Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 56 of 325
Found at i:14638086 original size:11 final size:11
Alignment explanation
Indices: 14638040--14638107 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
14638030 CTTAAGAAAT
14638040 ATAAAATCTAAA
1 ATAAAAT-TAAA
14638052 ATAATAA-T-AA
1 ATAA-AATTAAA
* *
14638062 TTAAAAAT-AA
1 ATAAAATTAAA
14638072 ATAAAATTAAA
1 ATAAAATTAAA
*
14638083 ATAAACTTAAA
1 ATAAAATTAAA
*
14638094 ATAAACTTAAA
1 ATAAAATTAAA
14638105 ATA
1 ATA
14638108 GAACTTCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 27 0.55
12 4 0.08
13 2 0.04
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATTAAA
Found at i:14638098 original size:22 final size:23
Alignment explanation
Indices: 14638070--14638113 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14638060 AATTAAAAAT
14638070 AAATAAAATTAAAATA-AACTTA
1 AAATAAAATTAAAATAGAACTTA
*
14638092 AAATAAACTTAAAATAGAACTT
1 AAATAAAATTAAAATAGAACTT
14638114 CCTATTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATAAAATTAAAATAGAACTTA
Found at i:14643388 original size:3 final size:3
Alignment explanation
Indices: 14643380--14643411 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14643370 ATTTCGAAGC
14643380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14643412 ATAGATTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14645531 original size:131 final size:131
Alignment explanation
Indices: 14645381--14645785 Score: 444
Period size: 131 Copynumber: 3.1 Consensus size: 131
14645371 ACAATTCGCG
* * * *
14645381 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAACCGAATGTCCCTTTA
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATGTTCCTTTA
* * * * *
14645446 GAATTTCATTCACGTTTTCTAAAAACTCTTGAAAACGAAGGCAATACTTGGTGTTTGGAAATTCA
66 GAATTTCACTCATGTTTT-TAAAAACTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCA
14645511 -A
130 GA
* * * *
14645512 GAATCGTACCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCGAAACAATCGAA-GATTCCTTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATG-TTCCTTT
* * * * * *
14645576 GGAATTTCACTCATATCTTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTTA
65 AGAATTTCACTCATGTTTTTAAAAACTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCA
*
14645641 GG
130 GA
* * *
14645643 GAATCGTGCCCTATCGTGCTGAGTTGCAATTTC-CTGTGTGTTCAAAATAATCGAATATTCCTTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTC-GTTTGTTCAAAATAATCGAATGTTCCTTT
* * ** * * *
14645707 AGAATTTCACTCATGTTTTTTTAAAATTC-T-AAAAATAAGGCAACACTCGATATTTCGAAATTC
65 AGAATTTCACTCATG-TTTTTAAAAACTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTC
14645770 -GA
129 AGA
*
14645772 GGAACCGTGCCCTA
1 -GAATCGTGCCCTA
14645786 CTGTGCTAGG
Statistics
Matches: 226, Mismatches: 42, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
129 1 0.00
130 79 0.35
131 136 0.60
132 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATGTTCCTTTA
GAATTTCACTCATGTTTTTAAAAACTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCAG
A
Found at i:14647363 original size:35 final size:35
Alignment explanation
Indices: 14647317--14647422 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
14647307 CACTTGCCTC
14647317 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
14647352 TTCCCACTCTCCCATACTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
14647387 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
14647422 T
1 T
14647423 CACACACCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.17, C:0.49, G:0.11, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:14647865 original size:20 final size:17
Alignment explanation
Indices: 14647816--14647878 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 17
14647806 AAAGAGGGGA
*
14647816 AGCAAAAAAAAAAATCC
1 AGCAAAAAAAAAATTCC
14647833 AGC----AAAAAATTCC
1 AGCAAAAAAAAAATTCC
14647846 AGCACCAAAAAAAAATTTCC
1 AGCA--AAAAAAAAA-TTCC
14647866 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
14647879 CAAAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 12 0.32
17 3 0.08
18 9 0.24
19 6 0.16
20 8 0.21
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (17 bp):
AGCAAAAAAAAAATTCC
Found at i:14647884 original size:11 final size:11
Alignment explanation
Indices: 14647868--14647892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14647858 AAATTTCCAG
14647868 CAAAAAAAAAA
1 CAAAAAAAAAA
14647879 CAAAAAAAAAA
1 CAAAAAAAAAA
14647890 CAA
1 CAA
14647893 TAGAACGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:14648165 original size:11 final size:11
Alignment explanation
Indices: 14648136--14648185 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
14648126 CGACCGGATT
* *
14648136 TCCCTTCCCCC
1 TCCCTTCTCTC
14648147 TCCCTTCTCTC
1 TCCCTTCTCTC
14648158 TCCCTTCTCTC
1 TCCCTTCTCTC
14648169 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
14648180 TTCCTT
1 TCCCTT
14648186 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:14648776 original size:2 final size:2
Alignment explanation
Indices: 14648700--14648760 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
14648690 ATCATTTCTA
* * *
14648700 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14648740 AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
14648761 GCCATTAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14656672 original size:20 final size:20
Alignment explanation
Indices: 14656647--14656687 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
14656637 ACATCGAAAG
14656647 AAAACCAAAACACCAAAACT
1 AAAACCAAAACACCAAAACT
*
14656667 AAAACCAAAGCACCAAAACT
1 AAAACCAAAACACCAAAACT
14656687 A
1 A
14656688 TTAGGAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.29, G:0.02, T:0.05
Consensus pattern (20 bp):
AAAACCAAAACACCAAAACT
Found at i:14665848 original size:30 final size:29
Alignment explanation
Indices: 14665789--14665849 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
14665779 AATTTTAAAA
**
14665789 TTATACATGAATTTTGATTTTGTGTAATT
1 TTATACATGAATTTTGATTTAATGTAATT
14665818 TTATACATGATATTTTGATTTAAT-TCAATT
1 TTATACATGA-ATTTTGATTTAATGT-AATT
14665848 TT
1 TT
14665850 CACAAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.56
Consensus pattern (29 bp):
TTATACATGAATTTTGATTTAATGTAATT
Found at i:14666261 original size:24 final size:24
Alignment explanation
Indices: 14666222--14666288 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
14666212 AACTTTTCAT
* * * *
14666222 CTTTCATCTCCCTTAAGCTTCCAC
1 CTTTCATCTTCTTTAACCTTCAAC
*
14666246 CTTTCATCTTCTTTAACCTTTAAC
1 CTTTCATCTTCTTTAACCTTCAAC
*
14666270 CTTTCATATTCTTGTAACC
1 CTTTCATCTTCTT-TAACC
14666289 CATTTTCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.19, C:0.33, G:0.03, T:0.45
Consensus pattern (24 bp):
CTTTCATCTTCTTTAACCTTCAAC
Found at i:14675650 original size:6 final size:6
Alignment explanation
Indices: 14675639--14675664 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14675629 AGAACACGAG
14675639 CGTGGT CGTGGT CGTGGT CGTGGT CG
1 CGTGGT CGTGGT CGTGGT CGTGGT CG
14675665 CGATCGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.50, T:0.31
Consensus pattern (6 bp):
CGTGGT
Found at i:14678416 original size:35 final size:35
Alignment explanation
Indices: 14678370--14678498 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 35
14678360 TTTCCTCATT
** *
14678370 GAAATACCATACCTACATTTCACAACTTGGTTTGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* * * **
14678405 GAAATGCCATACTTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
*
14678439 GATAATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
**
14678475 TTAATACCATACCTACATTTCACA
1 GAAATACCATACCTACATTTCACA
14678499 CTTTTCCATG
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.04
35 73 0.95
36 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:14682446 original size:24 final size:24
Alignment explanation
Indices: 14682381--14682457 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
14682371 GTGGATGTTC
* *
14682381 AACCTTTCACCTTTCATTTTCCTT
1 AACCTTTCACCTTTCATCTTCTTT
* *
14682405 AACCTTCCACCTTCCATCTTCTTT
1 AACCTTTCACCTTTCATCTTCTTT
* *
14682429 AACCTTTAACGTTTCATCTTCTTGT
1 AACCTTTCACCTTTCATCTTCTT-T
14682454 AACC
1 AACC
14682458 CCTTTTTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 39 0.89
25 5 0.11
ACGTcount: A:0.19, C:0.34, G:0.03, T:0.44
Consensus pattern (24 bp):
AACCTTTCACCTTTCATCTTCTTT
Found at i:14684433 original size:7 final size:7
Alignment explanation
Indices: 14684397--14684448 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
14684387 CTTCTTCTTC
14684397 TTCTTTT
1 TTCTTTT
14684404 TT-TTTT
1 TTCTTTT
14684410 TT-TTTT
1 TTCTTTT
*
14684416 ATCTTTAT
1 TTCTTT-T
14684424 TTCTTTT
1 TTCTTTT
*
14684431 TTCTATT
1 TTCTTTT
14684438 TTCTCTTT
1 TTCT-TTT
14684446 TTC
1 TTC
14684449 ATGCTCGATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
6 11 0.29
7 16 0.42
8 11 0.29
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (7 bp):
TTCTTTT
Found at i:14698098 original size:43 final size:42
Alignment explanation
Indices: 14698036--14698205 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
