTTTTTAAA
* * ** * *
45923027 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
45923092 ATTTTTAAA
66 GTTTTTAAA
* * *
45923101 AAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
45923165 TCTGTTTTTAAA
63 TCTGTTTTTAAA
* *
45923177 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
45923216 ATTACACACT
Statistics
Matches: 229, Mismatches: 25, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
72 61 0.27
73 7 0.03
74 39 0.17
75 57 0.25
76 64 0.28
77 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTAAA
Found at i:45923235 original size:76 final size:73
Alignment explanation
Indices: 45922862--45923215 Score: 430
Period size: 72 Copynumber: 4.8 Consensus size: 73
45922852 GAGTTAAGCC
* * *
45922862 TTTT-AATTTTTGTTTTT-CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
45922925 CTGAGGTAA
66 CTGAGGT-A
* **
45922934 TTTT-AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTT-TT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
45922998 CGCTGAGGTA
64 CGCTGAGGTA
* * * * ** *
45923008 ATTTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
45923072 TTGAGGTA
66 CTGAGGTA
* * *
45923080 TTTTCAATTTCTATTTTTAAAAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTC-GGTTCA
1 TTTTCAATTTCTGTTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
*
45923144 CATGCTGAGGTA
62 CACGCTGAGGTA
*
45923156 TTTTCAATTTCTGTTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGTTTTTAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
45923216 ATTACACACT
Statistics
Matches: 244, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
72 74 0.30
73 9 0.04
74 39 0.16
75 62 0.25
76 59 0.24
77 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:45923466 original size:199 final size:199
Alignment explanation
Indices: 45923236--45923675 Score: 853
Period size: 199 Copynumber: 2.2 Consensus size: 199
45923226 GTGGTATTTT
45923236 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
1 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
45923301 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTCCAAAAT
66 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTCCAAAAT
45923366 CAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
131 CAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
45923431 TTAA
196 TTAA
*
45923435 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
1 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
45923500 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAAT
66 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTCCAAAAT
45923565 CAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
131 CAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
45923630 TTAA
196 TTAA
*
45923634 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
45923676 ACGCCGAGGT
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 237 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (199 bp):
TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTCCAAAAT
CAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
TTAA
Found at i:45923491 original size:72 final size:73
Alignment explanation
Indices: 45923363--45923537 Score: 210
Period size: 72 Copynumber: 2.4 Consensus size: 73
45923353 ACTTTTCCAA
* * ** * * * *
45923363 AATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
*
45923428 GTT-TTAA-
66 -TTGTCAAG
** *
45923435 TTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
45923500 TTGTCAAG
66 TTGTCAAG
*
45923508 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
45923538 ACCTTTTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
71 2 0.02
72 57 0.67
73 26 0.31
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (73 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAG
Found at i:45923831 original size:88 final size:87
Alignment explanation
Indices: 45923636--45923881 Score: 289
Period size: 88 Copynumber: 2.8 Consensus size: 87
45923626 TGTTTTAATT
*
45923636 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TCT
* * *
45923700 CTTTTGATTTCTGTTTTTCAAAAAAA
62 GTTTTCATTTATGTTTTTCAAAAAAA
* *
45923726 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
* *
45923791 TCATTATTATGTTTTT-GAAAGAA
