Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 148 of 410
Found at i:44864889 original size:27 final size:27
Alignment explanation
Indices: 44864799--44864889 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
44864789 CCTTATGTGA
**
44864799 TAAAATGACCGAAATACCTCC-GTAGGG
1 TAAAATGACTAAAATACC-CCTGTAGGG
* * * *
44864826 TAGAATGACCAAAATATCCCTATAGGG
1 TAAAATGACTAAAATACCCCTGTAGGG
* *
44864853 TAAAATGACTATAATACCCCTGTAAGG
1 TAAAATGACTAAAATACCCCTGTAGGG
44864880 TAAAATGACT
1 TAAAATGACT
44864890 GATTTGCCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAAATGACTAAAATACCCCTGTAGGG
Found at i:44868889 original size:10 final size:10
Alignment explanation
Indices: 44868873--44868902 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44868863 AACTATCGTA
44868873 AAATGTGATT
1 AAATGTGATT
*
44868883 GAATGTGATT
1 AAATGTGATT
44868893 AAATGTGATT
1 AAATGTGATT
44868903 TATATGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (10 bp):
AAATGTGATT
Found at i:44869576 original size:15 final size:16
Alignment explanation
Indices: 44869556--44869585 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44869546 GAAAATTGCC
44869556 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
44869571 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
44869586 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:44871675 original size:28 final size:28
Alignment explanation
Indices: 44871635--44871692 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
44871625 GTGCAGGAAG
44871635 TTAGTTTCACTAGTTGGTATCGATATTT
1 TTAGTTTCACTAGTTGGTATCGATATTT
44871663 TTAGTTTCACTAGTTGGTATCGATATTT
1 TTAGTTTCACTAGTTGGTATCGATATTT
44871691 TT
1 TT
44871693 CCTTGAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (28 bp):
TTAGTTTCACTAGTTGGTATCGATATTT
Found at i:44873023 original size:43 final size:43
Alignment explanation
Indices: 44872962--44873159 Score: 360
Period size: 43 Copynumber: 4.6 Consensus size: 43
44872952 CTGGCATTAC
* *
44872962 GCCTGCTAGGCACAAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
44873005 GCCTGCTAGGCACGAAGGCCCTAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
44873048 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
44873091 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
44873134 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
44873160 TAATACCAGC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 149 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:44873200 original size:38 final size:38
Alignment explanation
Indices: 44873152--44873275 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 38
44873142 GGCACGAAGG
* * * *
44873152 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
44873190 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
44873228 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
44873267 GCCCGGATA
1 -CCCGGATA
44873276 CACATCAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 62 0.83
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:44880096 original size:24 final size:24
Alignment explanation
Indices: 44880060--44880221 Score: 299
Period size: 24 Copynumber: 6.8 Consensus size: 24
44880050 CTTATTATGT
**
44880060 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
44880083 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44880107 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44880131 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44880155 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44880179 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44880203 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
44880222 TATTTCCAGC
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
23 6 0.04
24 130 0.96
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:44880246 original size:29 final size:29
Alignment explanation
Indices: 44880204--44880277 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44880194 CATAGTAAAT
*
44880204 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44880233 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44880262 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44880278 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44888042 original size:24 final size:24
Alignment explanation
Indices: 44888015--44888153 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
44888005 CTTATTATGT
* **
44888015 TCGCACCCATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
44888039 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44888063 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44888087 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44888111 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44888135 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
44888154 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 112 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:44888178 original size:29 final size:29
Alignment explanation
Indices: 44888136--44888209 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44888126 CATAGTAAAT
*
44888136 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44888165 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44888194 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44888210 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44899376 original size:24 final size:24
Alignment explanation
Indices: 44899349--44899414 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
44899339 TATTTATAGG
* *
44899349 AAAAAAATTACCGTTGGACCTTTC
1 AAAAAAATTACCGTTGGAACATTC
** *
44899373 AAAAATTTTACCGTTGCCAACATTC
1 AAAAAAATTACCGTTG-GAACATTC
*
44899398 AAAAAAATGACCGTTGG
1 AAAAAAATTACCGTTGG
44899415 TGGAAAGTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (24 bp):
AAAAAAATTACCGTTGGAACATTC
Found at i:44899565 original size:2 final size:2
Alignment explanation
Indices: 44899558--44899724 Score: 225
Period size: 2 Copynumber: 84.5 Consensus size: 2
44899548 GTTCAACTCC
44899558 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
44899600 CT CT CT CT CT CT CT CT CT CT CC CT CT CT CC CT C- CT -T C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
44899639 -T TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CGT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T
* * * *
44899681 CAT CT CT CT CT CC CT TT CT CT CC CC CT CT CT CT CT CT CT CT CT
1 C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
44899724 C
1 C
44899725 GTTATAAGTC
Statistics
Matches: 148, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
1 4 0.03
2 140 0.95
3 4 0.03
ACGTcount: A:0.01, C:0.51, G:0.01, T:0.47
Consensus pattern (2 bp):
CT
Found at i:44899882 original size:49 final size:49
Alignment explanation
Indices: 44899810--44899907 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
44899800 ATAAAATTTG
44899810 GGCAAATATCACTTTTGGTCCCTCTATTAACTCTAAAATTAAGATTTAA
1 GGCAAATATCACTTTTGGTCCCTCTATTAACTCTAAAATTAAGATTTAA
44899859 GGCAAATATCACTTTTGGTCCCTCTATTAACTCTAAAATTAAGATTTAA
1 GGCAAATATCACTTTTGGTCCCTCTATTAACTCTAAAATTAAGATTTAA
44899908 TCTTGATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (49 bp):
GGCAAATATCACTTTTGGTCCCTCTATTAACTCTAAAATTAAGATTTAA
Found at i:44902647 original size:31 final size:31
Alignment explanation
Indices: 44902612--44902670 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
44902602 AATAATTGCT
*
44902612 GAACTATTC-AAAAGTTTTCATTTAAGTCACC
1 GAACTATTCAAAAAATTTT-ATTTAAGTCACC
44902643 GAACTATTCAAAAAATTTTATTTAAGTC
1 GAACTATTCAAAAAATTTTATTTAAGTC
44902671 TCTGGGCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (31 bp):
GAACTATTCAAAAAATTTTATTTAAGTCACC
Found at i:44903053 original size:21 final size:20
Alignment explanation
Indices: 44903029--44903085 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
44903019 TAGTTTACCC
44903029 AAATTTTTATATAATTTATA
1 AAATTTTTATATAATTTATA
* * *
44903049 TAAATTTTTTTATAGTTTTTA
1 -AAATTTTTATATAATTTATA
*
44903070 AATATTTTTCTATAAT
1 AA-ATTTTTATATAAT
44903086 ATTTTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
AAATTTTTATATAATTTATA
Found at i:44904859 original size:58 final size:60
Alignment explanation
Indices: 44904663--44904905 Score: 273
Period size: 59 Copynumber: 4.1 Consensus size: 60
44904653 TGTTTTACAA
* * * * *
44904663 GTTTTACAGTTTTGC-CTAGAAATTTATAATATGTTCAGTTTAGACCCTATGTAACCCCT
1 GTTTTACAGTTTTGCTCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCT
* * * * *
44904722 ATTTTATAGTTTTG-TCCAAAAATTTATGATATGTTAAGTTTTGTCCCTGTGTGACCCCT
1 GTTTTACAGTTTTGCTCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCT
* * *
44904781 GTTTTACAATTTT-TTCTAAAAATTTATGATATGTTTAGTTTAGT-CCTGTGTGACCCCT
1 GTTTTACAGTTTTGCTCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCT
* * * *
44904839 GTTTTATAGTTTTGCT-TAAAAAATTAT-AGTATGTTCAATTTAGTCCCTGTCTGACCCCT
1 GTTTTACAGTTTTGCTCTAAAAATTTATGA-TATGTTCAGTTTAGTCCCTGTGTGACCCCT
*
44904898 ATTTTACA
1 GTTTTACA
44904906 AAATTTACAG
Statistics
Matches: 154, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
57 1 0.01
58 48 0.31
59 105 0.68
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (60 bp):
GTTTTACAGTTTTGCTCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCT
Found at i:44904887 original size:117 final size:118
Alignment explanation
Indices: 44904663--44904906 Score: 298
Period size: 117 Copynumber: 2.1 Consensus size: 118
44904653 TGTTTTACAA
* *
44904663 GTTTTACAGTTTTGCCTAGAAATTTATAATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTA
1 GTTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTA
* * *
44904728 TAGTTTTGTCCAAAAATTTATGATATGTTAAGTTTTGTCCCTGTGTGACCCCT
66 TAGTTTTGTCAAAAAATTTATGATATGTTAAGTTTAGTCCCTGTCTGACCCCT
** * * * * * *
44904781 GTTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGTTTAG-TCCTGTGTGACCCCTGTTTTA
1 GTTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTA
*
44904845 TAGTTTTGCTTAAAAAA-TTAT-AGTATGTTCAA-TTTAGTCCCTGTCTGACCCCT
66 TAGTTTTG-TCAAAAAATTTATGA-TATGTT-AAGTTTAGTCCCTGTCTGACCCCT
*
44904898 ATTTTACAA
1 GTTTTACAA
44904907 AATTTACAGT
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
116 1 0.01
117 62 0.57
118 45 0.42
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (118 bp):
GTTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTA
TAGTTTTGTCAAAAAATTTATGATATGTTAAGTTTAGTCCCTGTCTGACCCCT
Found at i:44905071 original size:59 final size:59
Alignment explanation
Indices: 44905000--44905213 Score: 284
Period size: 59 Copynumber: 3.6 Consensus size: 59
44904990 CTATTTTGAA
*
44905000 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTTCCCAAAAATTTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTTCCCAAAAATTTATG
* * * * * * * *
44905059 ATATGTTAAGTTTTGTCCTTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTTCCCAAAAATTTATG
* * * * *
44905118 ATATGTTTAGTTTAGTCCCTATGTGACCCTTGTTTTATAGTTTTGCCCAAAAAATTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTTCCCAAAAATTTATG
* *
44905177 GTATGTTCAGTTTAGTCCCTATCTGACCCCTATTTTA
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTA
44905214 CAAAATTTAC
Statistics
Matches: 129, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 129 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (59 bp):
ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTTCCCAAAAATTTATG
Found at i:44905208 original size:118 final size:118
Alignment explanation
Indices: 44905000--44905216 Score: 326
Period size: 118 Copynumber: 1.8 Consensus size: 118
44904990 CTATTTTGAA
* *
44905000 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTTCCCAAAAATTTATGATATGT
1 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTGCCCAAAAAATTATGATATGT
* * * *
44905065 TAAGTTTTGTCCTTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
66 TAAGTTTAGTCCCTATCTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
* * * * *
44905118 ATATGTTTAGTTTAGTCCCTATGTGACCCTTGTTTTATAGTTTTGCCCAAAAAATTATGGTATGT
1 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTGCCCAAAAAATTATGATATGT
*
44905183 TCAGTTTAGTCCCTATCTGACCCCTATTTTACAA
66 TAAGTTTAGTCCCTATCTGACCCCTATTTTACAA
44905217 AATTTACAGT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 87 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (118 bp):
ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTGCCCAAAAAATTATGATATGT
TAAGTTTAGTCCCTATCTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
Found at i:44905291 original size:310 final size:309
Alignment explanation
Indices: 44904690--44905301 Score: 1064
Period size: 310 Copynumber: 2.0 Consensus size: 309
44904680 AGAAATTTAT
44904690 AATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTATAGTTTTGTCCAAAAATTTATGATATG
1 AATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTATAGTTTTGTCCAAAAATTTATGATATG
*
44904755 TTAAGTTTTGTCCCTGTGTGACCCCTGTTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
66 TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
* **
44904820 TTAGTCCTGTGTGACCCCTGTTTTATAGTTTTGCTTAAAAAATTATAGTATGTTCAATTTAGTCC
131 TTAGTCCTATGTGACCCCTGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGTCC
*
44904885 CTGTCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
196 CTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
* *
44904950 ATTGAGTCCCTGATATTATGTATGTTTTGAAATATGTGATCTATTTTGA
261 ATTAAGTCACTGATATTATGTATGTTTTGAAATATGTGATCTATTTTGA
*
44904999 AATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTT-TCCCAAAAATTTATGATAT
1 AATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTATAGTTTTGT-CCAAAAATTTATGATAT
*
44905063 GTTAAGTTTTGTCCTTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAG
65 GTTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAG
* * *
44905128 TTTAGTCCCTATGTGACCCTTGTTTTATAGTTTTGCCCAAAAAATTATGGTATGTTCAGTTTAGT
130 TTTAGT-CCTATGTGACCCCTGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGT
* *
44905193 CCCTATCTGACCCCTATTTTACAAAATTTACAGTTCCTGAATTATTTTTAGAGTTTTTATTCATT
194 CCCTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACT
*
44905258 CAATTAAGTCATTGATATTATGTATGTTTTGAAATATGTGATCT
259 CAATTAAGTCACTGATATTATGTATGTTTTGAAATATGTGATCT
44905302 GATTGATTGA
Statistics
Matches: 286, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
308 1 0.00
309 130 0.45
310 155 0.54
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (309 bp):
AATATGTTCAGTTTAGACCCTATGTAACCCCTATTTTATAGTTTTGTCCAAAAATTTATGATATG
TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
TTAGTCCTATGTGACCCCTGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGTCC
CTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
ATTAAGTCACTGATATTATGTATGTTTTGAAATATGTGATCTATTTTGA
Found at i:44906902 original size:28 final size:29
Alignment explanation
Indices: 44906871--44906988 Score: 109
Period size: 28 Copynumber: 4.2 Consensus size: 29
44906861 GTGAGTATGA
*
44906871 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
44906899 ATATGAATGTGAATTGGGCCTAGT-GGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
44906927 ATAAGAATATGAACTGGGCC-AGATGGGTC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * * *
44906956 ATTTGAATAAG-ATTGGTCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
44906984 ATATG
1 ATATG
44906989 TATGTATGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.01
28 41 0.59
29 28 0.40
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:44906937 original size:57 final size:57
Alignment explanation
Indices: 44906875--44906986 Score: 129
Period size: 57 Copynumber: 2.0 Consensus size: 57
44906865 GTATGAATAT
** **
44906875 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGT-GGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
* * *
44906932 AATATGAACTGGGCCAGATGGGTCATTTGAATAAGATTGGTCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
44906987 TGTATGTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
56 12 0.26
57 34 0.74
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:44907275 original size:25 final size:26
Alignment explanation
Indices: 44907247--44907300 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
44907237 AAACCATAAT
* *
44907247 TAAGGG-AAAATTACCAAAATGCCCC
1 TAAGGGAAAAATGACCAAAATACCCC
44907272 TAAGGGAAAAAATGACCAAAATACCCC
1 TAAGGG-AAAAATGACCAAAATACCCC
44907299 TA
1 TA
44907301 CGTGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
27 19 0.76
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATACCCC
Found at i:44908185 original size:19 final size:19
Alignment explanation
Indices: 44908161--44908258 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
44908151 AATCTTTAAG
*
44908161 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
44908180 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44908199 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44908216 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44908235 GATATGCAATCTTAAAGATAT
1 GATATGCAATCTT--AGATAT
44908256 GAT
1 GAT
44908259 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44908191 original size:36 final size:35
Alignment explanation
Indices: 44908151--44908236 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
44908141 ATGGAAATAT