14698026 ATAGGATTTC
* * *
14698036 CGATATGTGTTCTCGTGTAAGACCACGTCTAGGATGTTTGCAT
1 CGATATGTGAT-TCATGTAAGACCACGTCTAGGATGTTGGCAT
* **
14698079 CGATATGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT
1 CGATATGTGATT-CATGTAAGACCACGTCTAGGATGTTGGCAT
* * * * *
14698122 CG-TATTTGATTCGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 CGATATGTGATTCATGTAAGACCAC-GTCTAGGA-TGTTGGCAT
* *
14698163 CGATATGTGATGGCATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGAT-TCATGTAAGACCACGTCTAGGATGTTGGCAT
14698206 TGTACGATAT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
41 24 0.24
42 17 0.17
43 60 0.59
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGATATGTGATTCATGTAAGACCACGTCTAGGATGTTGGCAT
Found at i:14698155 original size:41 final size:43
Alignment explanation
Indices: 14698075--14698187 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 43
14698065 TAGGATGTTT
* *
14698075 GCATCGATATGTGATTACATGTAAGACCATGTCTAGGACATTG
1 GCATCGATATGTGATTACATGTAAGACCATATCTAGGACAGTG
* * * *
14698118 GCATCG-TATTTGATT-CGTGTAAGACCCTATCTGGGACAGTG
1 GCATCGATATGTGATTACATGTAAGACCATATCTAGGACAGTG
**
14698159 GCATCGATATGTGATGGCATGTAAGACCA
1 GCATCGATATGTGATTACATGTAAGACCA
14698188 CGTCTGGGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
41 27 0.47
42 15 0.26
43 16 0.28
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
GCATCGATATGTGATTACATGTAAGACCATATCTAGGACAGTG
Found at i:14701114 original size:46 final size:46
Alignment explanation
Indices: 14701047--14701262 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
14701037 GGCAACCTGA
14701047 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
14701093 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
14701139 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
14701185 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
14701231 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
14701263 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:14701242 original size:138 final size:130
Alignment explanation
Indices: 14700997--14701262 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
14700987 AGTGTGCTCT
*
14700997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
14701062 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
14701127 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
14701192 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
14701257 ATGGCA
123 ATGGCA
14701263 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:14704172 original size:20 final size:22
Alignment explanation
Indices: 14704149--14704189 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14704139 AATAAAATTA
*
14704149 ATTAATTGA-AAATAT-TTTTC
1 ATTAAATGATAAATATCTTTTC
14704169 ATTAAATGATAAATATCTTTT
1 ATTAAATGATAAATATCTTTT
14704190 ATTTACTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTAAATGATAAATATCTTTTC
Found at i:14704868 original size:14 final size:14
Alignment explanation
Indices: 14704851--14704880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14704841 AATATTGACC
*
14704851 TTAAAATTTTATAT
1 TTAAAATTTAATAT
14704865 TTAAAATTTAATAT
1 TTAAAATTTAATAT
14704879 TT
1 TT
14704881 TATGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAAATTTAATAT
Found at i:14705234 original size:2 final size:2
Alignment explanation
Indices: 14705227--14705253 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14705217 ATTAGTGTAG
14705227 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
14705254 CATAGAACAA
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:14716848 original size:18 final size:18
Alignment explanation
Indices: 14716793--14716849 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
14716783 GATTCCAGTG
14716793 TGATCCTTGATGTAGATC
1 TGATCCTTGATGTAGATC
* *
14716811 TGAT-CTGGA--TAG-TG
1 TGATCCTTGATGTAGATC
14716825 TGATCCTTGATGTAGATC
1 TGATCCTTGATGTAGATC
14716843 TGATCCT
1 TGATCCT
14716850 CTGAATGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
17 7 0.23
18 12 0.39
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.39
Consensus pattern (18 bp):
TGATCCTTGATGTAGATC
Found at i:14717454 original size:52 final size:53
Alignment explanation
Indices: 14717294--14717481 Score: 236
Period size: 53 Copynumber: 3.6 Consensus size: 53
14717284 ATATCTCAGA
* * * * *
14717294 TATGATCTTATATGGAAGCACATAATCATATCTCACTGATGCCATAGCCCTGT
1 TATGGTCTTATACGGGAGCACATAATCACATCTCACTGATGCCATAGCCCTGC
** *
14717347 TATGGTCTTATACGGGAGCACATAATCACATCTCACCAATGCCATAACCCTGC
1 TATGGTCTTATACGGGAGCACATAATCACATCTCACTGATGCCATAGCCCTGC
* * * *
14717400 TATAGTCTTATACGGGAGCACAT-ATCACATCACACTGATACCATAGCCCAGC
1 TATGGTCTTATACGGGAGCACATAATCACATCTCACTGATGCCATAGCCCTGC
**
14717452 TATGGTCTTATACGATAGCACAT-ATCACAT
1 TATGGTCTTATACGGGAGCACATAATCACAT
14717482 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
52 50 0.43
53 67 0.57
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (53 bp):
TATGGTCTTATACGGGAGCACATAATCACATCTCACTGATGCCATAGCCCTGC
Found at i:14720010 original size:20 final size:19
Alignment explanation
Indices: 14719981--14720038 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
14719971 TTCTTTCTTT
*
14719981 TCTTTCTTTTATTATTATA
1 TCTTTATTTTATTATTATA
14720000 TACTTTATTTTATTATTATA
1 T-CTTTATTTTATTATTATA
* *
14720020 T-TATATTATATTATTATA
1 TCTTTATTTTATTATTATA
14720038 T
1 T
14720039 TAATTTCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
20 18 0.51
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TCTTTATTTTATTATTATA
Found at i:14720026 original size:18 final size:18
Alignment explanation
Indices: 14719987--14720044 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
14719977 CTTTTCTTTC
*
14719987 TTTTATTATTATATACTTTA
1 TTTTATTATTATAT--TATA
14720007 TTTTATTATTATATTATA
1 TTTTATTATTATATTATA
*
14720025 TTATATTATTATATTA-A
1 TTTTATTATTATATTATA
14720042 TTT
1 TTT
14720045 CTTAAACACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 3 0.09
18 18 0.51
20 14 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATTATTATATTATA
Found at i:14725618 original size:47 final size:47
Alignment explanation
Indices: 14725520--14725625 Score: 142
Period size: 47 Copynumber: 2.2 Consensus size: 47
14725510 TTACACGGAT
* * * *
14725520 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAGAGAAA
*
14725567 CACATATTACACCGATGCCATATCCCAGATATGGTCTTATACGA-AAA
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATA-GAGAAA
14725614 CACATAATCACA
1 CACAT-ATCACA
14725626 TCTCTCCAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 45 0.88
48 6 0.12
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAGAGAAA
Found at i:14730208 original size:54 final size:54
Alignment explanation
Indices: 14730088--14730303 Score: 303
Period size: 54 Copynumber: 4.0 Consensus size: 54
14730078 CGGATCACAT
* * * * * *
14730088 ATCACACTGATGCTATATCCCAGATATGGTCTTATACGG-AAGCACATAATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
* * * *
14730141 ATCTCTCCAATGCCATAGCCAAGCTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
14730195 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
*
14730249 ATCACACCGATGCCATAGCCCAGCTATGGTCTT-TCACGAAAATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTAT-ACGGAAATCACATGATCAC
14730302 AT
1 AT
14730304 GTTGCCATGG
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
53 39 0.27
54 107 0.73
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (54 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
Found at i:14733233 original size:20 final size:20
Alignment explanation
Indices: 14733205--14733243 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14733195 TCTTTCTTTT
*
14733205 CTTTCTTTTATTATTATATG
1 CTTTATTTTATTATTATATG
14733225 CTTTATTTTATTATTATAT
1 CTTTATTTTATTATTATAT
14733244 TATATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
CTTTATTTTATTATTATATG
Found at i:14733244 original size:8 final size:8
Alignment explanation
Indices: 14733227--14733271 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
14733217 ATTATATGCT
*
14733227 TTATTTTA
1 TTATTATA
14733235 TTATTATA
1 TTATTATA
14733243 TTATATTATA
1 -T-TATTATA
*
14733253 TTTTTATA
1 TTATTATA
14733261 TTATTATA
1 TTATTATA
14733269 TTA
1 TTA
14733272 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATTATA
Found at i:14733249 original size:13 final size:13
Alignment explanation
Indices: 14733228--14733271 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
14733218 TTATATGCTT
*
14733228 TATTTTATTATTA
1 TATTATATTATTA
14733241 TATTATATTA-TA
1 TATTATATTATTA
*
14733253 TTTTTATATTATTA
1 -TATTATATTATTA
14733267 TATTA
1 TATTA
14733272 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:14740825 original size:47 final size:47
Alignment explanation
Indices: 14740759--14740848 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
14740749 CACGTATCAC
* *
14740759 ACTGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATATT
1 ACTGATGCCATAACCCAGATATGGTCTTACACAGAAGCACATATATT
* * *
14740806 ACTGATGCCATAACTCAGATATGGTCTTATACGGAAGCACATA
1 ACTGATGCCATAACCCAGATATGGTCTTACACAGAAGCACATA