66 TCA-T-TTATGTTTTTCAAAAAAA
** * * ** *
45923814 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
45923879 TCA
66 TCA
45923882 AAATTCAACT
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 81 0.60
89 9 0.07
90 40 0.29
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTCAAAAAAA
Found at i:45924067 original size:73 final size:72
Alignment explanation
Indices: 45923814--45924211 Score: 654
Period size: 73 Copynumber: 5.5 Consensus size: 72
45923804 TTTGAAAGAA
* *
45923814 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
45923879 TCAAAAT
66 TCAAAAT
* *
45923886 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
45923951 TCAAAAT
66 TCAAAAT
*
45923958 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
45924023 TTCAAAAT
65 TTCAAAAT
*
45924031 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
45924096 TTCAAAAT
65 TTCAAAAT
* * *
45924104 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
45924169 TCAAAAAAA
66 TC--AAAAT
45924178 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
45924212 GTTCACATGT
Statistics
Matches: 314, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
72 135 0.43
73 145 0.46
74 34 0.11
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:45924085 original size:145 final size:145
Alignment explanation
Indices: 45923814--45924211 Score: 656
Period size: 145 Copynumber: 2.7 Consensus size: 145
45923804 TTTGAAAGAA
* *
45923814 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
45923879 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCATTGAGGTAATTTCAATT
66 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
45923944 TCTG-TTTTCAAAAT
131 TCTGCTTTTCAAAAT
*
45923958 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
* *
45924023 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
65 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAAT
45924088 TTCTGCTTTTCAAAAT
130 TTCTGCTTTTCAAAAT
* * *
45924104 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
45924169 TCAAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
66 TC--AAAATTCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
45924212 GTTCACATGT
Statistics
Matches: 238, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
144 59 0.25
145 73 0.31
146 72 0.30
147 34 0.14
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (145 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
TCTGCTTTTCAAAAT
Found at i:45926749 original size:44 final size:43
Alignment explanation
Indices: 45926701--45927188 Score: 202
Period size: 44 Copynumber: 11.1 Consensus size: 43
45926691 GAAATAGACT
*
45926701 GAAGATTACAGATCTTATCTCCCTAAGCAATAGCGGAGCAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * *
45926745 GAAGACGGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAACAG-GC
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCAGATC
*
45926788 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * * * *
45926833 AAAGACGGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTG
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCA-GATC
45926878 GAA-ATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * * *
45926921 AAAGACGGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAACAG-GC
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCAGATC
*
45926964 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * * *
45927009 AAAGACGGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAACAG-GC
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCAGATC
*
45927052 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * *
45927097 GAA-A--ACAGTGAGCCTTAAC-CCCTTAAGCA-TAGGGTAACAG-GC
1 GAAGATTACA--GA-TCTTATCTCCC-TAAGCAGTAGGG-AGCAGATC
* * * *
45927139 TGAAAATTATAGATCTTATCTCCCTAAGCAATGGTGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
45927184 GAAGA
1 GAAGA
45927189 CGGCGAATCT
Statistics
Matches: 318, Mismatches: 81, Indels: 90
0.65 0.17 0.18
Matches are distributed among these distances:
41 3 0.01
42 7 0.02
43 50 0.16
44 226 0.71
45 26 0.08
46 6 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (43 bp):
GAAGATTACAGATCTTATCTCCCTAAGCAGTAGGGAGCAGATC
Found at i:45926797 original size:88 final size:88