44908151 AATCTTTAAGGATATG-CAATCCTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCCTAGATATGATATGC
*
44908187 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCCTAGATATGATATGC
44908223 AATC-TTAGATATGA
1 AATCTTTAGATATGA
44908237 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCCTAGATATGATATGC
Found at i:44908197 original size:14 final size:15
Alignment explanation
Indices: 44908180--44908236 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
44908170 TCCTAGATAT
44908180 GATATG-CAATCTTA
1 GATATGACAATCTTA
44908194 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
44908211 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
44908230 GATATGA
1 GATATGA
44908237 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:44908237 original size:36 final size:37
Alignment explanation
Indices: 44908161--44908258 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
44908151 AATCTTTAAG
*
44908161 GATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
44908199 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
44908235 GATATGCAATCTTAAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
44908259 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:44912056 original size:9 final size:9
Alignment explanation
Indices: 44912044--44912120 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
44912034 TTTGATAAAC
44912044 ATGATATGT
1 ATGATATGT
*
44912053 ATGATATGCAC
1 ATGATATG--T
44912064 ATGATATGT
1 ATGATATGT
*
44912073 ATGATATGCAC
1 ATGATATG--T
*
44912084 ATGACATGT
1 ATGATATGT
*
44912093 ATGATATGCAC
1 ATGATATG--T
44912104 ATGATATGT
1 ATGATATGT
44912113 ATGATATG
1 ATGATATG
44912121 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:44912069 original size:11 final size:11
Alignment explanation
Indices: 44912053--44912124 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
44912043 CATGATATGT
44912053 ATGATATGCAC
1 ATGATATGCAC
*
44912064 ATGATATG--T
1 ATGATATGCAC
44912073 ATGATATGCAC
1 ATGATATGCAC
* *
44912084 ATGACATG--T
1 ATGATATGCAC
44912093 ATGATATGCAC
1 ATGATATGCAC
*
44912104 ATGATATG--T
1 ATGATATGCAC
44912113 ATGATATGCAC
1 ATGATATGCAC
44912124 A
1 A
44912125 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44912132 original size:20 final size:20
Alignment explanation
Indices: 44912042--44912124 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
44912032 ATTTTGATAA
44912042 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
44912062 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44912082 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
44912102 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
44912122 ACA
1 ACA
44912125 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44912209 original size:23 final size:23
Alignment explanation
Indices: 44912179--44912299 Score: 199
Period size: 23 Copynumber: 5.1 Consensus size: 23
44912169 AGGAAGTGCA
44912179 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44912202 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
44912227 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44912250 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44912273 AAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
44912297 AAA
1 AAA
44912300 AGAGGCTAGG
Statistics
Matches: 94, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.03
23 46 0.49
24 13 0.14
25 32 0.34
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44912235 original size:25 final size:24
Alignment explanation
Indices: 44912179--44912322 Score: 190
Period size: 23 Copynumber: 6.0 Consensus size: 24
44912169 AGGAAGTGCA
44912179 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
44912202 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
44912227 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
44912250 AAAGGGCTTATGCCCCAGTTATTAA
1 AAAGGGCTTATGCCCCAGTTA-TAT
44912275 AAAGGGCTT-TGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
44912297 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 -AAAG-GGCTTATGCC-CCAGTTATAT
44912323 GATAAAGCAG
Statistics
Matches: 109, Mismatches: 3, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
23 50 0.46
24 18 0.17
25 40 0.37
26 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:44912250 original size:48 final size:48
Alignment explanation
Indices: 44912178--44912299 Score: 219
Period size: 48 Copynumber: 2.6 Consensus size: 48
44912168 GAGGAAGTGC
44912178 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA
* *
44912226 TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA
44912274 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
44912300 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 16 0.23
48 55 0.77
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA
Found at i:44917218 original size:23 final size:23
Alignment explanation
Indices: 44917162--44917230 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
44917152 CTTGAATTTT
*
44917162 AAATAACTTTTTAAAATTTTATAA
1 AAATAA-TTTTTAAAATTTTTTAA
* * *
44917186 AAAAATATTTTTAAACTTTTTTAG
1 AAATA-ATTTTTAAAATTTTTTAA
*
44917210 AAATAATTTTTACAATTTTTT
1 AAATAATTTTTAAAATTTTTT
44917231 TTATATTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 14 0.38
24 22 0.59
25 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (23 bp):
AAATAATTTTTAAAATTTTTTAA
Found at i:44917324 original size:14 final size:15
Alignment explanation
Indices: 44917307--44917341 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
44917297 TAGTTATCTT
44917307 TTTTTTAATTT-TAA
1 TTTTTTAATTTATAA
*
44917321 TTTTATAATTTATAA
1 TTTTTTAATTTATAA
44917336 TTTTTT
1 TTTTTT
44917342 TCTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAATTTATAA
Found at i:44917367 original size:11 final size:10
Alignment explanation
Indices: 44917338--44917372 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
44917328 ATTTATAATT
44917338 TTTTTCTATA
1 TTTTTCTATA
44917348 -TTTTCTATA
1 TTTTTCTATA
44917357 TTTTTCATATA
1 TTTTTC-TATA
44917368 TTTTT
1 TTTTT
44917373 AATGTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 5 0.22
11 9 0.39
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCTATA
Found at i:44921311 original size:16 final size:16
Alignment explanation
Indices: 44921290--44921323 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
44921280 TATAAATTAA
44921290 TTTTAATTA-ATTAATT
1 TTTTAATTATA-TAATT
44921306 TTTTAATTATATAATT
1 TTTTAATTATATAATT
44921322 TT
1 TT
44921324 CACAACTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAATTATATAATT
Found at i:44922555 original size:55 final size:56
Alignment explanation
Indices: 44922490--44922604 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
44922480 AGCATGGCTG
* * *
44922490 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* ** *
44922546 CCAGA-ACAGATATACGTGGTAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
44922601 CCAG
1 CCAG
44922605 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:44922601 original size:28 final size:27
Alignment explanation
Indices: 44922515--44922604 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
44922505 GTGACAGAGT
*
44922515 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** * *
44922544 CACCAGAACAGAT-ATACGTGGTAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
44922571 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
44922599 CACCAG
1 CACCAG
44922605 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:44922757 original size:28 final size:28
Alignment explanation
Indices: 44922710--44922773 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
44922700 AAATTAACCC
*
44922710 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
44922738 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
44922766 TAGGGGTA
1 TAGGGGTA
44922774 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:44926585 original size:53 final size:52
Alignment explanation
Indices: 44926510--44926669 Score: 180
Period size: 52 Copynumber: 3.1 Consensus size: 52
44926500 CGGATCACAT
* * *
44926510 ATCATACCAATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCAC
* * *
44926563 ATCATACCGATGCCATAGCCCAGCTATGATCTTATACGGGAGT-ACGA-ATCAT
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCAC-ATATCAC
** * * *
44926615 ATTGTACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACATATTAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCAC
44926667 ATC
1 ATC
44926670 TTTTCCGTCA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
51 4 0.05
52 44 0.50
53 35 0.40
54 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCAC
Found at i:44930707 original size:2 final size:2
Alignment explanation
Indices: 44930700--44930743 Score: 54
Period size: 2 Copynumber: 21.0 Consensus size: 2
44930690 CAAGATATTA
44930700 AT AT AT AT AT AT AT AT AT AT AT AT CAT GAT AT -T GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT -AT AT AT AT
44930742 AT
1 AT
44930744 CATGATACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
1 1 0.03
2 32 0.84
3 5 0.13
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44930744 original size:20 final size:19
Alignment explanation
Indices: 44930686--44930750 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 19
44930676 ATGTATCAAC
*
44930686 ATATCAAGATATTA-ATAT
1 ATATCATGATATTATATAT
44930704 ATAT-AT-ATA-TATATAT
1 ATATCATGATATTATATAT
44930720 ATATCATGATATTGATATAT
1 ATATCATGATATT-ATATAT
44930740 ATATCATGATA
1 ATATCATGATA
44930751 CATATCATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 2 0.05
16 11 0.27
17 3 0.07
18 7 0.17
19 1 0.02
20 17 0.41
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATCATGATATTATATAT
Found at i:44930898 original size:21 final size:21
Alignment explanation
Indices: 44930852--44931082 Score: 184
Period size: 21 Copynumber: 11.1 Consensus size: 21
44930842 GTATATCATT
* *
44930852 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTA
* *
44930871 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
44930892 AACAGAAACCCATAAGGGTTT
1 AACAGAAGCTCATAAGAGCTA
44930913 AACAGAAGCTCATAAGAGCTGA
1 AACAGAAGCTCATAAGAGCT-A
* * * *
44930935 AAAATAA-CTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
44930955 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * *
44930976 AACAAAAACTCATAAGAG-TT
1 AACAGAAGCTCATAAGAGCTA
44930996 AACAGAAGCTCGA-AAGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
** * * *
44931017 AATGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* * *
44931038 AATAGAAGCTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
*
44931059 AATAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
44931080 AAC
1 AAC
44931083 GAAAAGTAAA
Statistics
Matches: 166, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.06
20 24 0.14
21 127 0.77
22 5 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:44931029 original size:83 final size:84
Alignment explanation
Indices: 44930874--44931076 Score: 261
Period size: 83 Copynumber: 2.4 Consensus size: 84
44930864 AAAGCTGAAT
* * *
44930874 AGAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTTTAACAGAAGCTCATAAGAGCTGAAAAA
1 AGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTTAACAGAAGCTCATAAGAGCTGAAAAA
44930939 TAACTCATATGAGTTAAAC
66 TAACTCATATGAGTTAAAC
*
44930958 AGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAG-TTAACAGAAGCTCGA-AAGAGCT-AAAT
1 AGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTTAACAGAAGCTC-ATAAGAGCTGAAA-
* *
44931020 GGA-AACTCATATGAGTTAAAT
64 -AATAACTCATATGAGTTAAAC
* * * *
44931041 AGAAGCTCATATGAGTTAAATAGAAGCTCATAAGAG
1 AGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAG
44931077 CTAAACGAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
82 3 0.03
83 68 0.65
84 34 0.32
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (84 bp):
AGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTTAACAGAAGCTCATAAGAGCTGAAAAA
TAACTCATATGAGTTAAAC
Found at i:44936159 original size:29 final size:29
Alignment explanation
Indices: 44936123--44936188 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
44936113 ATGGCTTGAG
44936123 ACACGGGCGTGTCATTGGTCGTGTGAGCC
1 ACACGGGCGTGTCATTGGTCGTGTGAGCC
* *
44936152 ATACGGGCGTGTCATTGGTCGTTTGAGCC
1 ACACGGGCGTGTCATTGGTCGTGTGAGCC
44936181 ACACGGGC
1 ACACGGGC
44936189 ATGTGTCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.24
Consensus pattern (29 bp):
ACACGGGCGTGTCATTGGTCGTGTGAGCC
Found at i:44938252 original size:45 final size:45
Alignment explanation
Indices: 44938153--44938259 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
44938143 ACGGTAGCAA
* * *
44938153 TAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAG
* * *
44938198 TACCGGTAACAGTAATAGTATTCAACACACAAAGTGCCGAATCAG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAG
*
44938243 TAACAGTAACGGTAACA
1 TAACAGTAACAGTAACA
44938260 ATAACGGTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAG
Found at i:44938259 original size:12 final size:12
Alignment explanation
Indices: 44938242--44938275 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
44938232 TGCCGAATCA
44938242 GTAACAGTAACG
1 GTAACAGTAACG
*
44938254 GTAACAATAACG
1 GTAACAGTAACG
44938266 GTAACAGTAA
1 GTAACAGTAA
44938276 TAGTAGTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (12 bp):
GTAACAGTAACG
Found at i:44938525 original size:40 final size:40
Alignment explanation
Indices: 44938479--44938562 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
44938469 AATTCATTAC
* * *
44938479 TTCAGTAATTTCACAGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
44938519 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
44938559 TTCA
1 TTCA
44938563 ATATTCCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:44938543 original size:21 final size:21
Alignment explanation
Indices: 44938479--44938546 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
44938469 AATTCATTAC
* *
44938479 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
44938500 TGCAGTATACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
44938519 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
44938540 TTCAGTA
1 TTCAGTA
44938547 CTCAAAACAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:44942164 original size:40 final size:40
Alignment explanation
Indices: 44942120--44942201 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
44942110 GTGTCGGATA
*
44942120 ATTAAGTTCATGTGGTTTCAATTGCCGAGAAGCATAAGCT
1 ATTAAGTTCATGTGGTTTCAATTACCGAGAAGCATAAGCT
44942160 ATTAAGTTCATGTGGTTTCAATTACCGAGAAGCATAAGCT
1 ATTAAGTTCATGTGGTTTCAATTACCGAGAAGCATAAGCT
44942200 AT
1 AT
44942202 CACTTTCCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (40 bp):
ATTAAGTTCATGTGGTTTCAATTACCGAGAAGCATAAGCT
Found at i:44943392 original size:21 final size:21
Alignment explanation
Indices: 44943368--44943411 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44943358 ATGTAGGGTC
44943368 ATTGTCTAATACTTTCCTGTT
1 ATTGTCTAATACTTTCCTGTT
44943389 ATTGTCTAATACTTTCCTGTT
1 ATTGTCTAATACTTTCCTGTT
44943410 AT
1 AT
44943412 ATGATTCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.52
Consensus pattern (21 bp):
ATTGTCTAATACTTTCCTGTT
Found at i:44943759 original size:25 final size:25
Alignment explanation
Indices: 44943731--44943791 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
44943721 AATTCTTTGG
**
44943731 AAAGCTTTTGTGGTGAATTCTCTAT
1 AAAGCTTTTGTGGCAAATTCTCTAT
* *
44943756 AAAGGC-TTTGTGGCAAATTCTTTGT
1 AAA-GCTTTTGTGGCAAATTCTCTAT
*
44943781 AAATCTTTTGT
1 AAAGCTTTTGT
44943792 AGCGACTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.03
25 26 0.90
26 2 0.07
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (25 bp):
AAAGCTTTTGTGGCAAATTCTCTAT
Found at i:44947654 original size:2 final size:2
Alignment explanation
Indices: 44947647--44947673 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44947637 AAATTAAGTC
44947647 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44947674 ATGTTAGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44952018 original size:26 final size:26
Alignment explanation
Indices: 44951989--44952096 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
44951979 TGGTACAAAT
*
44951989 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
44952015 TGATAAT-GGTTAGGTAAA-ATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
44952039 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
44952065 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
44952091 TGATAA
1 TGATAA
44952097 GAATTTCATG
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
24 11 0.14
25 22 0.29
26 43 0.57
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:44952048 original size:50 final size:52
Alignment explanation
Indices: 44951989--44952096 Score: 184
Period size: 50 Copynumber: 2.1 Consensus size: 52
44951979 TGGTACAAAT
44951989 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAA-ATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
* *
44952039 TGATAATAGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
44952091 TGATAA
1 TGATAA
44952097 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 32 0.59
51 11 0.20