14740849 ATCACATCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (47 bp):
ACTGATGCCATAACCCAGATATGGTCTTACACAGAAGCACATATATT
Found at i:14740882 original size:53 final size:52
Alignment explanation
Indices: 14740825--14741012 Score: 252
Period size: 53 Copynumber: 3.6 Consensus size: 52
14740815 ATAACTCAGA
14740825 TATGGTCTTATACGGAAGCACATAATCACATCTCACTGATGTCATAGCCCTGC
1 TATGGTCTTATACGGAAGCACAT-ATCACATCTCACTGATGTCATAGCCCTGC
* *
14740878 TATGGTCTTATAC-GAGAGCACATAATCACATCTCACTGATGTCATAGCCTTAC
1 TATGGTCTTATACGGA-AGCACAT-ATCACATCTCACTGATGTCATAGCCCTGC
* * ** ** *
14740931 TATGGTCTTATACGGGAGCACATATCACATCACACCAATACCATAGCCCAGC
1 TATGGTCTTATACGGAAGCACATATCACATCTCACTGATGTCATAGCCCTGC
*
14740983 TATGGTCTTATACGAAAGCACATATCACAT
1 TATGGTCTTATACGGAAGCACATATCACAT
14741013 GTTGCCATGG
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
52 51 0.43
53 68 0.57
54 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (52 bp):
TATGGTCTTATACGGAAGCACATATCACATCTCACTGATGTCATAGCCCTGC
Found at i:14743397 original size:19 final size:19
Alignment explanation
Indices: 14743368--14743413 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
14743358 GGGATATTTT
14743368 TAAAG-TTATTTAGGTAGA
1 TAAAGCTTATTTAGGTAGA
*
14743386 TAAATCTTATTTAGGTAGA
1 TAAAGCTTATTTAGGTAGA
14743405 TAAAGCTTA
1 TAAAGCTTA
14743414 GAATAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (19 bp):
TAAAGCTTATTTAGGTAGA
Found at i:14746728 original size:24 final size:26
Alignment explanation
Indices: 14746683--14746731 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
14746673 AATAAAAATT
*
14746683 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAATAAATCAAATATA
14746709 TTTAAAAACATAA-AAA-CAAATAT
1 TTTAAAAACATAATAAATCAAATAT
14746732 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
TTTAAAAACATAATAAATCAAATATA
Found at i:14756573 original size:3 final size:3
Alignment explanation
Indices: 14756565--14756591 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14756555 GTGGCAGGTT
14756565 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
14756592 AAAGCATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:14758179 original size:46 final size:47
Alignment explanation
Indices: 14758112--14758205 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
14758102 GGCTTAAAAA
*
14758112 CAAAATTTCCTTATTTTCTCTCACTTTATCTA-TTTTAAAATTTTAT
1 CAAAATTTCCTTATTTTCTCTCACTGTATCTATTTTTAAAATTTTAT
14758158 CAAAATTTCCTTATTTTCTCTCACTGTATCTATTTTTAAAATTTTAT
1 CAAAATTTCCTTATTTTCTCTCACTGTATCTATTTTTAAAATTTTAT
14758205 C
1 C
14758206 TTCTTTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 31 0.67
47 15 0.33
ACGTcount: A:0.28, C:0.18, G:0.01, T:0.53
Consensus pattern (47 bp):
CAAAATTTCCTTATTTTCTCTCACTGTATCTATTTTTAAAATTTTAT
Found at i:14758650 original size:2 final size:2
Alignment explanation
Indices: 14758643--14758668 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14758633 ATCAATTTTA
14758643 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14758669 TATTTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14762749 original size:20 final size:20
Alignment explanation
Indices: 14762704--14762742 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14762694 GTAAATACAA
*
14762704 AATTCTCCAAAAGTGTTATG
1 AATTCTCCAAAAGCGTTATG
14762724 AATTCTCCAAAAGCGTTAT
1 AATTCTCCAAAAGCGTTAT
14762743 AAGTTCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
AATTCTCCAAAAGCGTTATG
Found at i:14763553 original size:9 final size:9
Alignment explanation
Indices: 14763541--14763587 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
14763531 AAATGTTATT
14763541 AATGGTTAA
1 AATGGTTAA
14763550 AATGG-TAA
1 AATGGTTAA
*
14763558 AATTGTTAA
1 AATGGTTAA
14763567 AATGG-TAA
1 AATGGTTAA
14763575 AATGGTTAA
1 AATGGTTAA
14763584 AATG
1 AATG
14763588 ATAAAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 15 0.44
9 19 0.56
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (9 bp):
AATGGTTAA
Found at i:14763560 original size:8 final size:8
Alignment explanation
Indices: 14763541--14763594 Score: 63
Period size: 8 Copynumber: 6.4 Consensus size: 8
14763531 AAATGTTATT
14763541 AATGGTTAA
1 AATGG-TAA
14763550 AATGGTAA
1 AATGGTAA
*
14763558 AATTGTTAA
1 AA-TGGTAA
14763567 AATGGTAA
1 AATGGTAA
14763575 AATGGTTAA
1 AATGG-TAA
*
14763584 AATGATAA
1 AATGGTAA
14763592 AAT
1 AAT
14763595 AACATAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
8 21 0.52
9 19 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (8 bp):
AATGGTAA
Found at i:14763565 original size:17 final size:17
Alignment explanation
Indices: 14763541--14763594 Score: 90
Period size: 17 Copynumber: 3.2 Consensus size: 17
14763531 AAATGTTATT
14763541 AATGGTTAAAATGGTAA
1 AATGGTTAAAATGGTAA
*
14763558 AATTGTTAAAATGGTAA
1 AATGGTTAAAATGGTAA
*
14763575 AATGGTTAAAATGATAA
1 AATGGTTAAAATGGTAA
14763592 AAT
1 AAT
14763595 AACATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (17 bp):
AATGGTTAAAATGGTAA
Found at i:14764529 original size:43 final size:43
Alignment explanation
Indices: 14764481--14764638 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
14764471 GTTACCGAGA
*
14764481 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTAAATGTAAGACCATATCTGGGACATTGGCATTGTAT
** * *
14764524 TGTGATTACCTGTAAGACCATATCTAGGACATTGGCATTGTTAA
1 TGTGATTAAATGTAAGACCATATCTGGGACATTGGCATTG-TAT
* ** * * * *
14764568 T-CGATTACGTGTAAGACTATATCTGGGACAATCGCATCG-AT
1 TGTGATTAAATGTAAGACCATATCTGGGACATTGGCATTGTAT
*
14764609 ATGTGA-TAACATGTAAGACCATATTTGGGA
1 -TGTGATTAA-ATGTAAGACCATATCTGGGA
14764639 TATGACATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 86 0.92
44 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTGATTAAATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:14768832 original size:18 final size:18
Alignment explanation
Indices: 14768811--14768874 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
14768801 GAACAATTAT
* *
14768811 TTATTCAGTAACAGCCAC
1 TTATTCAGTAACAACCAA
* *
14768829 TTATTCTGTAACAATCAA
1 TTATTCAGTAACAACCAA
* * *
14768847 TTATTCAATAATAACCAG
1 TTATTCAGTAACAACCAA
14768865 TTATTCAGTA
1 TTATTCAGTA
14768875 TCGATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAACCAA
Found at i:14768851 original size:36 final size:36
Alignment explanation
Indices: 14768802--14768937 Score: 92
Period size: 36 Copynumber: 3.6 Consensus size: 36
14768792 TAACAATCAG
* * *
14768802 AACAATTATTTATTCAGTAACAGCCACTTATTCTGT
1 AACAATCAATTATTCAGTAACAGCCAATTATTCTGT
* * * * *
14768838 AACAATCAATTATTCAATAATAACCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAGCCAATTATTCTGT
* * *
14768874 ATCGATCAATTGATCGGTTATCTAGTAACAGTCAATTATTCTGT
1 AACAATCAATT-A-----T-TC-AGTAACAGCCAATTATTCTGT
*
14768918 AACAGTCAATTATTCAGTAA
1 AACAATCAATTATTCAGTAA
14768938 TAATCAGTTG
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
36 43 0.58
37 3 0.04
38 1 0.01
42 1 0.01
43 3 0.04
44 23 0.31
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAGCCAATTATTCTGT
Found at i:14768919 original size:18 final size:18
Alignment explanation
Indices: 14768897--14768937 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
14768887 TCGGTTATCT
14768897 AGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
*
14768915 TGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
14768933 AGTAA
1 AGTAA
14768938 TAATCAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (18 bp):
AGTAACAGTCAATTATTC
Found at i:14769124 original size:6 final size:6
Alignment explanation
Indices: 14769113--14769137 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14769103 ACAAATCTAG
14769113 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
14769138 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:14769178 original size:45 final size:45
Alignment explanation
Indices: 14769117--14769227 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
14769107 ATCTAGAACA
*
14769117 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATC-
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCT
* * *
14769161 GATAACGGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCT
1 G-TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCT
*
14769207 GTAACAGTAATAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
14769228 ACAGTAACAG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 56 0.97
46 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCT
Found at i:14769221 original size:6 final size:6
Alignment explanation
Indices: 14769207--14769239 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14769197 TGTCGAATCT
*
14769207 GTAACA GTAATA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
14769240 GTCGGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:14770923 original size:16 final size:16
Alignment explanation
Indices: 14770899--14770937 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14770889 AATTTTCCCC
* *
14770899 TTTTCCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
14770915 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
14770931 TCTTTCC
1 TTTTTCC