Alignment explanation
Indices: 45926699--45927191 Score: 855
Period size: 88 Copynumber: 5.6 Consensus size: 88
45926689 AGGAAATAGA
* * *
45926699 CTGAAGATTACAGATCTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
45926764 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
45926787 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
45926852 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
* *
45926875 TTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
45926940 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
45926963 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
45927028 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
*
45927051 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAA-ACAGTGAGCCTTAA
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC-AAAGACGGTGAGCCTTAA
*
45927115 CCCCTTAAGCA-TAGGGTAACAGG
65 CCCCCTAAGCAGTAGGGTAACAGG
* * * * *
45927138 CTGAAAATTATAGATCTTATCTCCCTAAGCAATGGTGGAGCAGATCGAAGACGG
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGG
45927192 CGAATCTTGT
Statistics
Matches: 388, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
86 2 0.01
87 57 0.15
88 326 0.84
89 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (88 bp):
CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGTGAGCCTTAAC
CCCCTAAGCAGTAGGGTAACAGG
Found at i:45930495 original size:4 final size:5
Alignment explanation
Indices: 45930431--45930513 Score: 55
Period size: 6 Copynumber: 15.8 Consensus size: 5
45930421 TATCTCTTTC
* *
45930431 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAATT AAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAA-T AAAA-T AAAAT
*
45930479 AAAAAT AAAAT -AAAT AAAAT AAAATT AGAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAA
45930514 AAAGATGATT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 25 0.40
6 29 0.47
7 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:45937286 original size:88 final size:88
Alignment explanation
Indices: 45937188--45937728 Score: 683
Period size: 88 Copynumber: 6.2 Consensus size: 88
45937178 GTTGAAATCA
* * *
45937188 ACAATTCGTATCTCCTTGAAGTT-TCAGCAGAGTAGATCAAAGTTACAAATCTCTTCTCCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTCT-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
45937252 ATGACATTGGAGCGGCTCGAAGCC
65 ATGACATTGGAGCGGCTCGAAGCC
* * * *
45937276 ACAATTCGTATCTCCTTGAAGCTCCAGCGGAGTAGATCAAAGCTGCAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
45937341 TGGCATTAGAGCAGCTCGAAGCC
66 TGACATTGGAGCGGCTCGAAGCC
* * * * ** * * * * *
45937364 ATAGTTCGTATCTCCTTGAAATTCCAGTTGAGTAGACCGAGGCTACAAATTTTTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
45937429 TGGCATTGGAGCGGCTCGAAGCC
66 TGACATTGGAGCGGCTCGAAGCC
* * *
45937452 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGGTCGAGGCTA-TAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
45937516 TGACATTGGAACGGCTCGAAGTC
66 TGACATTGGAGCGGCTCGAAGCC
* * *
45937539 ATAATTCGTATCTCTTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
45937604 TGACATTGGAGCGGCTCGAAGCC
66 TGACATTGGAGCGGCTCGAAGCC
* ** * * *
45937627 ATAATTTTTATCTCCTTGAAGTTCTAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCTTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
45937692 TGGCATTGTAGC-GATTGAAGCC
66 TGACATTGGAGCGGCTCGAAGCC
*
45937714 ACAATTCTTATCTCC
1 ACAATTCGTATCTCC
45937729 CTAAAGTTGT
Statistics
Matches: 392, Mismatches: 59, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
87 96 0.24
88 296 0.76
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGACATTGGAGCGGCTCGAAGCC
Found at i:45937623 original size:44 final size:43
Alignment explanation
Indices: 45937231--45937625 Score: 132
Period size: 44 Copynumber: 9.0 Consensus size: 43
45937221 AGATCAAAGT
45937231 TACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
1 TACAAAT-TCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
* * * * ** ** * *
45937275 CAC-AATTCGTATCTCCTTGAAGCT-CCAGCGGAGTAGATCAAAGC
1 TACAAATTC-T-TCTCCCTGAA-ATGACATTGGAGCGGCTCGAAGC
* * * *
45937319 TGCAAATCTCTTCTCCCTGAAATGGCATTAGAGCAGCTCGAAGC
1 TACAAAT-TCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
* * ** * * *