52 11 0.20
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
Found at i:44953752 original size:27 final size:27
Alignment explanation
Indices: 44953711--44953849 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
44953701 GAGGAAGCGT
*
44953711 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
44953738 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
44953765 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
44953792 TCTGGTGGCT-TGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
44953819 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
44953845 TCTGG
1 TCTGG
44953850 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
26 17 0.17
27 76 0.78
28 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:44953796 original size:54 final size:54
Alignment explanation
Indices: 44953711--44953849 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
44953701 GAGGAAGCGT
* * * *
44953711 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCT-TGCCACAAATATCTGTA
* *
44953765 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTTGCCACAAATATCTGTA
* *
44953819 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
44953850 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
53 24 0.32
54 52 0.68
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTTGCCACAAATATCTGTA
Found at i:44957829 original size:26 final size:26
Alignment explanation
Indices: 44957800--44957906 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
44957790 TGGTACAAAT
*
44957800 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
44957826 TGATAAT-GGTTAGGTAAA--TTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
44957849 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
44957875 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
44957901 TGATAA
1 TGATAA
44957907 GAATTTAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 11 0.14
24 11 0.14
25 11 0.14
26 43 0.57
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:44957854 original size:49 final size:51
Alignment explanation
Indices: 44957800--44957906 Score: 182
Period size: 49 Copynumber: 2.1 Consensus size: 51
44957790 TGGTACAAAT
44957800 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAA-TTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAAGTTTCA
*
44957849 TGATAATAGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAA-GTTTCA
44957901 TGATAA
1 TGATAA
44957907 GAATTTAACG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 32 0.59
50 11 0.20
52 11 0.20
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAAGTTTCA
Found at i:44960711 original size:56 final size:55
Alignment explanation
Indices: 44960624--44960772 Score: 226
Period size: 56 Copynumber: 2.7 Consensus size: 55
44960614 AGGGGGGTGT
44960624 TAGGATATTATTATAGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
1 TAGGATATTATTAT-GGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
* * * *
44960680 TAGGATATTATTCTGTGATATTATCTCTTAGCAATTTGATTCCTAGTGGGATATTA
1 TAGGATATTATTATG-GATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
*
44960736 TATGATATTATTATGAGATATTATCTTTTAGCAATTT
1 TAGGATATTATTATG-GATATTATCTTTTAGCAATTT
44960773 AATTTCTACG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 83 0.99
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (55 bp):
TAGGATATTATTATGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
Found at i:44961570 original size:9 final size:9
Alignment explanation
Indices: 44961553--44961591 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
44961543 GCTTCCCTCA
*
44961553 AACTTTCTC
1 AACTCTCTC
44961562 AACTCTCTC
1 AACTCTCTC
*
44961571 ACACTTTCTC
1 A-ACTCTCTC
44961581 AACTCTCTC
1 AACTCTCTC
44961590 AA
1 AA
44961592 GCTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (9 bp):
AACTCTCTC
Found at i:44961576 original size:19 final size:19
Alignment explanation
Indices: 44961549--44961596 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
44961539 ACGTGCTTCC
44961549 CTCAAACTTTCTCAACTCT
1 CTCAAACTTTCTCAACTCT
*
44961568 CTCACACTTTCTCAACTCT
1 CTCAAACTTTCTCAACTCT
*
44961587 CTCAAGCTTT
1 CTCAAACTTT
44961597 TTATTACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.38
Consensus pattern (19 bp):
CTCAAACTTTCTCAACTCT
Found at i:44963849 original size:47 final size:47
Alignment explanation
Indices: 44963810--44963942 Score: 248
Period size: 47 Copynumber: 2.8 Consensus size: 47
44963800 TGTCGACTAC
44963810 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
44963857 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
44963904 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
44963943 CTTATCCCGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:44970376 original size:29 final size:29
Alignment explanation
Indices: 44970225--44970355 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
44970215 GTGACGAGAT
44970225 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44970254 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44970283 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44970312 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44970341 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44970356 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44970402 original size:87 final size:87
Alignment explanation
Indices: 44970225--44970413 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
44970215 GTGACGAGAT
* *
44970225 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
44970290 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
44970312 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
44970376 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
44970399 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44970414 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:44976027 original size:23 final size:24
Alignment explanation
Indices: 44975993--44976038 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
44975983 AACACTGAAT
*
44975993 ATTATTAAAAT-AAATATTATTTA
1 ATTATTAAAATAAAAAATTATTTA
*
44976016 ATTATTATAATAAAAAATTATTT
1 ATTATTAAAATAAAAAATTATTT
44976039 TTATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTATTAAAATAAAAAATTATTTA
Found at i:44980849 original size:22 final size:23
Alignment explanation
Indices: 44980817--44980866 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
44980807 GGCAACATAT
44980817 AGAATACGCCACAAAA-GCTATC
1 AGAATACGCCACAAAAGGCTATC
*
44980839 AGAATATGCCACAAAAGGCTATC
1 AGAATACGCCACAAAAGGCTATC
44980862 AGAAT
1 AGAAT
44980867 TGTAACACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (23 bp):
AGAATACGCCACAAAAGGCTATC
Found at i:44984126 original size:21 final size:21
Alignment explanation
Indices: 44984102--44984296 Score: 78
Period size: 21 Copynumber: 9.3 Consensus size: 21
44984092 TCTTACAAAC
44984102 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTTAACTCTTATGAGT
*
44984123 TTCTG-TTAAGCTCTTACGAGCT
1 TTCTGTTTAA-CTCTTATGAG-T
* * *
44984145 TT-TGTTCAACTCTTAAGAAT
1 TTCTGTTTAACTCTTATGAGT
* *
44984165 TTCTG-TTAAGCTCTCACGAGAT
1 TTCTGTTTAA-CTCTTATGAG-T
* ** * * *
44984187 TT-TGTTCAGTTTTTTTGAGC
1 TTCTGTTTAACTCTTATGAGT
* *
44984207 TTCTG-TTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGT
* * * *
44984227 TTCTGTTCAGCTCTTTTGAGC
1 TTCTGTTTAACTCTTATGAGT
* *
44984248 TTCTGTTCAAC-CTTTATGGGT
1 TTCTGTTTAACTC-TTATGAGT
* * * * *
44984269 TTTTTTTTAGCTCTCATGAGC
1 TTCTGTTTAACTCTTATGAGT
44984290 TTCTGTT
1 TTCTGTT
44984297 CAGCCTTCAG
Statistics
Matches: 120, Mismatches: 43, Indels: 22
0.65 0.23 0.12
Matches are distributed among these distances:
20 25 0.21
21 83 0.69
22 12 0.10
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGT
Found at i:44984139 original size:42 final size:42
Alignment explanation
Indices: 44984080--44984178 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
44984070 CGTGTTTTAC
* * * * *
44984080 TTTCTATTTAGCTCTTACAAACTTCTGTTTAACTCTTATGAG
1 TTTCTGTTAAGCTCTTACAAACTTCTGTTCAACTCTTAAGAA
* * *
44984122 TTTCTGTTAAGCTCTTACGAGCTTTTGTTCAACTCTTAAGAA
1 TTTCTGTTAAGCTCTTACAAACTTCTGTTCAACTCTTAAGAA
44984164 TTTCTGTTAAGCTCT
1 TTTCTGTTAAGCTCT
44984179 CACGAGATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (42 bp):
TTTCTGTTAAGCTCTTACAAACTTCTGTTCAACTCTTAAGAA
Found at i:44984211 original size:42 final size:42
Alignment explanation
Indices: 44984112--44984254 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 42
44984102 TTCTGTTTAA
* * * *
44984112 CTCTTATGAGTTTCTGTTAAGCTCTTACGAGCTTTTGTTCAA
1 CTCTTTTGAGCTTCTGTTAAGCTCTTACGAGATTTTGTTCAG