14770938 CCTTCTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:14773160 original size:11 final size:11
Alignment explanation
Indices: 14773144--14773168 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14773134 TATATTGAAA
14773144 ATGAAAAATGT
1 ATGAAAAATGT
14773155 ATGAAAAATGT
1 ATGAAAAATGT
14773166 ATG
1 ATG
14773169 TTTATTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
ATGAAAAATGT
Found at i:14773877 original size:31 final size:31
Alignment explanation
Indices: 14773836--14773940 Score: 147
Period size: 31 Copynumber: 3.4 Consensus size: 31
14773826 GTGGTTTGGG
* * *
14773836 ACACGTCCGTGTGGGCAGGACGTGTGGTAAC
1 ACACGCCCGTGTGGGCAGGCCATGTGGTAAC
14773867 ACACGCCCGTGTGGGCAGGCCATGTGGTAAC
1 ACACGCCCGTGTGGGCAGGCCATGTGGTAAC
* * *
14773898 ACACGCCCATGTGGGCAAGCCATGTGGTAAT
1 ACACGCCCGTGTGGGCAGGCCATGTGGTAAC
*
14773929 ACACACCCGTGT
1 ACACGCCCGTGT
14773941 CCCTAAGCCG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (31 bp):
ACACGCCCGTGTGGGCAGGCCATGTGGTAAC
Found at i:14774631 original size:2 final size:2
Alignment explanation
Indices: 14774624--14774650 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14774614 ACATACATGC
14774624 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
14774651 AGCTTACAGC
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:14776782 original size:41 final size:37
Alignment explanation
Indices: 14776686--14776784 Score: 99
Period size: 41 Copynumber: 2.6 Consensus size: 37
14776676 AAATAATAAT
* *
14776686 TTGACACCCAGTGTCTCATTGGTTAATCCAAAGTAAA
1 TTGACACCCAGTGTCTCATCGATTAATCCAAAGTAAA
* * * **
14776723 TTGGCACTCAGTGCCTCATCGAATTAATCTGAAGTGATAGA
1 TTGACACCCAGTGTCTCATCG-ATTAATCCAAAGT-A-A-A
14776764 TTGACACCCAGTGTCTCATCG
1 TTGACACCCAGTGTCTCATCG
14776785 GCTCGAAGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
37 17 0.35
38 10 0.21
39 1 0.02
40 1 0.02
41 19 0.40
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (37 bp):
TTGACACCCAGTGTCTCATCGATTAATCCAAAGTAAA
Found at i:14777688 original size:17 final size:16
Alignment explanation
Indices: 14777665--14777715 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
14777655 AGCTTTGGTC
14777665 TTTCCTTTTCTTTCTT
1 TTTCCTTTTCTTTCTT
*
14777681 TTTCCCTTTTGTTTCATT
1 TTT-CCTTTTCTTTC-TT
14777699 TGTT-C-TTTCTTTCTT
1 T-TTCCTTTTCTTTCTT
14777714 TT
1 TT
14777716 CTATTTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 10 0.33
17 11 0.37
18 3 0.10
19 2 0.07
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTCCTTTTCTTTCTT
Found at i:14781462 original size:62 final size:62
Alignment explanation
Indices: 14781372--14781550 Score: 259
Period size: 62 Copynumber: 2.9 Consensus size: 62
14781362 GTTCATTGCA
* * * *
14781372 TGATGGTTCTTAAGATGCTATTGCATTTGAACTGAGTTATGAAGATTTGGGATTAATGGTAG
1 TGATGGTACTTAAGATGCTACTGCATTTGAATTGAGTTTTGAAGATTTGGGATTAATGGTAG
* * *
14781434 TGATGGTACTTAGGATGGTACTACATTTGAATTGAGTTTTGAAGATTTGGGATTAATGGTAG
1 TGATGGTACTTAAGATGCTACTGCATTTGAATTGAGTTTTGAAGATTTGGGATTAATGGTAG
* * * *
14781496 TGACGATACTTATGATGCTACTGCATTTGAATTGAGTTTTGAAGATTTGTGATTA
1 TGATGGTACTTAAGATGCTACTGCATTTGAATTGAGTTTTGAAGATTTGGGATTA
14781551 CAGGTTCATT
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 104 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.40
Consensus pattern (62 bp):
TGATGGTACTTAAGATGCTACTGCATTTGAATTGAGTTTTGAAGATTTGGGATTAATGGTAG
Found at i:14784161 original size:20 final size:21
Alignment explanation
Indices: 14784136--14784174 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14784126 ACACTTCATA
*
14784136 ATTTAT-CAAATAAATTATTT
1 ATTTATGCAAACAAATTATTT
14784156 ATTTATGCAAACAAATTAT
1 ATTTATGCAAACAAATTAT
14784175 CTCATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTATGCAAACAAATTATTT
Found at i:14792649 original size:36 final size:36
Alignment explanation
Indices: 14792581--14792655 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
14792571 ATTGATCCTA
* *
14792581 AAACACATATAATTAAATATAAATATAATTATATTT
1 AAACACACATAATTAAATATAAATATAATTATATGT
**
14792617 AAACACACATAATTAAATATTGATA-AATTTATATGT
1 AAACACACATAATTAAATATAAATATAA-TTATATGT
14792653 AAA
1 AAA
14792656 TTAGTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (36 bp):
AAACACACATAATTAAATATAAATATAATTATATGT
Found at i:14793310 original size:24 final size:25
Alignment explanation
Indices: 14793283--14793351 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 25
14793273 TATGAGCCTT
14793283 ATAATTA-TAATTAAATATAAACAC
1 ATAATTATTAATTAAATATAAACAC
* *
14793307 ATAA-TATTATTTATATATAAACAC
1 ATAATTATTAATTAAATATAAACAC
* *
14793331 ATAA-TATTATTTATATATAAA
1 ATAATTATTAATTAAATATAAA
14793352 TAATATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 2 0.05
24 40 0.95
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
ATAATTATTAATTAAATATAAACAC
Found at i:14793363 original size:20 final size:21
Alignment explanation
Indices: 14793307--14793365 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 21
14793297 ATATAAACAC
14793307 ATAATAT-TATTTATATATAA
1 ATAATATATATTTATATATAA
*
14793327 ACACATAATATTATTTATATATAA
1 ATA-AT-ATA-TATTTATATATAA
14793351 ATAATATAT-TTTATA
1 ATAATATATATTTATA
14793366 ATTTTTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 5 0.15
23 2 0.06
24 15 0.45
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATATATTTATATATAA
Found at i:14793364 original size:24 final size:24
Alignment explanation
Indices: 14793297--14793351 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
14793287 TTATAATTAA
14793297 ATATAAACACATAATATTATTTAT
1 ATATAAACACATAATATTATTTAT
14793321 ATATAAACACATAATATTATTTAT
1 ATATAAACACATAATATTATTTAT
14793345 ATATAAA
1 ATATAAA
14793352 TAATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAACACATAATATTATTTAT
Found at i:14794094 original size:4 final size:4
Alignment explanation
Indices: 14794085--14794109 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14794075 ATTCTAATTC
14794085 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
14794110 TTAACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:14794682 original size:17 final size:17
Alignment explanation
Indices: 14794656--14794704 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
14794646 ATCAGTGTTC
14794656 ATACTTTCTTTATTTTA
1 ATACTTTCTTTATTTTA
* * *
14794673 ATATTTTCTTTCTTTTC
1 ATACTTTCTTTATTTTA
*
14794690 ATACTTTCTTCATTT
1 ATACTTTCTTTATTT
14794705 CAAAAATTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (17 bp):
ATACTTTCTTTATTTTA
Found at i:14800213 original size:78 final size:78
Alignment explanation
Indices: 14800131--14800283 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
14800121 TTAAACCCGG
* * * * *
14800131 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCAGACATATTTCCAGCACGTAGCCTGCG
1 TATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCAGACATAATTCCAGCACATAGCCTGCG
*
14800194 GACCTTAAGTCCGAA
64 GACCCTAAGTCCGAA
* * * *
14800209 TATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCAGACATAATTCCAGCACATAGCCTGCGGA
14800274 CCCTAAGTCC
66 CCCTAAGTCC
14800284 AGATATGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.06
78 59 0.94
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCAGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCCGAA
Found at i:14800218 original size:39 final size:39
Alignment explanation
Indices: 14800175--14800283 Score: 191
Period size: 39 Copynumber: 2.8 Consensus size: 39
14800165 CCAGACATAT
* *
14800175 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
*
14800214 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
14800253 TTCCAGCACATAGCCTGCGGACCCTAAGTCC
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCC
14800284 AGATATGCAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
Found at i:14800289 original size:39 final size:39
Alignment explanation
Indices: 14800165--14800289 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
14800155 GGACTTTAGC
* * * *
14800165 CCAGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
14800204 CC-GAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCAG-ATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
14800243 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
14800282 CCAGATAT
1 CCAGATAT
14800290 GCATCACTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 77 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (39 bp):
CCAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:14805562 original size:57 final size:58
Alignment explanation
Indices: 14805438--14805579 Score: 162
Period size: 57 Copynumber: 2.5 Consensus size: 58
14805428 CATTACAGAA
* * * * * *
14805438 AGGATTTAGCCTGGACTGGTAATTCTGATATAAGCCCTCTTGAGCATATATTATAGAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAACCCTCTTGAGCATATATTAGAAAC
* * *
14805496 AGGATTTAGCCTGGACGGGTAATCCTGA-ATAAACTCT-TATGAGCATATATTGGAAAC
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAACCCTCT-TGAGCATATATTAGAAAC
* *
14805553 AGGATTTAGCTTGGACAAGTAATCCTG
1 AGGATTTAGCCTGGACAGGTAATCCTG
14805580 TTATGTGATA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
56 1 0.01
57 45 0.62
58 26 0.36