45937363 --CATAGTTCGTATCTCCTTGAAATTCCAGTT-GAGTAGAC-CGAGGC
1 TACA-AATTC-T-TCTCCCTGAAATGACA-TTGGAG-CGGCTCGAAGC
* * *
45937407 TACAAATTTTTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGC
1 TACAAA-TTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
* * * * ** * *
45937451 CAC-AATTCGTATCTCCTTGAAGT-TCTAGCGGAGTAGG-TCGAGGC
1 TACAAATTC-T-TCTCCCTGAAATGAC-ATTGGAG-CGGCTCGAAGC
* *
45937495 TA-TAATCTCTTCTCCCTGAAATGACATTGGAACGGCTCGAAG-
1 TACAAAT-TCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
** * * * ** *
45937537 T-CATAATTCGTATCTCTTTGAAGT-TCTAGTGGAGTAGATCGAAGC
1 TACA-AATTC-T-TCTCCCTGAAATGAC-ATTGGAGCGGCTCGAAGC
45937582 TACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
1 TACAAAT-TCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
45937626 CATAATTTTT
Statistics
Matches: 243, Mismatches: 75, Indels: 66
0.63 0.20 0.17
Matches are distributed among these distances:
42 13 0.05
43 40 0.16
44 160 0.66
45 20 0.08
46 10 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
TACAAATTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGC
Found at i:45937687 original size:44 final size:44
Alignment explanation
Indices: 45937549--45937687 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
45937539 ATAATTCGTA
*
45937549 TCTCTTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAAATCTCT
1 TCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAAATCTCT
* * * * ** * * *
45937593 TCTCCCTGAAATGAC-ATTGGAGCGGCTCGAAGC--CATAATTTTT
1 TCTCCTTGAAGT-TCTAGTGGAGTAGATCGAAGCTACA-AATCTCT
* *
45937636 ATCTCCTTGAAGTTCTAGCGGAGTAGATTGAAGCTACAAATCTCT
1 -TCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAAATCTCT
45937681 TCTCCTT
1 TCTCCTT
45937688 AAAATGGCAT
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
42 2 0.03
43 6 0.09
44 52 0.76
45 6 0.09
46 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
TCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAAATCTCT
Found at i:45937829 original size:45 final size:45
Alignment explanation
Indices: 45937774--45937928 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
45937764 TCTTATCTTT
* * * *
45937774 CTGAAATTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGAGTTGAAGTTATAAACCTTATCCCC
* * * *
45937819 CTGAAGTTGCAATGTGA-CAG-GTTGAAGTTACGAATCCTTATCCCT
1 CTGAAGTTGCAGTG-GAGCAGAGTTGAAGTTA-TAAACCTTATCCCC
* ** *
45937864 CTGAAGTTGCAGTGGGGCA-AGTTGAAGTTATAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGAGTTGAAGTTATAAACCTTATCCCC
45937908 CTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
45937929 CTGAAGAAAG
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
44 36 0.40
45 51 0.57
46 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
CTGAAGTTGCAGTGGAGCAGAGTTGAAGTTATAAACCTTATCCCC
Found at i:45938397 original size:20 final size:18
Alignment explanation
Indices: 45938359--45938414 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 18
45938349 CATTCAGCCC
45938359 AAACAGAAACACCAAAATAA
1 AAACA-AAAC-CCAAAATAA
45938379 TAAACAAAACCCAAGAATAA
1 -AAACAAAACCCAA-AATAA
45938399 AATTACAAAACCCAAA
1 AA--ACAAAACCCAAA
45938415 TTGCCAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.19
20 10 0.31
21 16 0.50
ACGTcount: A:0.66, C:0.21, G:0.04, T:0.09
Consensus pattern (18 bp):
AAACAAAACCCAAAATAA
Found at i:45939913 original size:16 final size:19
Alignment explanation
Indices: 45939898--45939932 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45939888 ATTTCCTATT
45939898 AACTATT-TTTCTTATTTA
1 AACTATTATTTCTTATTTA
45939916 AACTATTATTTC-TATTT
1 AACTATTATTTCTTATTT
45939933 CGCCATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (19 bp):
AACTATTATTTCTTATTTA
Found at i:45941886 original size:3 final size:3
Alignment explanation
Indices: 45941878--45941915 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
45941868 AATTTGGTTT
45941878 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45941916 TGTAAATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45948066 original size:18 final size:18
Alignment explanation
Indices: 45948040--45948076 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45948030 ATCAATTCAT
*
45948040 TCTTTTGTTAATTAGTTA
1 TCTTCTGTTAATTAGTTA