** ** *
44984154 CTCTTAAGAATTTCTGTTAAGCTCTCACGAGATTTTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAGCTCTTACGAGATTTTGTTCAG
* * * * *
44984196 TTTTTTTGAGCTTCTGTTAA-CCCTTATG-GGTTTCTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAGCTCTTACGAGATTT-TGTTCAG
44984237 CTCTTTTGAGCTTCTGTT
1 CTCTTTTGAGCTTCTGTT
44984255 CAACCTTTAT
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
40 4 0.05
41 28 0.34
42 51 0.61
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (42 bp):
CTCTTTTGAGCTTCTGTTAAGCTCTTACGAGATTTTGTTCAG
Found at i:44984281 original size:42 final size:42
Alignment explanation
Indices: 44984189--44984303 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 42
44984179 CACGAGATTT
* * *
44984189 TGTTCAGTTTTTTTGAGCTTCTGTT-AACCCTTATGGGTTTC
1 TGTTCAGCTCTTTTGAGCTTCTGTTCAACCTTTATGGGTTTC
*
44984230 TGTTCAGCTCTTTTGAGCTTCTGTTCAACCTTTATGGGTTTT
1 TGTTCAGCTCTTTTGAGCTTCTGTTCAACCTTTATGGGTTTC
* * ** *
44984272 TTTTTAGCTCTCATGAGCTTCTGTTCAGCCTT
1 TGTTCAGCTCTTTTGAGCTTCTGTTCAACCTT
44984304 CAGGCTTCTG
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 23 0.36
42 41 0.64
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (42 bp):
TGTTCAGCTCTTTTGAGCTTCTGTTCAACCTTTATGGGTTTC
Found at i:44987327 original size:21 final size:21
Alignment explanation
Indices: 44987303--44987369 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
44987293 TTTAACCCTC
44987303 ATGAGTTTCCGTTCAGCTCTT
1 ATGAGTTTCCGTTCAGCTCTT
* * *
44987324 ATGAGCTTCCGTTCAAC-CCT
1 ATGAGTTTCCGTTCAGCTCTT
* * * *
44987344 ACGGGTTTCCGTTTAGCTCTC
1 ATGAGTTTCCGTTCAGCTCTT
44987365 ATGAG
1 ATGAG
44987370 CTTCAATTCA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (21 bp):
ATGAGTTTCCGTTCAGCTCTT
Found at i:44990580 original size:14 final size:13
Alignment explanation
Indices: 44990558--44990592 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
44990548 TAAACCCCAA
*
44990558 TTTTTCCTTTTTT
1 TTTTTCCTTCTTT
44990571 TTTCTTCCTTCTTT
1 TTT-TTCCTTCTTT
44990585 TTTTTCCT
1 TTTTTCCT
44990593 GCTCTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCCTTCTTT
Found at i:44990960 original size:14 final size:17
Alignment explanation
Indices: 44990941--44990978 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
44990931 ATTTATTTCT
44990941 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
44990955 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
44990972 TAATATA
1 TAATATA
44990979 CTTATAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:44990972 original size:23 final size:24
Alignment explanation
Indices: 44990940--44991003 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
44990930 AATTTATTTC
*
44990940 TTAATATAATATTTATA-ATATAA
1 TTAATTTAATATTTATACATATAA
* *
44990963 TTAATTTAATA-ATATACTTATAA
1 TTAATTTAATATTTATACATATAA
*
44990986 TCAATTTATATATTTATA
1 TTAATTTA-ATATTTATA
44991004 TAATTAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
23 22 0.67
24 3 0.09
25 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAATTTAATATTTATACATATAA
Found at i:44991543 original size:25 final size:25
Alignment explanation
Indices: 44991441--44991549 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
44991431 GTTACAAGAG
*
44991441 TACACCACAAATGCAACATACAAAA
1 TACACCACAAAGGCAACATACAAAA
** *
44991466 TATGCCACAAAGGTTAA-AT--AAAA
1 TACACCACAAAGG-CAACATACAAAA
*
44991489 TACACCACAAA-G--AC-TATCAAAG
1 TACACCACAAAGGCAACATA-CAAAA
*
44991511 TACGCCACAAAGGCAACATACAAAA
1 TACACCACAAAGGCAACATACAAAA
44991536 TACACCACAAAGGC
1 TACACCACAAAGGC
44991550 CAAATAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
19 2 0.03
22 14 0.22
23 14 0.22
25 31 0.48
26 4 0.06
ACGTcount: A:0.51, C:0.26, G:0.10, T:0.13
Consensus pattern (25 bp):
TACACCACAAAGGCAACATACAAAA
Found at i:44993253 original size:28 final size:29
Alignment explanation
Indices: 44993222--44993298 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
44993212 TTAAAATTTC
44993222 AAAAAAATATAAAATATTTTTAAAAA-AT
1 AAAAAAATATAAAATATTTTTAAAAATAT
* * *
44993250 AAAAATCAT-TAAAAT-TATTTAAAAATGT
1 AAAAA-AATATAAAATATTTTTAAAAATAT
*
44993278 ATAAAAATATAAAAATATTTT
1 AAAAAAATAT-AAAATATTTT
44993299 AAATATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
27 11 0.29
28 17 0.45
29 7 0.18
30 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAAAAATATAAAATATTTTTAAAAATAT
Found at i:44993270 original size:27 final size:26
Alignment explanation
Indices: 44993224--44993298 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 26
44993214 AAAATTTCAA
44993224 AAAAATATAAAATATTTTTAAAAAAT
1 AAAAATATAAAATATTTTTAAAAAAT
*
44993250 AAAAATCATTAAAAT-TATTTAAAAATGTAT
1 AAAAAT-A-TAAAATATTTTTAAAAA---AT
44993280 AAAAATATAAAAATATTTT
1 AAAAATAT-AAAATATTTT
44993299 AAATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
26 6 0.15
27 10 0.25
28 7 0.17
29 6 0.15
30 11 0.28
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AAAAATATAAAATATTTTTAAAAAAT
Found at i:44993292 original size:18 final size:17
Alignment explanation
Indices: 44993224--44993293 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 17
44993214 AAAATTTCAA
*
44993224 AAAAATATAAAATATTTTT
1 AAAAATATAAAA-A-TTAT
*
44993243 AAAAA-ATAAAAATCATT
1 AAAAATATAAAAATTA-T
*
44993260 AAAATTATTTAAAAATGTAT
1 AAAA--ATATAAAAAT-TAT
44993280 AAAAATATAAAAAT
1 AAAAATATAAAAAT
44993294 ATTTTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.02
17 6 0.15
18 15 0.37
19 6 0.15
20 12 0.29
21 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:45004020 original size:16 final size:16
Alignment explanation
Indices: 45003999--45004032 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45003989 TGATATAACA
45003999 AATAAAAATGTTTTTG
1 AATAAAAATGTTTTTG
**
45004015 AATAAAGTTGTTTTTG
1 AATAAAAATGTTTTTG
45004031 AA
1 AA
45004033 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AATAAAAATGTTTTTG
Found at i:45004037 original size:16 final size:16
Alignment explanation
Indices: 45004007--45004037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45003997 CAAATAAAAA
*
45004007 TGTTTTTGAATAAAGT
1 TGTTTTTGAACAAAGT
45004023 TGTTTTTGAACAAAG
1 TGTTTTTGAACAAAG
45004038 AAATTATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTTTTTGAACAAAGT
Found at i:45004167 original size:20 final size:20
Alignment explanation
Indices: 45004139--45004181 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
45004129 AAAATGGTTT
45004139 AAAC-TTTTTAAACTCAATTG
1 AAACATTTTTAAA-TCAATTG
45004159 AAACATTTTTAAATCAATTG
1 AAACATTTTTAAATCAATTG
45004179 AAA
1 AAA
45004182 AATTACTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:45004362 original size:18 final size:18
Alignment explanation
Indices: 45004336--45004370 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45004326 TTTAAAAAAG
*
45004336 TATCGATACCATCTTTGA
1 TATCAATACCATCTTTGA
*
45004354 TATCAATACCATTTTTG
1 TATCAATACCATCTTTG
45004371 TATTCTGACG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (18 bp):
TATCAATACCATCTTTGA
Found at i:45004446 original size:20 final size:20
Alignment explanation
Indices: 45004397--45004438 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
45004387 CAAACAATTA
*
45004397 TAAAAAGTATTGATACCTTT
1 TAAAAAGTATTAATACCTTT
45004417 TAAAAAGTATTAATACCTTT
1 TAAAAAGTATTAATACCTTT
45004437 TA
1 TA
45004439 CCAGGTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
TAAAAAGTATTAATACCTTT
Found at i:45007175 original size:17 final size:17
Alignment explanation
Indices: 45007146--45007195 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
45007136 GTGTGATTCA
45007146 CCGTGTGGGCCCACA-AGC
1 CCGTGT-GGCCCACACA-C
45007164 CCGTGTGGCCCACACAC
1 CCGTGTGGCCCACACAC
45007181 CCGTGTGGCCCACAC
1 CCGTGTGGCCCACAC
45007196 GGCCCATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.16, C:0.44, G:0.28, T:0.12
Consensus pattern (17 bp):
CCGTGTGGCCCACACAC
Found at i:45009971 original size:2 final size:2
Alignment explanation
Indices: 45009964--45010002 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45009954 AATTTTAAAA
45009964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45010003 AAATGGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45011825 original size:110 final size:108
Alignment explanation
Indices: 45011702--45012055 Score: 491
Period size: 110 Copynumber: 3.2 Consensus size: 108
45011692 TTATTAATTA
*
45011702 TTATAAATCGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAAATTTTTTTATTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAAATTTTTTT-TTTT
45011767 TTAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