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (58 bp):
AGGATTTAGCCTGGACAGGTAATCCTGATATAAACCCTCTTGAGCATATATTAGAAAC
Found at i:14819743 original size:27 final size:27
Alignment explanation
Indices: 14819713--14819771 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
14819703 ATAGTACACA
*
14819713 ATTCAAACATACCTAAATTAGATATAT
1 ATTCAAACATACCTAAATCAGATATAT
** * *
14819740 ATTCATTCATACCTGAATCAGATATGT
1 ATTCAAACATACCTAAATCAGATATAT
14819767 ATTCA
1 ATTCA
14819772 TTTATTCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (27 bp):
ATTCAAACATACCTAAATCAGATATAT
Found at i:14819772 original size:27 final size:27
Alignment explanation
Indices: 14819720--14819773 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
14819710 ACAATTCAAA
*
14819720 CATACCTAAATTAGATATATATTCATT
1 CATACCTAAATCAGATATATATTCATT
* *
14819747 CATACCTGAATCAGATATGTATTCATT
1 CATACCTAAATCAGATATATATTCATT
14819774 TATTCATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (27 bp):
CATACCTAAATCAGATATATATTCATT
Found at i:14819997 original size:44 final size:42
Alignment explanation
Indices: 14819853--14820011 Score: 142
Period size: 42 Copynumber: 3.7 Consensus size: 42
14819843 AGCATATACA
*** * * *
14819853 ATGCCAACGTCCCAGGTGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA-AAAAGATCG
* * **
14819896 ATGCC-ACTGTCCCAGACAGGGTCTTTCACG-AAATCAGATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAAAAAGAT-CG
*
14819938 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAAAAGAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAAAAG-A-TCG
**
14819982 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
14820012 ATAACATATA
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.03
42 31 0.34
43 27 0.29
44 30 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAAAAAGATCG
Found at i:14822366 original size:24 final size:24
Alignment explanation
Indices: 14822338--14822389 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14822328 TTCGTAGGTC
* * *
14822338 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAACAAATACT
*
14822362 AAATATATTATACTAACAAATACT
1 AAATAAATTATACTAACAAATACT
14822386 AAAT
1 AAAT
14822390 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAACAAATACT
Found at i:14825549 original size:5 final size:5
Alignment explanation
Indices: 14825539--14825585 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
14825529 AGAAAAAATC
14825539 TTATT TTATT TT-TAT TTATTT ATTATT TTATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTA-TT -TTATT TTATT TTATT TT-ATT TTAT
14825586 ATTAAATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 1 0.03
5 24 0.65
6 8 0.22
7 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:14825555 original size:11 final size:11
Alignment explanation
Indices: 14825539--14825588 Score: 59
Period size: 10 Copynumber: 4.5 Consensus size: 11
14825529 AGAAAAAATC
14825539 TTATTTTATTT
1 TTATTTTATTT
14825550 TTA-TTTATTT
1 TTATTTTATTT
14825560 ATTATTTTA-TT
1 -TTATTTTATTT
14825571 TTATTTTGATTT
1 TTATTTT-ATTT
14825583 TATATT
1 T-TATT
14825589 AAATTAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.41
11 9 0.26
12 7 0.21
13 4 0.12
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:14825566 original size:17 final size:17
Alignment explanation
Indices: 14825548--14825585 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14825538 CTTATTTTAT
14825548 TTTTA-TTTATTTATTA
1 TTTTATTTTATTTATTA
*
14825564 TTTTATTTTATTT-TGA
1 TTTTATTTTATTTATTA
14825580 TTTTAT
1 TTTTAT
14825586 ATTAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:14825569 original size:16 final size:15
Alignment explanation
Indices: 14825539--14825585 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
14825529 AGAAAAAATC
14825539 TTATTTT-ATTTTTAT
1 TTATTTTGA-TTTTAT
*
14825554 TTATTTATTATTTTATT
1 TTATTT-TGATTTTA-T
14825571 TTATTTTGATTTTAT
1 TTATTTTGATTTTAT
14825586 ATTAAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 7 0.25
16 13 0.46
17 8 0.29
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
TTATTTTGATTTTAT
Found at i:14832193 original size:18 final size:18
Alignment explanation
Indices: 14832149--14832195 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
14832139 AGTTTTTCAC
*
14832149 TGTGAACACTACTCCAAG
1 TGTGAACACTCCTCCAAG
*
14832167 TAT-AGACACTCCTCCAAG
1 TGTGA-ACACTCCTCCAAG
14832185 TGTGAACACTC
1 TGTGAACACTC
14832196 TTTTTGGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (18 bp):
TGTGAACACTCCTCCAAG
Found at i:14837592 original size:131 final size:132
Alignment explanation
Indices: 14837381--14837626 Score: 291
Period size: 131 Copynumber: 1.9 Consensus size: 132
14837371 GATACTTGGT
* * * ** *
14837381 AATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGG
1 AATTCGCGGAATCATGCCCTAACGAGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
* *
14837446 TCCCTTTATAATTTCACACGTGTCTT-CTAAAAATCCTTT-AAAACGAAGGCAATATTCGGTGTT
66 TCCCTTTAGAATTTCACACATGT-TTACTAAAAA-CCTTTCAAAACGAAGGCAATATTCGGTGTT
14837509 TAAC
129 TAAC
* * * *
14837513 AATTCG-GGAATCATGCCCTATCGAGCTGGGTTGTAATTTCTCGTTTGCTCAAAACAATCTAATA
1 AATTCGCGGAATCATGCCCTAACGAGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
* ** ** *
14837577 TTCCTTTAGGTTTTCATTCATGTTTATTAAAAACCTTTCAAAACGAAGGC
66 TCCCTTTAGAATTTCACACATGTTTACTAAAAACCTTTCAAAACGAAGGC
14837627 GATGTCAGAT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
130 7 0.07
131 81 0.86
132 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (132 bp):
AATTCGCGGAATCATGCCCTAACGAGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
TCCCTTTAGAATTTCACACATGTTTACTAAAAACCTTTCAAAACGAAGGCAATATTCGGTGTTTA
AC
Found at i:14843314 original size:132 final size:132
Alignment explanation
Indices: 14843077--14843388 Score: 534
Period size: 132 Copynumber: 2.4 Consensus size: 132
14843067 TGGGCCTATG
* * * * * * *
14843077 AGGCTGAAATTTTAGATATTGTTTCCCTGAAATTGAAGTGAAACAGATCGAAGACGGCGAATCTG
1 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTG
* * *
14843142 AGCTTCTTGAAGTTGCAGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
66 AGCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
14843207 GT
131 GT
14843209 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTG
1 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTG
14843274 AGCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
66 AGCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
14843339 GT
131 GT
14843341 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
1 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
14843389 TTAAGCCACC
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 170 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTG
AGCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
GT
Found at i:14843390 original size:87 final size:88
Alignment explanation
Indices: 14843283--14843476 Score: 372
Period size: 87 Copynumber: 2.2 Consensus size: 88
14843273 GAGCTTCCTA
14843283 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
1 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
14843348 AATTTC-AGATCTTGTTTCCCTG
66 AATTTCAAGATCTTGTTTCCCTG
14843370 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
1 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
14843435 AATTTCAAGATCTTGTTTCCCTG
66 AATTTCAAGATCTTGTTTCCCTG
*
14843458 AAGTTGCAGTGAAACAGAT
1 AAGTTGCAGTGAAGCAGAT
14843477 CGAAGACAGT
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 71 0.68
88 34 0.32
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (88 bp):
AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
AATTTCAAGATCTTGTTTCCCTG
Found at i:14843456 original size:132 final size:131
Alignment explanation
Indices: 14843188--14843600 Score: 365
Period size: 132 Copynumber: 3.1 Consensus size: 131
14843178 CCAACCTAGC
14843188 TCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGC
1 TCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGC
** ** * * * * * * * ** ** *
14843253 AGATCAAAGACGGCGAATCTGAGCTTCCTAAAGTTGCAGTGAAGCA-GATTTAAGCCACCA-ACC
66 AGATTTAAG-CCACCAACCT-AGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTCA--AGATC
* *
14843316 TAG-C
127 TTGTT
14843320 TCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGC
1 TCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGC
14843385 AGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAAGATCTTG
66 AGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAA-TTCAAGATCTTG
14843450 TT
130 TT
* * * ** * * * * * * *
14843452 TCCCTGAAGTTGCAGTGAAACAGATCGAAGACA-GTGA-ATCTGAGCTT-CCTAAAGTTGCAGTG
1 TCCCTAAAGTTGTAGTGGAGTAG-GCTAA-A-ATTTCAGATCT-TGTTTCCCTGAAGTTGCAGTG
* * *
14843514 AAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGATT-ATAGA
62 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-AAAATTCA-AGA
14843578 TCTTGTT
125 TCTTGTT
14843585 TCCCT-AAGATTGTAGT
1 TCCCTAAAG-TTGTAGT
14843601 AGGGCAGATC
Statistics
Matches: 236, Mismatches: 34, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
130 22 0.09
131 14 0.06
132 96 0.41
133 94 0.40
134 9 0.04
135 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGC
AGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTCAAGATCTTGT
T
Found at i:14843530 original size:220 final size:220
Alignment explanation
Indices: 14843149--14843589 Score: 778
Period size: 220 Copynumber: 2.0 Consensus size: 220
14843139 CTGAGCTTCT
*
14843149 TGAAGTTGCAGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
1 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
* *
14843214 AAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTGAGCTT
66 AAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCAAAGACAGCGAATCTGAGCTT
14843279 CCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
131 CCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
14843344 CT-AAAATT-TCAGATCTTGTTTCCC
196 CTGAAAATTAT-AGATCTTGTTTCCC
14843368 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
1 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
* *
14843433 AAAATTTCAAGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCGAAGACAGTGAATCTGAGCT
66 AAAATTTC-AGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCAAAGACAGCGAATCTGAGCT
* *
14843498 TCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAG
130 TCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
*
14843563 GCTGAAGATTATAGATCTTGTTTCCC
195 GCTGAAAATTATAGATCTTGTTTCCC
14843589 T
1 T
14843590 AAGATTGTAG
Statistics
Matches: 211, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
219 72 0.34
220 118 0.56
221 20 0.09
222 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (220 bp):
TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
AAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCAAAGACAGCGAATCTGAGCTT
CCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
CTGAAAATTATAGATCTTGTTTCCC
Found at i:14843756 original size:131 final size:130
Alignment explanation
Indices: 14843366--14844103 Score: 873
Period size: 131 Copynumber: 5.6 Consensus size: 130
14843356 ATCTTGTTTC
*
14843366 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAG-CA--ATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* **
14843431 CT-AAAATT-TCAAGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCGAAGAC-AGTGAATCT
63 CTGAAGATTGT--AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGA-TGAATCT
14843493 -GAGCTT
125 AG-GCTT
* *
14843499 CCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAG-CA--ATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * *
14843564 CTGAAGATTATAGATCTTGTTTCCCT-AAGATTGTAGT-AGGGCAGATCGAAGACGGTGAATCTA
63 CTGAAGATTGTAGATCTTGTTTCCCTGAAG-TTGCAGTGA-GGCAGATCGAAGACGATGAATCTA
14843627 GGCTT
126 GGCTT
* *
14843632 CCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCAA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
* * ** * * * *
14843697 GAGGATTGTAGATCTCGCCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
65 GAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGATGAATCTAGGCT
14843762 T
130 T
* * * *
14843763 CCTGAAGATGCAGCGAAGCAGATTTAAGC-ATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTA
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCAATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
* * * **
14843827 AAGATTATAGATCTTGCTTCCCTG-AGATTGCAGTGGGGCAGATCGAAGACGGCGAATCTAGGCT
66 AAGATTGTAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGACGATGAATCTAGGCT
14843891 T
130 T
* *
14843892 CCT-AATGTTGCAGTAAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGC
1 CCTGAA-GTTGCAGTGAAGCAGATTTAAGCAA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
* * * * * * *
14843956 TGAGGATTGTAGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGC
64 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGATGAATCTAGGC
14844021 TT
129 TT
* * * * *
14844023 CCTGAAGATGCAGCGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAGGTTGTAGTGAATTAGGCT
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCAA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
*
14844088 GAAGATTGTAGGTCTT
65 GAAGATTGTAGATCTT
14844104 ATCTTCTCGA
Statistics
Matches: 522, Mismatches: 68, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
128 4 0.01
129 105 0.20
130 3 0.01
131 255 0.49
132 14 0.03
133 134 0.26
134 6 0.01
135 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (130 bp):
CCTGAAGTTGCAGTGAAGCAGATTTAAGCAATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
AAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGATGAATCTAGGCTT
Found at i:14843886 original size:260 final size:260
Alignment explanation
Indices: 14843366--14844103 Score: 1072
Period size: 260 Copynumber: 2.8 Consensus size: 260
14843356 ATCTTGTTTC
* * *
14843366 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCA-ACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
1 CCTGATGTTGCAGTGAAGCAGATTTAAG-CA--AGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAG
** * * ** * * *
14843430 GCT-AAAATT-TCAAGATCTTGTTTCCCTGAAGTTGCAGTGAAACAGATCGAAGAC-AGTGAATC
63 GCTGAGGATTGT--AGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGA-TAAATC
* * *
14843492 -TGAGCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAGT
125 TTG-GCTTCCTGAAGATGCAGCGAAGCAGATTTAAG----CATCCTAGCTCCCTAAGGTTGTAGT
* * *
14843556 GGAGTAGGCTGAAGATTATAGATCTTGTTTCCCTAAGATTGTAGTAGGGCAGATCGAAGACGGTG
185 GGAGTAGGCTGAAGATTATAGATCTTGCTTCCCTAAGATTGCAGTAGGGCAGATCGAAGACGGCG
14843621 AATCTAGGCTT
250 AATCTAGGCTT
14843632 CCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
1 CCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
*
14843697 GAGGATTGTAGATCTCGCCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
66 GAGGATTGTAGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
*
14843762 TCCTGAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTA
131 TCCTGAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTG
* *
14843827 AAGATTATAGATCTTGCTTCCCTGAGATTGCAGTGGGGCAGATCGAAGACGGCGAATCTAGGCTT
196 AAGATTATAGATCTTGCTTCCCTAAGATTGCAGTAGGGCAGATCGAAGACGGCGAATCTAGGCTT
* *
14843892 CCTAATGTTGCAGTAAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
1 CCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
14843957 GAGGATTGTAGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
66 GAGGATTGTAGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
* *
14844022 TCCTGAAGATGCAGCGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAGGTTGTAGTGAATTAGGC
131 TCCTGAAGATGCAGCGAAGCAGATTTAAGC-A-TCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGC
* *
14844087 TGAAGATTGTAGGTCTT
194 TGAAGATTATAGATCTT
14844104 ATCTTCTCGA
Statistics
Matches: 435, Mismatches: 30, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
260 252 0.58
261 1 0.00
262 44 0.10
263 1 0.00
264 100 0.23
265 9 0.02
266 28 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (260 bp):
CCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT
GAGGATTGTAGATCTCGTCTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCT
TCCTGAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTG
AAGATTATAGATCTTGCTTCCCTAAGATTGCAGTAGGGCAGATCGAAGACGGCGAATCTAGGCTT
Found at i:14844346 original size:44 final size:44
Alignment explanation
Indices: 14844283--14845211 Score: 1183
Period size: 44 Copynumber: 21.1 Consensus size: 44
14844273 CAAGACCAGA
* *
14844283 CAGATTTGGCGTCTCTGTAGTAGCGGAGAGCAAATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* *
14844327 CAGATTTGGCATCTCTGTAGTGGCGGAGAGCAAATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * * *
14844371 CAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAAATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * *
14844415 CAGATTTGGCGTTTCTGTATTGGCGGAGAGCAGATC-AAAATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
14844458 CAGATTTGGCGTCTCTGT-GTTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
* * * * *
14844502 CAGATTTGGCGTTTCTGTATTGTCAGAGAGCAGATCGAAAATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
*
14844546 CAGATTTGGCGTCTCTGT-GTTGGCGGAGAGCAAATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
* * *
14844590 CAGATTTGGCGTCTCTGTATTGTCGGAGAGCAGATCGAAAATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* *
14844634 CAGATTTGGCGTCTCTAT-GTTGGCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
14844678 CAGATTTGGCGTCTCTGT-GTTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
* *
14844722 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
*
14844766 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * *
14844810 CAGATTTGGCATCTCTGT-GTTGACAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
* * * *
14844854 TAGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCTAAGATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * * *
14844898 CAAATTTGTCATCTCTGTAGTAGCGGAGAGCAGATCGAAGAT-G
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
*
14844941 ACAGATTTGGCGTCTCTGT-GTTGGTGGAGAGCAGATCGAAGATAG
1 -CAGATTTGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAG
* * *
14844986 CAGATTTAGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * * *
14845030 CAGATTTGGCATCTTTGTAGTGGCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* *
14845074 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAATATAA
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * * * * * *
14845118 TAGATTTGGTGTCTCTGTATTGTCAGAGGGCAGATCGAAAAT-G
1 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
* * * * * * *
14845161 ACAGATTTGGCGTATCTATATTGGCAGAGAGCAGATTGAAAATAA
1 -CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
14845206 CAGATT
1 CAGATT
14845212 GGTGTTCCTA
Statistics
Matches: 780, Mismatches: 90, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
43 41 0.05
44 737 0.94
45 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAG
Found at i:14857159 original size:18 final size:19
Alignment explanation
Indices: 14857138--14857180 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
14857128 TAAGTTTGCA
14857138 AGCTCAATCAAAAG-TACG
1 AGCTCAATCAAAAGATACG
14857156 AGCTC-ATCAAAAGATACG
1 AGCTCAATCAAAAGATACG
14857174 AGCTCAA
1 AGCTCAA
14857181 CTCATGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (19 bp):
AGCTCAATCAAAAGATACG
Found at i:14870559 original size:46 final size:46
Alignment explanation
Indices: 14870488--14870765 Score: 342
Period size: 46 Copynumber: 6.0 Consensus size: 46
14870478 GTGTGTTCTC
** *
14870488 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* ** * *
14870534 TGATATGAAAGGTGTAAGACTATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
14870580 TGATATGAAATGAATAAGAACATGTTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * * *
14870626 TGATGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAGCG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
14870672 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
14870718 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
14870764 TG
1 TG
14870766 TCAAAGATAA
Statistics
Matches: 203, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:14871067 original size:16 final size:17
Alignment explanation
Indices: 14871046--14871078 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14871036 ATGATGGAGC
14871046 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
14871062 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
14871079 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14885060 original size:22 final size:22
Alignment explanation
Indices: 14885035--14885080 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14885025 CTTAAATCGC
14885035 TTAAATTACTAAGTGGCTCAAT
1 TTAAATTACTAAGTGGCTCAAT
14885057 TTAAATTACTAAGTGGCTCAAT
1 TTAAATTACTAAGTGGCTCAAT
14885079 TT
1 TT
14885081 TATTTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (22 bp):
TTAAATTACTAAGTGGCTCAAT
Found at i:14886841 original size:20 final size:20
Alignment explanation
Indices: 14886804--14886841 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14886794 TGATGGGGAG
*
14886804 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
14886824 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
14886842 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:14888860 original size:46 final size:46
Alignment explanation
Indices: 14888793--14889139 Score: 451
Period size: 46 Copynumber: 7.7 Consensus size: 46
14888783 TGGCAACCTG
*
14888793 TGTGTAAGACCACGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
14888839 TGTGTAAGACCATGGTTGAAAGAGACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
14888877 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
14888923 TGTGTAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
14888969 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** *
14889015 TGTGTAAGACCATGGTTGAAAGATAACATGGCAATGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * * *
14889061 AGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
14889107 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
14889140 TCATGTCAAA
Statistics
Matches: 268, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
38 35 0.13
41 2 0.01
43 2 0.01
45 1 0.00
46 228 0.85
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:14888879 original size:84 final size:84
Alignment explanation
Indices: 14888744--14889139 Score: 497
Period size: 92 Copynumber: 4.5 Consensus size: 84
14888734 AGTGTGCTCT
*
14888744 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCACGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
14888809 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
14888828 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
14888893 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
14888912 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
14888977 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * ** *
14889004 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATAACATGGCAATGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---TG--TAAG
*
14889069 ACTATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
14889096 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
14889140 TCATGTCAAA
Statistics
Matches: 277, Mismatches: 19, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
84 127 0.46
85 1 0.00
87 4 0.01
89 1 0.00
90 1 0.00
91 2 0.01
92 141 0.51
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:14892573 original size:38 final size:39
Alignment explanation
Indices: 14892531--14892615 Score: 98
Period size: 47 Copynumber: 2.0 Consensus size: 39
14892521 CAATGTGATG
14892531 AATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGA
1 AATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCC------A
14892576 TGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCC
1 --AATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCC
14892616 GATGTGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (39 bp):
AATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCA
Found at i:14892662 original size:49 final size:49
Alignment explanation
Indices: 14892496--14892829 Score: 559
Period size: 49 Copynumber: 6.9 Consensus size: 49
14892486 GTAGGAAATG
* *
14892496 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
14892543 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
14892590 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
14892639 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
14892688 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
14892737 TATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
14892786 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
14892830 CATATGTGTG
Statistics
Matches: 275, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 91 0.33
49 184 0.67
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:14892877 original size:48 final size:48
Alignment explanation
Indices: 14892821--14893020 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
14892811 CGATGTGATG
* *
14892821 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCAAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
14892869 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
14892917 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
14892965 AATGTGAAATATATGTGTGATGTGTATGTATGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
14893013 AATGTGAA
1 AATGTGAA
14893021 TGTTGTAACA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:14902660 original size:6 final size:6
Alignment explanation
Indices: 14902649--14902683 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
14902639 TTTTAACTAA
14902649 TAATTG TAATTG TAATTG TAATTG TAATTG TAATT
1 TAATTG TAATTG TAATTG TAATTG TAATTG TAATT
14902684 ATCACAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
TAATTG
Found at i:14902841 original size:44 final size:44
Alignment explanation
Indices: 14902778--14902863 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
14902768 ATAATTATAA
* * *
14902778 ATTAAATTACAATTGTTTTTAAATATGTAATTATCACAACTTCT
1 ATTAAATTACAATTATTTTTAAATATATAATTATAACAACTTCT
* *
14902822 ATTAAATTACAATTATTTTTAAATGTATACTTATAACAACTT
1 ATTAAATTACAATTATTTTTAAATATATAATTATAACAACTT
14902864 TTGTTTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTAAATTACAATTATTTTTAAATATATAATTATAACAACTTCT
Found at i:14902932 original size:6 final size:6
Alignment explanation
Indices: 14902921--14902947 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14902911 GATTGAAAAT
14902921 ATTATA ATTATA ATTATA ATTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATT
14902948 GATGTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:14903116 original size:17 final size:16
Alignment explanation
Indices: 14903091--14903122 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14903081 CAATTTCTAA
14903091 TAAATTATAATTATTT
1 TAAATTATAATTATTT
14903107 TAAATGTATAATTATT
1 TAAAT-TATAATTATT
14903123 GCAACTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TAAATTATAATTATTT
Found at i:14906248 original size:37 final size:37
Alignment explanation
Indices: 14906198--14906278 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
14906188 AAAAATTAAG
14906198 GTTTTACCTTGATTAGGGATTTACAACTGTTATTTTT
1 GTTTTACCTTGATTAGGGATTTACAACTGTTATTTTT
14906235 GTTTTACCTTGATTAGGGATTTACAACTGTTATTTTT
1 GTTTTACCTTGATTAGGGATTTACAACTGTTATTTTT
14906272 GTTTTAC
1 GTTTTAC