*
45948058 TCTTCTGTTAGTTAGTTA
1 TCTTCTGTTAATTAGTTA
45948076 T
1 T
45948077 TGATGGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (18 bp):
TCTTCTGTTAATTAGTTA
Found at i:45951620 original size:21 final size:22
Alignment explanation
Indices: 45951587--45951636 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
45951577 TTTTAGTTAT
* * *
45951587 ATTTTTGTCATTTAATTATT-A
1 ATTTTTTTAATTTAATCATTCA
*
45951608 ATTTTTTTAATTTAGTCATTCA
1 ATTTTTTTAATTTAATCATTCA
45951630 ATTTTTT
1 ATTTTTT
45951637 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTTTAATTTAATCATTCA
Found at i:45954596 original size:1 final size:1
Alignment explanation
Indices: 45954590--45954614 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
45954580 TTCCAGTGAG
45954590 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
45954615 ACCAATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45957683 original size:53 final size:53
Alignment explanation
Indices: 45957603--45957710 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
45957593 CTTGTGCAAT
45957603 AAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTCCAAGTCACCATGAAGAA
1 AAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTCCAAGTCACCATGAAGAA
45957656 AAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTCCAAGTCACCATGAAGAA
1 AAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTCCAAGTCACCATGAAGAA
45957709 AA
1 AA
45957711 GCGGTTTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (53 bp):
AAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTCCAAGTCACCATGAAGAA
Found at i:45972604 original size:16 final size:16
Alignment explanation
Indices: 45972559--45972605 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
45972549 ATTTTGCTAT
*
45972559 TAGTTTTCAAATTTTA
1 TAGTTTTCAATTTTTA
**
45972575 TAGTTTTCCCTTTTTA
1 TAGTTTTCAATTTTTA
45972591 TA-TTTTACAATTTTT
1 TAGTTTT-CAATTTTT
45972606 CCCCCTTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.62
Consensus pattern (16 bp):
TAGTTTTCAATTTTTA
Found at i:45972960 original size:34 final size:34
Alignment explanation
Indices: 45972889--45972988 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
45972879 AACATGACTT
* * * *
45972889 TTGCTACTG-AGTTGAACTATTATAAGCGTATTAA
1 TTGCTACTGTA-TTGAATTGTTATAAGCATAATAA
*
45972923 TTGCTACTGTATTGAATTGTTATAAGCATAATGA
1 TTGCTACTGTATTGAATTGTTATAAGCATAATAA
** *
45972957 TTGCTA-TCGTATTGTTTTGTTAAAAGCATAAT
1 TTGCTACT-GTATTGAATTGTTATAAGCATAAT
45972989 TAAATACTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 54 0.96
35 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (34 bp):
TTGCTACTGTATTGAATTGTTATAAGCATAATAA
Found at i:45973587 original size:9 final size:10
Alignment explanation
Indices: 45973565--45973589 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45973555 CTTTCTAATA
45973565 TTTTATAGCT
1 TTTTATAGCT
45973575 TTTTATAGCT
1 TTTTATAGCT
45973585 TTTTA
1 TTTTA
45973590 AATAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTTATAGCT
Found at i:45975323 original size:50 final size:50
Alignment explanation
Indices: 45975248--45975348 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
45975238 AGTGATTGAA
*
45975248 GGGAAAGAGCAGACATAAGGCATCTTTGGTGATGTCCCACAAAAGAATAG
1 GGGAAAGAGCAAACATAAGGCATCTTTGGTGATGTCCCACAAAAGAATAG
45975298 GGGAAAGAGCAAACATAAGGCATCTTTGGTGATGTCCCACAAAAGAATAG
1 GGGAAAGAGCAAACATAAGGCATCTTTGGTGATGTCCCACAAAAGAATAG
45975348 G
1 G
45975349 AATTTTCACT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.18
Consensus pattern (50 bp):
GGGAAAGAGCAAACATAAGGCATCTTTGGTGATGTCCCACAAAAGAATAG
Found at i:45980772 original size:3 final size:3
Alignment explanation
Indices: 45980757--45980929 Score: 73
Period size: 3 Copynumber: 56.3 Consensus size: 3
45980747 ATCGCTAATA
* * ** **
45980757 TAT TAT CAT TAT TAT TAT TAT TCT TGC TAT TAT ATAT TAT TGC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*** * * *
45980803 TAT CGC TAC TAT TAT ATAT TAT TAT CAT TAC TAT T-T TCAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * *
45980849 TTT TAT TAC TAT TAAT TAT T-T ATAT ACAT TAT TAT TAC TAT T-T CTAT
1 TAT TAT TAT TAT T-AT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT -TAT