65 TT-AAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
45011812 TTATAAATTGTTTGTGTTTATTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTTGTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAA-ATTTTTT-TTTT
*
45011877 TTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
64 TTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * *
45011922 TTATAAATTGTTTGTGTTTAGTTCAGTGTTTATTGGGACTTGTTAT-AA-ATGAATTTTTTTTGT
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGATTTTTTATGAATATAAATTTTTTTT-T
*
45011985 GTTCTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
63 -TT-TTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
45012033 TTATAAATT-ATT-TGTTTAGTTTA
1 TTATAAATTGTTTGTGTTTAGTTTA
45012056 ATGTGCATTG
Statistics
Matches: 220, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
108 2 0.01
109 17 0.08
110 122 0.55
111 67 0.30
112 12 0.05
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (108 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAAATTTTTTTTTTTT
TAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:45012047 original size:111 final size:110
Alignment explanation
Indices: 45011702--45012095 Score: 476
Period size: 110 Copynumber: 3.6 Consensus size: 110
45011692 TTATTAATTA
* * * * * * * * *
45011702 TTATAAATCGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAAATTTTTTTATTT-
1 TTATAAATTGTTTGTGTTTAGTTCAGTGTTTTGGGACTTGTTATAAATGTAATTTTTTTTGTTTC
45011766 TTTAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
66 TTT-AAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * * * *
45011812 TTATAAATTGTTTGTGTTTATTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTTGTTTT
1 TTATAAATTGTTTGTGTTTAGTTCAGTGTTTTGGGACTTGTTATAAATGTAATTTTTTTTGTTTC
*
45011877 TTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
66 TTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
45011922 TTATAAATTGTTTGTGTTTAGTTCAGTGTTTATTGGGACTTGTTATAAATG-AATTTTTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTCAGTG-TT-TTGGGACTTGTTATAAATGTAATTTTTTTTGT-
45011986 TTCTTT-AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
63 TTCTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * ** * * *
45012033 TTATAAATT-ATT-TGTTTAGTTTAATGTGCATTGTGATTTGTTAT-AATGTAATTTTATTTGTT
1 TTATAAATTGTTTGTGTTTAG-TTCA-GTGTTTTGGGACTTGTTATAAATGTAATTTTTTTTGTT
45012095 T
64 T
45012096 TTGATTTATT
Statistics
Matches: 256, Mismatches: 21, Indels: 16
0.87 0.07 0.05
Matches are distributed among these distances:
108 6 0.02
109 30 0.12
110 131 0.51
111 69 0.27
112 20 0.08
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (110 bp):
TTATAAATTGTTTGTGTTTAGTTCAGTGTTTTGGGACTTGTTATAAATGTAATTTTTTTTGTTTC
TTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:45021014 original size:11 final size:11
Alignment explanation
Indices: 45020998--45021038 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
45020988 AGTAACTAAG
*
45020998 AAAATAACTTT
1 AAAATAACTTA
*
45021009 AAAATAAATTA
1 AAAATAACTTA
*
45021020 AAAATAACATA
1 AAAATAACTTA
45021031 AAAATAAC
1 AAAATAAC
45021039 AATAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAACTTA
Found at i:45021039 original size:11 final size:11
Alignment explanation
Indices: 45020998--45021044 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
45020988 AGTAACTAAG
* *
45020998 AAAATAACTTT
1 AAAATAACATA
45021009 AAAATAA-ATTA
1 AAAATAACA-TA
45021020 AAAATAACATA
1 AAAATAACATA
45021031 AAAATAACAATA
1 AAAATAAC-ATA
45021043 AA
1 AA
45021045 TAAACTACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 25 0.81
12 6 0.19
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAACATA
Found at i:45022732 original size:25 final size:26
Alignment explanation
Indices: 45022685--45022734 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
45022675 TAAATAAAAA
* * *
45022685 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAATAAAACAAATAC
45022711 ATTTAAAAACATAA-AAAACAAATA
1 ATTTAAAAACATAATAAAACAAATA
45022735 TTAAAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (26 bp):
ATTTAAAAACATAATAAAACAAATAC
Found at i:45022759 original size:19 final size:19
Alignment explanation
Indices: 45022723--45022759 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45022713 TTAAAAACAT
**
45022723 AAAAAACAAATATTAAAAC
1 AAAAAACAAATAAAAAAAC
45022742 AAAAAACAAATAAAAAAA
1 AAAAAACAAATAAAAAAA
45022760 GAGACAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAACAAATAAAAAAAC
Found at i:45022976 original size:11 final size:11
Alignment explanation
Indices: 45022962--45023058 Score: 95
Period size: 11 Copynumber: 8.7 Consensus size: 11
45022952 CAAAAAGTAA
45022962 CACCAAAACAG
1 CACCAAAACAG
*
45022973 CACCAAAATAG
1 CACCAAAACAG
*
45022984 CAACAAAACAG
1 CACCAAAACAG
*
45022995 CACCAAAATAG
1 CACCAAAACAG
*
45023006 CAACAAAACAG
1 CACCAAAACAG
*
45023017 CACCAAAACAA
1 CACCAAAACAG
* * *
45023028 CATCACCAACAA
1 CACCA-AAACAG
* *
45023040 CACCAAAATAA
1 CACCAAAACAG
45023051 CACCAAAA
1 CACCAAAA
45023059 ACCTGCAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
11 62 0.87
12 9 0.13
ACGTcount: A:0.59, C:0.32, G:0.05, T:0.04
Consensus pattern (11 bp):
CACCAAAACAG
Found at i:45022993 original size:22 final size:22
Alignment explanation
Indices: 45022965--45023024 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
45022955 AAAGTAACAC
45022965 CAAAACAGCACCAAAATAGCAA
1 CAAAACAGCACCAAAATAGCAA
45022987 CAAAACAGCACCAAAATAGCAA
1 CAAAACAGCACCAAAATAGCAA
45023009 CAAAACAGCACCAAAA
1 CAAAACAGCACCAAAA
45023025 CAACATCACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.60, C:0.28, G:0.08, T:0.03
Consensus pattern (22 bp):
CAAAACAGCACCAAAATAGCAA
Found at i:45023000 original size:33 final size:33
Alignment explanation
Indices: 45022960--45023058 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
45022950 CACAAAAAGT
*
45022960 AACACCAAAACAGCACCAAAATAGCAACAAAAC
1 AACACCAAAACAGCACCAAAATAGCACCAAAAC
* * * *
45022993 AGCACCAAAATAGCAACAAAACAGCACCAAAAC
1 AACACCAAAACAGCACCAAAATAGCACCAAAAC
* * * *
45023026 AACATCACCAACAACACCAAAATAACACCAAAA
1 AACACCA-AAACAGCACCAAAATAGCACCAAAA
45023059 ACCTGCAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
33 33 0.63
34 19 0.37
ACGTcount: A:0.60, C:0.31, G:0.05, T:0.04
Consensus pattern (33 bp):
AACACCAAAACAGCACCAAAATAGCACCAAAAC
Found at i:45023250 original size:9 final size:9
Alignment explanation
Indices: 45023212--45023243 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
45023202 CATCATCCTT
45023212 ATCGTTCTC
1 ATCGTTCTC
45023221 ATCGTTCTC
1 ATCGTTCTC
45023230 ATCGTTCTC
1 ATCGTTCTC
45023239 ATCGT
1 ATCGT
45023244 CATCATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.44
Consensus pattern (9 bp):
ATCGTTCTC
Found at i:45023255 original size:18 final size:18
Alignment explanation
Indices: 45023216--45023255 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
45023206 ATCCTTATCG
*
45023216 TTCTCATCGTTCTCATCG
1 TTCTCATCGTTCTCATCA
45023234 TTCTCATCG-TCATCATCA
1 TTCTCATCGTTC-TCATCA
45023252 TTCT
1 TTCT
45023256 TGCAACCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.45
Consensus pattern (18 bp):
TTCTCATCGTTCTCATCA
Found at i:45027177 original size:19 final size:19
Alignment explanation
Indices: 45027127--45027177 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
45027117 AAAGTTAAAG
*
45027127 TTAAAAATAAAAAAAAGAA
1 TTAAAAATAAAATAAAGAA
*
45027146 TTAAAAATAAAATAAATAA
1 TTAAAAATAAAATAAAGAA
* *
45027165 TTTAATATAAAAT
1 TTAAAAATAAAAT
45027178 TCGTCCCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
TTAAAAATAAAATAAAGAA
Found at i:45028649 original size:16 final size:16
Alignment explanation
Indices: 45028615--45028662 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
45028605 GTTGAGGCGG
* *
45028615 TATAAGTTA-GATATT
1 TATAAGTTATTATATA
45028630 TATAAGTTATTATATA
1 TATAAGTTATTATATA
45028646 TAT-A-TTATTATATA
1 TATAAGTTATTATATA
45028660 TAT
1 TAT
45028663 TCTTAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 10 0.33
16 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATAAGTTATTATATA
Found at i:45028683 original size:5 final size:5
Alignment explanation
Indices: 45028673--45028702 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
45028663 TCTTAATGTT
45028673 TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA
45028703 ACAAACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:45028724 original size:10 final size:10
Alignment explanation
Indices: 45028709--45028738 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
45028699 TATAACAAAC
45028709 AAAAAGAAAG
1 AAAAAGAAAG