14906279 TTCTCTAGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (37 bp):
GTTTTACCTTGATTAGGGATTTACAACTGTTATTTTT
Found at i:14908538 original size:21 final size:21
Alignment explanation
Indices: 14908514--14908553 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
14908504 ACCTTTTCTA
14908514 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
14908535 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
14908554 CGTCGTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:14913399 original size:13 final size:13
Alignment explanation
Indices: 14913381--14913406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14913371 AGACATCGCC
14913381 GCATTAACCATCT
1 GCATTAACCATCT
14913394 GCATTAACCATCT
1 GCATTAACCATCT
14913407 CAGCTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
GCATTAACCATCT
Found at i:14914485 original size:32 final size:32
Alignment explanation
Indices: 14914449--14914513 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14914439 GCATGGAAGC
14914449 AAAAGTGACACACAGCATAATGACGCGAACTA
1 AAAAGTGACACACAGCATAATGACGCGAACTA
* * *
14914481 AAAAGTGACGCACCGCATAATGACGTGAACTA
1 AAAAGTGACACACAGCATAATGACGCGAACTA
14914513 A
1 A
14914514 CCTCTTAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.14
Consensus pattern (32 bp):
AAAAGTGACACACAGCATAATGACGCGAACTA
Found at i:14915151 original size:30 final size:30
Alignment explanation
Indices: 14915115--14915174 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
14915105 GTTTTGACGC
** *
14915115 TGGAGGAGGTGGCGGTGGTGGTGGTGGTGG
1 TGGAGGAGGTGGCCATAGTGGTGGTGGTGG
*
14915145 TGGAGGAGGTTGCCATAGTGGTGGTGGTGG
1 TGGAGGAGGTGGCCATAGTGGTGGTGGTGG
14915175 CTGTGGTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.05, G:0.60, T:0.25
Consensus pattern (30 bp):
TGGAGGAGGTGGCCATAGTGGTGGTGGTGG
Found at i:14919127 original size:21 final size:21
Alignment explanation
Indices: 14919101--14919141 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14919091 ATCTGCTCAA
*
14919101 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
14919122 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
14919142 TCGCTCGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:14930513 original size:43 final size:43
Alignment explanation
Indices: 14930449--14930595 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
14930439 ATCGAGATGT
*
14930449 GATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTATTGC
1 GATTACATGTAAGACCATGTGTGGGACAGTGGCATTGTATTGC
* * *
14930492 GATTACGTGTAAGACCATGTGTGGGACA-TCGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTGTGGGACAGT-GGCATTG-TATTGC
* * * * *
14930535 GACTT-CGTGTAAGACCCTATATGGGACAGTGGCATTG-ATATGT
1 GA-TTACATGTAAGACCATGTGTGGGACAGTGGCATTGTAT-TGC
*
14930578 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
14930596 ACCGAGTATC
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 74 0.88
44 6 0.07
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTGTGGGACAGTGGCATTGTATTGC
Found at i:14939193 original size:18 final size:18
Alignment explanation
Indices: 14939164--14939201 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
14939154 AAGAGAATTG
14939164 AAATTGAGAAATT-AAAT
1 AAATTGAGAAATTGAAAT
14939181 AAATTGCAGAAATTGAAAT
1 AAATTG-AGAAATTGAAAT
14939200 AA
1 AA
14939202 GGAGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (18 bp):
AAATTGAGAAATTGAAAT
Found at i:14939268 original size:35 final size:35
Alignment explanation
Indices: 14939222--14939290 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
14939212 ATAGAGTTGG
14939222 GAAAAGAGAAAGTTTCTTATGTGGCGAGATTCCAA
1 GAAAAGAGAAAGTTTCTTATGTGGCGAGATTCCAA
14939257 GAAAAGAGAAAGTTTCTTATGTGGCGAGATTCCA
1 GAAAAGAGAAAGTTTCTTATGTGGCGAGATTCCA
14939291 GCCTCCGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (35 bp):
GAAAAGAGAAAGTTTCTTATGTGGCGAGATTCCAA
Found at i:14939962 original size:10 final size:10
Alignment explanation
Indices: 14939947--14939978 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14939937 TAAATACATT
14939947 TAATTAAAGA
1 TAATTAAAGA
14939957 TAATTAAAGA
1 TAATTAAAGA
14939967 TAATTAAA-A
1 TAATTAAAGA
14939976 TAA
1 TAA
14939979 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:14939990 original size:19 final size:18
Alignment explanation
Indices: 14939966--14940009 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
14939956 ATAATTAAAG
14939966 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
14939986 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
14940003 ATAATTA
1 ATAATTA
14940010 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:14940005 original size:28 final size:27
Alignment explanation
Indices: 14939974--14940038 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
14939964 AGATAATTAA
14939974 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
14940002 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
14940030 AATATAAAT
1 AATA-AAAT
14940039 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:14940025 original size:16 final size:16
Alignment explanation
Indices: 14940004--14940034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14939994 ATAATCCTAA
*
14940004 TAATTATCTTAATATT
1 TAATTATCCTAATATT
14940020 TAATTATCCTAATAT
1 TAATTATCCTAATAT
14940035 AAATAAAATG
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:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:14941579 original size:5 final size:5
Alignment explanation
Indices: 14941566--14941650 Score: 61
Period size: 5 Copynumber: 17.0 Consensus size: 5
14941556 AAATTTTATT
* * * * *
14941566 AATAT AATAA AAT-A ATTAAA AATAA AACAA ATTGA AATAA AATAA AATAAGA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AAT-A-A
14941618 AATAA AAT-A AA-AA AATAA AA-AA AATAA CAATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA -AATAA
14941651 TAACATTAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
4 13 0.21
5 36 0.57
6 10 0.16
7 4 0.06
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:14941607 original size:20 final size:18
Alignment explanation
Indices: 14941584--14941644 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
14941574 AAAATAATTA
14941584 AAAATAAAACAAATTGAAAT
1 AAAATAAAA-AAA-TGAAAT
*
14941604 AAAATAAAATAA-GAAAT
1 AAAATAAAAAAATGAAAT
*
14941621 AAAATAAAAAAAT-AAAA
1 AAAATAAAAAAATGAAAT
14941638 AAAATAA
1 AAAATAA
14941645 CAATAATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 26 0.70
19 2 0.05
20 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAAATGAAAT
Found at i:14941622 original size:12 final size:13
Alignment explanation
Indices: 14941604--14941641 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
14941594 AAATTGAAAT
14941604 AAAATAAAAT-AA
1 AAAATAAAATAAA
*
14941616 GAAATAAAATAAA
1 AAAATAAAATAAA
14941629 AAAATAAAA-AAA
1 AAAATAAAATAAA
14941641 A
1 A
14941642 TAACAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:14941653 original size:43 final size:46
Alignment explanation
Indices: 14941571--14941668 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 46
14941561 TTATTAATAT
*
14941571 AATAAAATAATTAAAAATAAAACAAATTGAAATAAAATAAAATAAGA
1 AATAAAATAA-TAAAAATAAAACAAAATGAAATAAAATAAAATAAGA
* * *
14941618 AATAAAATAA-AAAAATAAAA-AAAAT-AACA-ATAATAACATTAGA
1 AATAAAATAATAAAAATAAAACAAAATGAA-ATAAAATAAAATAAGA
14941661 AATAAAAT
1 AATAAAAT
14941669 TTAAAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 21 0.46
44 5 0.11
45 10 0.22
47 10 0.22
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (46 bp):
AATAAAATAATAAAAATAAAACAAAATGAAATAAAATAAAATAAGA
Found at i:14947279 original size:17 final size:19
Alignment explanation
Indices: 14947259--14947296 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
14947249 AAGTGAATTG
14947259 AAATTGC-GAAATT-AAAT
1 AAATTGCAGAAATTGAAAT
14947276 AAATTGCAGAAATTGAAAT
1 AAATTGCAGAAATTGAAAT
14947295 AA
1 AA
14947297 GGAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTGCAGAAATTGAAAT
Found at i:14948023 original size:10 final size:10
Alignment explanation
Indices: 14948008--14948039 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14947998 TAAATACATT
14948008 TAATTAAAGA
1 TAATTAAAGA
14948018 TAATTAAAGA
1 TAATTAAAGA
14948028 TAATTAAA-A
1 TAATTAAAGA
14948037 TAA
1 TAA
14948040 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:14948051 original size:19 final size:18
Alignment explanation
Indices: 14948027--14948070 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
14948017 ATAATTAAAG
14948027 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
14948047 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
14948064 ATAATTA
1 ATAATTA
14948071 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:14948066 original size:28 final size:27
Alignment explanation
Indices: 14948035--14948099 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
14948025 AGATAATTAA
14948035 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
14948063 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
14948091 AATATAAAT
1 AATA-AAAT
14948100 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Done.