* * * * *
45980896 TAT TAT TAT TTT TAC TAT TTT TTT TAC TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45980930 TTTTATATGC
Statistics
Matches: 124, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
2 4 0.03
3 104 0.84
4 16 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:45980799 original size:16 final size:15
Alignment explanation
Indices: 45980769--45980805 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
45980759 TTATCATTAT
*
45980769 TATTATTATTCTTGC
1 TATTATTATTATTGC
45980784 TATTATATATTATTGC
1 TATTAT-TATTATTGC
45980800 TATTAT
1 TATTAT
45980806 CGCTACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.59
Consensus pattern (15 bp):
TATTATTATTATTGC
Found at i:45981539 original size:127 final size:127
Alignment explanation
Indices: 45981288--45981602 Score: 405
Period size: 127 Copynumber: 2.4 Consensus size: 127
45981278 AACGTAAGGA
* * *
45981288 AATATTTCGTGTTCGGAAGTCTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTTTTTT
1 AATATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGA----TTTTTTT
* ** ** *
45981353 CATTCAACTGAAATATGGAATATCCTTGTGAAATTTTGTCCATGTTTTCTTAAATTAAAACGAGG
62 CATTCAACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGG
45981418 C
127 C
* *
45981419 AATATTTTGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTTTTCATT
1 AATATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTTTTCATT
* * * *
45981484 CGACTAAAATACAGAATATCCTTTTGAAATTTCATCTATGCTTTCTTAAATTAAAATGAGGC
66 CAACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGGC
* * * * * *
45981546 AATATTTCGTATCTGGAAATTTGACAAATCGTGTCCAATCGTGTTGGGTTTCGATTT
1 AATATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTT
45981603 ACCGTTTGGC
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 112 0.70
131 49 0.30
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (127 bp):
AATATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTTTTCATT
CAACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGGC
Found at i:45994342 original size:64 final size:64
Alignment explanation
Indices: 45994241--45994365 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
45994231 TTCATGATAC
* *
45994241 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATTAT
1 ATCTAGTTAGAAGCATTTGATTCATTTCGATAATAGCATCCTAATTATTTGACATAAGCATTAT
*
45994305 ATCTAGTTAGAAGCATTTGATTCATTTCGATAATAGCATCCTAATTATTTGGCATAAGCAT
1 ATCTAGTTAGAAGCATTTGATTCATTTCGATAATAGCATCCTAATTATTTGACATAAGCAT
45994366 AGATACAGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (64 bp):
ATCTAGTTAGAAGCATTTGATTCATTTCGATAATAGCATCCTAATTATTTGACATAAGCATTAT
Found at i:45994622 original size:84 final size:84
Alignment explanation
Indices: 45994435--45995147 Score: 851
Period size: 84 Copynumber: 8.4 Consensus size: 84
45994425 TGAATTCACG
* * *
45994435 AGCCTTAACCCCCTAAGAAGTAGGGTAACAAGTTGGAAAATACAGATCTTATCCCTAAACAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC-T-TCCCTAAACAGTAG
* * * **
45994500 CGGAGTAGATCAAAGACAGTG
64 TGGAGCAGATCGAAGACAGCA
* **
45994521 AGCCTTAACCCCTTAAGCAGTAATGTAACAGGCTGGAAAATACAGATCTTCCCTAAACAGTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTCCCTAAACAGTAGTG
* **
45994586 GAGCAGATTGAAGGTAGCA
66 GAGCAGATCGAAGACAGCA
* * * ** * *
45994605 AGCCTTAACCCCCTAAGCGGTAGGGAAACATGCTAAAAAAATACAGATATTCCCTAAATAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GGAAAATACAGATCTTCCCTAAACAGTAGT
*
45994670 GGAACAGATCGAAGACAGCA
65 GGAGCAGATCGAAGACAGCA
* * * *
45994690 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAAATCTCCCCTAAACAATAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTCCCTAAACAGTAGTG
45994755 GAGCAGATCGAAGACAGCA
66 GAGCAGATCGAAGACAGCA
* * *
45994774 AGCTTTAACCCCCTAAGTAGTAGGGTAATAGGCTGGAAAATACAGATC-TCCCGTAAACAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTCCC-TAAACAGTAGT
*
45994838 GGAGCAGATCGAAGATAGCA
65 GGAGCAGATCGAAGACAGCA
* * *
45994858 AGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAGAAAATACAGATC-TCCTCTAAACAGTAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTCC-CTAAACAGTAGT
*
45994922 GGAGCAAATCGAAGACAGCA
65 GGAGCAGATCGAAGACAGCA
* * *