45028719 AAAAAGAAAG
1 AAAAAGAAAG
45028729 AGAAAAGAAA
1 A-AAAAGAAA
45028739 AAGAGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:45028749 original size:17 final size:16
Alignment explanation
Indices: 45028710--45028749 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
45028700 ATAACAAACA
45028710 AAAAG-AAAGAAAAAG
1 AAAAGAAAAGAAAAAG
45028725 AAAGAGAAAAGAAAAAG
1 AAA-AGAAAAGAAAAAG
45028742 AGAAAGAA
1 A-AAAGAA
45028750 GAAAGGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.14
16 2 0.09
17 15 0.68
18 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:45028754 original size:13 final size:13
Alignment explanation
Indices: 45028717--45028754 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
45028707 ACAAAAAGAA
45028717 AGAAA-AAGAAAG
1 AGAAAGAAGAAAG
45028729 AGAAAAGAA-AAAG
1 AG-AAAGAAGAAAG
45028742 AGAAAGAAGAAAG
1 AGAAAGAAGAAAG
45028755 GAAGCCACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.35
13 13 0.57
14 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAG
Found at i:45028754 original size:19 final size:17
Alignment explanation
Indices: 45028712--45028754 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
45028702 AACAAACAAA
45028712 AAGAAAGAAAAAGAAAG
1 AAGAAAGAAAAAGAAAG
45028729 -AGAAAAGAAAAAGAGAAAG
1 AAG-AAAG-AAAA-AGAAAG
45028748 AAGAAAG
1 AAGAAAG
45028755 GAAGCCACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 4 0.18
18 4 0.18
19 10 0.45
20 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAAGAAAG
Found at i:45031021 original size:20 final size:20
Alignment explanation
Indices: 45030996--45031033 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45030986 GTAACTATGG
45030996 TTGAATGATATGCATATGAC
1 TTGAATGATATGCATATGAC
45031016 TTGAATGATATGCATATG
1 TTGAATGATATGCATATG
45031034 GAATAAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGAATGATATGCATATGAC
Found at i:45031768 original size:23 final size:24
Alignment explanation
Indices: 45031723--45031768 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
45031713 AAAGTGTATT
*
45031723 TAAATGAGTTTTAAATTGGTTGAA
1 TAAATGAGTTTTAAATTGCTTGAA
* *
45031747 TAAATG-GTTTTGAGTTGCTTGA
1 TAAATGAGTTTTAAATTGCTTGA
45031769 TGTGCAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (24 bp):
TAAATGAGTTTTAAATTGCTTGAA
Found at i:45032682 original size:30 final size:30
Alignment explanation
Indices: 45032648--45032704 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
45032638 ACTTAACAAG
45032648 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
45032678 CAAATTCTTTTAAAATAATAACAAAAT
1 CAAATGCCTCTAAAATAATAACAAAAT
45032705 AAATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45032715 original size:12 final size:12
Alignment explanation
Indices: 45032688--45032720 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45032678 CAAATTCTTT
45032688 TAAAAT-AATAA
1 TAAAATAAATAA
*
45032699 CAAAATAAATAA
1 TAAAATAAATAA
45032711 TAAAATAAAT
1 TAAAATAAAT
45032721 TTTATACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:45040163 original size:6 final size:6
Alignment explanation
Indices: 45040152--45040185 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
45040142 CCTTTTTGAG
45040152 TTTTTA TTTTTA TTTTTA TTTTT- TTTTATA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTT
45040186 AAGTGTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 18 0.69
7 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:45048498 original size:22 final size:22
Alignment explanation
Indices: 45048464--45048506 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45048454 AAGCCTAAAG
45048464 TCCAAAGTAAATCTAAAAAAAA
1 TCCAAAGTAAATCTAAAAAAAA
* * *
45048486 TCCAATGTGAATCTACAAAAA
1 TCCAAAGTAAATCTAAAAAAA
45048507 TCAACTATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (22 bp):
TCCAAAGTAAATCTAAAAAAAA
Found at i:45048740 original size:56 final size:56
Alignment explanation
Indices: 45048674--45048808 Score: 270
Period size: 56 Copynumber: 2.4 Consensus size: 56
45048664 TATGTTAGGA
45048674 TATTATGGGATATTATCTTTTAGAAAATTGAATTCTAATAGGATATTATAGGATAT
1 TATTATGGGATATTATCTTTTAGAAAATTGAATTCTAATAGGATATTATAGGATAT
45048730 TATTATGGGATATTATCTTTTAGAAAATTGAATTCTAATAGGATATTATAGGATAT
1 TATTATGGGATATTATCTTTTAGAAAATTGAATTCTAATAGGATATTATAGGATAT
45048786 TATTATGGGATATTATCTTTTAG
1 TATTATGGGATATTATCTTTTAG
45048809 TAATTTGATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (56 bp):
TATTATGGGATATTATCTTTTAGAAAATTGAATTCTAATAGGATATTATAGGATAT
Found at i:45053307 original size:43 final size:43
Alignment explanation
Indices: 45053260--45053361 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
45053250 GTTAAGATAT
* *
45053260 TATTATGGGCTATTATCTTTTAGCAAATTGATTCATAATAGGA
1 TATTATGGGCTATTATCTATTAGCAAATTGAATCATAATAGGA
* * *
45053303 TATTATAGGG-TATTATCTATTAGTAATTTGAATCCTAATAGGA
1 TATTAT-GGGCTATTATCTATTAGCAAATTGAATCATAATAGGA
*
45053346 TATTATAGGCTATTAT
1 TATTATGGGCTATTAT
45053362 TATGAGATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 2 0.04
43 46 0.90
44 3 0.06
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (43 bp):
TATTATGGGCTATTATCTATTAGCAAATTGAATCATAATAGGA
Found at i:45055687 original size:10 final size:10
Alignment explanation
Indices: 45055674--45055700 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
45055664 CATACTATTT
45055674 TTTTTTATAA
1 TTTTTTATAA
45055684 TTTTTTATAA
1 TTTTTTATAA
45055694 TTTTTTA
1 TTTTTTA
45055701 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:45055713 original size:24 final size:23
Alignment explanation
Indices: 45055686--45055781 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
45055676 TTTTATAATT
45055686 TTTTATAATTTTTTAATTTTAAAA
1 TTTT-TAATTTTTTAATTTTAAAA
**
45055710 TTTTTAAATTTTAAAATTTTAAAA
1 TTTTT-AATTTTTTAATTTTAAAA
* * ** *
45055734 TTTTTAAATTCTTAATTTTTTAT
1 TTTTTAATTTTTTAATTTTAAAA
* * *
45055757 TTTTTATTTTTTTTATTTTTAAA
1 TTTTTAATTTTTTAATTTTAAAA
45055780 TT
1 TT
45055782 ATTTTTTGAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 31 0.55
24 25 0.45
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTAATTTTTTAATTTTAAAA
Found at i:45055742 original size:8 final size:8
Alignment explanation
Indices: 45055675--45055781 Score: 83
Period size: 8 Copynumber: 13.2 Consensus size: 8
45055665 ATACTATTTT
45055675 TTTTTATAA
1 TTTTTA-AA
45055684 TTTTTTATAA
1 -TTTTTA-AA
*
45055694 TTTTTTAA
1 TTTTTAAA
*
45055702 TTTTAAAA
1 TTTTTAAA
45055710 TTTTTAAA
1 TTTTTAAA
*
45055718 TTTTAAAA
1 TTTTTAAA
*
45055726 TTTTAAAA
1 TTTTTAAA
45055734 TTTTTAAA
1 TTTTTAAA
*
45055742 TTCTT-AA
1 TTTTTAAA
*
45055749 TTTTT-TA
1 TTTTTAAA
* *
45055756 TTTTTTAT
1 TTTTTAAA
**
45055764 TTTTTTTA
1 TTTTTAAA
45055772 TTTTTAAA
1 TTTTTAAA
45055780 TT
1 TT
45055782 ATTTTTTGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
7 12 0.15
8 55 0.68
9 5 0.06
10 9 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTTAAA
Found at i:45057382 original size:19 final size:19
Alignment explanation
Indices: 45057348--45057395 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
45057338 ATCATTCTAC
*
45057348 TAAAATCATGAAATGA-ATAA
1 TAAAAT-ATTAAATGATA-AA
45057368 TAAAATATTAAATGATAAA
1 TAAAATATTAAATGATAAA
*
45057387 TATAATATT
1 TAAAATATT
45057396 GTATAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (19 bp):
TAAAATATTAAATGATAAA
Found at i:45057529 original size:13 final size:13
Alignment explanation
Indices: 45057511--45057537 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45057501 TTCCACAAGG
45057511 ACTTTAAAAAATT
1 ACTTTAAAAAATT
45057524 ACTTTAAAAAATT
1 ACTTTAAAAAATT
45057537 A
1 A
45057538 TTTTTTTAAT
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ACTTTAAAAAATT
Found at i:45060422 original size:18 final size:18
Alignment explanation
Indices: 45060379--45060413 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45060369 AATGATATCG
45060379 ATATTGATGATAGTGACA
1 ATATTGATGATAGTGACA
*
45060397 ATATTGATGCTAGTGAC
1 ATATTGATGATAGTGAC
45060414 GCTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (18 bp):
ATATTGATGATAGTGACA
Found at i:45063891 original size:45 final size:45
Alignment explanation
Indices: 45063823--45063968 Score: 256
Period size: 45 Copynumber: 3.2 Consensus size: 45
45063813 TATTGTTTCC
* *
45063823 GTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACT
*
45063868 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACT
*
45063913 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACT
45063958 GTTACTGTTAC
1 GTTACTGTTAC
45063969 TGCTACTGCT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACT
Done.