45994942 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAAATACAGACACTATCTCCCTATACAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAG--A-TCT-TCCCTAAACAGT
* * * *
45995007 AGTGGGGTAGGTTGAAGAC-G-A
62 AGTGGAGCAGATCGAAGACAGCA
* * *
45995028 TGAGCCTTAACTCCCTAAGCAATAGGGTAATAGGCTGGAAAATACAGATCTTATCCCTAAACAGT
1 --AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC-T-TCCCTAAACAGT
*
45995093 AGTGGAGTAGATCGAAGACAG-A
62 AGTGGAGCAGATCGAAGACAGCA
*
45995115 GAGCTTTAACCCCCTAAGCAGTAGGGTAACAGG
1 -AGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
45995148 TTAAAAATTA
Statistics
Matches: 536, Mismatches: 79, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
83 3 0.01
84 286 0.53
85 76 0.14
86 102 0.19
87 4 0.01
88 62 0.12
89 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (84 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTCCCTAAACAGTAGTG
GAGCAGATCGAAGACAGCA
Found at i:45995212 original size:88 final size:88
Alignment explanation
Indices: 45994439--45995270 Score: 358
Period size: 84 Copynumber: 9.7 Consensus size: 88
45994429 TTCACGAGCC
* *
45994439 TTAACCCCCTAAG-AAGTAGGGTAACAAGTTGGAAAA-TACAGATCTTA--TCCCTAAACAGTAG
1 TTAACCCCCTAAGCAA-TAGGGTAACAGGTT-GAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * *
45994500 CGGAGTAGATCAAAGACAGTGAGCC
64 GGGAGTAGATCAAAGACAGAGAACT
* * ** * * *
45994525 TTAACCCCTTAAGCAGTAATGTAACAGGCTGGAAAA-TACAGATC---T-TCCCTAAACAGTAGT
1 TTAACCCCCTAAGCAATAGGGTAACAGG-TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGG
* ** ** * *
45994585 GGAGCAGATTGAAGGTAGCA-AGCC
65 GGAGTAGATCAAAGACAG-AGAACT
** * * ** * ** *
45994609 TTAACCCCCTAAGCGGTAGGGAAACATGCTAAAAAAATACAGA---TAT-TCCCTAAATAGTAGT
1 TTAACCCCCTAAGCAATAGGGTAACA-GGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGG
** * * *
45994670 GGAACAGATCGAAGACAGCA-AGCC
65 GGAGTAGATCAAAGACAG-AGAACT
* * * * * * *
45994694 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAAATC---TC-CCCTAAACAATAGTG
1 TTAACCCCCTAAGCAATAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGGG
* * *
45994755 GAGCAGATCGAAGACAGCA-AGCT
66 GAGTAGATCAAAGACAG-AGAACT
* * * * * * *
45994778 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGGAAAA-TACAGATC---TC-CCGTAAACAGTAGT
1 TTAACCCCCTAAGCAATAGGGTAACAGG-TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGG
* * * * *
45994838 GGAGCAGATCGAAGATAGCA-AGCC
65 GGAGTAGATCAAAGACAG-AGAACT
* * * * * **
45994862 TTAACCCCCTAAGCAGTAAGGTAACAGGCTAGAAAA-TACAGATC---TC-CTCTAAACAGTAAT
1 TTAACCCCCTAAGCAATAGGGTAACAGG-TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGG
* * * * *
45994922 GGAGCAAATCGAAGACAGCA-AGCC
65 GGAGTAGATCAAAGACAG-AGAACT
* * * *
45994946 TTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAAA-TACAGA-CACTATCTCCCTATA-CAGTA
1 TTAACCCCCTAAGCAATAGGGTAACAGG-TTGAAAATTACAGATC-TTATCTCCCTA-AGCAGTA
* ** * *
45995008 GTGGG-GTAGGTTGAAGAC-GATGAGCC
63 G-GGGAGTAGATCAAAGACAGA-GAACT
* * * * *
45995034 TTAACTCCCTAAGCAATAGGGTAATAGGCTGGAAAA-TACAGATCTTA--TCCCTAAACAGTAGT
1 TTAACCCCCTAAGCAATAGGGTAACAGG-TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGG
* *
45995096 GGAGTAGATCGAAGACAGAGAGCT
65 GGAGTAGATCAAAGACAGAGAACT
* * * *
45995120 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACGGATCTTATCTCCCTAAGCAGTGGGG
1 TTAACCCCCTAAGCAATAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGGG
* *
45995185 GAGTAGATCAAAGATAGTGAACT
66 GAGTAGATCAAAGACAGAGAACT
* * * * * *
45995208 TTAACCCCCGAAGCAATAGGGTAACAGGCTGAAGATTACAAATCGTATCTCCCTAAGTAGTAG
1 TTAACCCCCTAAGCAATAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
45995271 CAGAGCAGAT
Statistics
Matches: 621, Mismatches: 97, Indels: 54
0.80 0.13 0.07
Matches are distributed among these distances:
83 1 0.00
84 286 0.46
85 79 0.13
86 97 0.16
87 7 0.01
88 147 0.24
89 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (88 bp):
TTAACCCCCTAAGCAATAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGGG
GAGTAGATCAAAGACAGAGAACT
Found at i:45996450 original size:5 final size:5
Alignment explanation
Indices: 45996440--45996467 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45996430 TTGTGTGTTC
45996440 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45996468 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Done.