Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 73 of 310
Found at i:23292607 original size:21 final size:21
Alignment explanation
Indices: 23292540--23292608 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
23292530 GCACATGGCT
*
23292540 GTGTGGCTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
* * * * *
23292561 GCGTGA-AGAGGGATACACGGCT
1 GTGTGACTGA-GG-CACACGCCC
23292583 GTGTGACTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
23292604 GTGTG
1 GTGTG
23292609 GACCCGGAAC
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.19, C:0.26, G:0.39, T:0.16
Consensus pattern (21 bp):
GTGTGACTGAGGCACACGCCC
Found at i:23294099 original size:46 final size:46
Alignment explanation
Indices: 23294032--23294201 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
23294022 TGTAACCCAC
* *
23294032 CCATAAGAGAACTCGGACTCAACTCAATGAGCTTGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGACGTTCGCAT
* * *
23294078 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGA---C--GTTCGCAT
* * *
23294128 -C-TCA-CGAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGACGTTCGCAT
23294171 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
23294202 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.56
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGACGTTCGCAT
Found at i:23294164 original size:93 final size:93
Alignment explanation
Indices: 23294040--23294211 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
23294030 ACCCATAAGA
* * *
23294040 GAACTCGGACTCAACTCAATGAGCTTGGACGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23294105 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
23294133 GAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-AGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
23294197 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
23294212 CAAATATCCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:23303115 original size:50 final size:50
Alignment explanation
Indices: 23303019--23303116 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
23303009 ACCTTATTCT
* * * *
23303019 AATCAATGTCAAATAGAATAAGAAAAGTTCTATATGAACTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
* ** * *
23303069 AATCAATATCAAATATAAGAAGAGTAGTTCTATACGGATTCCACTTGT
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGT
23303117 GCAGCCTGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
Found at i:23304690 original size:23 final size:23
Alignment explanation
Indices: 23304664--23304732 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
23304654 ATATCTTCAA
*
23304664 ATTAAATTTTACAAATAATTTAT
1 ATTAAATTTTAAAAATAATTTAT
* **
23304687 ATTAATTTTTTTAAATAATTTTTAT
1 ATTAAATTTTAAAAATAA--TTTAT
23304712 ATT-AATTCTTAAAAAT-ATTTA
1 ATTAAATT-TTAAAAATAATTTA
23304733 AAATCTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
22 4 0.11
23 15 0.41
24 4 0.11
25 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTAAATTTTAAAAATAATTTAT
Found at i:23305442 original size:15 final size:15
Alignment explanation
Indices: 23305424--23305453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23305414 GCCATTTTAC
*
23305424 AATAACCTTATTTGT
1 AATAACCTCATTTGT
23305439 AATAACCTCATTTGT
1 AATAACCTCATTTGT
23305454 CTGTCAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
AATAACCTCATTTGT
Found at i:23305784 original size:32 final size:32
Alignment explanation
Indices: 23305740--23305800 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
23305730 TAATCAATAC
* *
23305740 GAGTTATCAAATTAAATTAATTAATTTATCAT
1 GAGTTATCAAATTAAAGTAATCAATTTATCAT
*
23305772 GAGTTA-CTAAATTCAAGTAATCAATTTAT
1 GAGTTATC-AAATTAAAGTAATCAATTTAT
23305801 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (32 bp):
GAGTTATCAAATTAAAGTAATCAATTTATCAT
Found at i:23309197 original size:21 final size:22
Alignment explanation
Indices: 23309155--23309199 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
23309145 ACGAGCTAGA
*
23309155 TAGTGTTCTAACTTTTAATTTT
1 TAGTGTGCTAACTTTTAATTTT
*
23309177 TAGTGTGCTAA-TTTTATTTTT
1 TAGTGTGCTAACTTTTAATTTT
23309198 TA
1 TA
23309200 TTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (22 bp):
TAGTGTGCTAACTTTTAATTTT
Found at i:23311853 original size:26 final size:26
Alignment explanation
Indices: 23311822--23311890 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
23311812 TTCTCGTACC
23311822 ACGAATTGCTTCAATTGTGGGCTCGA
1 ACGAATTGCTTCAATTGTGGGCTCGA
23311848 ACGAATTGCTTCAATTGTGGGCTCGA
1 ACGAATTGCTTCAATTGTGGGCTCGA
*
23311874 ACAAATTGCTTCAATTG
1 ACGAATTGCTTCAATTG
23311891 AGTTAAAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (26 bp):
ACGAATTGCTTCAATTGTGGGCTCGA
Found at i:23313579 original size:28 final size:28
Alignment explanation
Indices: 23313507--23313608 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 28
23313497 TGGCCCCTTT
* *
23313507 AGGCCCAATCTCATTCATAGGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * * * *
23313535 ATGCCTAA-CACATTCATATAGCCCTTT
1 AGGCCCAATCACATTCATATGGCCCATC
*
23313562 AGGCCCAATCACTTTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
23313590 AGGCCCAATCACTTTCATA
1 AGGCCCAATCACATTCATA
23313609 GTCATGCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 20 0.33
28 40 0.67
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:23313579 original size:55 final size:56
Alignment explanation
Indices: 23313501--23313608 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 56
23313491 TTCATTTGGC
* * *
23313501 CCCTTTAGGCCCAATCTCATTCATAGGGCCCATCATGCCTAA-CACATTCATATAG
1 CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATATAG
* * *
23313556 CCCTTTAGGCCCAATCACTTTCATATGGCCCATCAGGCCCAATCACTTTCATA
1 CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATA
23313609 GTCATGCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 37 0.80
56 9 0.20
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (56 bp):
CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATATAG
Found at i:23317466 original size:27 final size:27
Alignment explanation
Indices: 23317418--23317576 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
23317408 GCGAGGCTGC
* *
23317418 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
23317445 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
23317471 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23317498 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
23317525 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23317552 CAGATAATTGTGGCATAGTCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
23317577 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.08
27 96 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:23317577 original size:54 final size:54
Alignment explanation
Indices: 23317436--23317579 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
23317426 GTGACGAAGT
* * *
23317436 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
*
23317490 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
* *
23317544 CACTAGATCAGATAATTGTGGCATAGTCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
23317580 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
Found at i:23317711 original size:26 final size:27
Alignment explanation
Indices: 23317682--23317755 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 27
23317672 AAATTAACCC
* *
23317682 TAGGGGTATAACGGTAATTTTGC-ACA
1 TAGGGGTATAACAGTAATTTTCCAACA
23317708 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCA-ACA
* *
23317736 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
23317756 AGCTGCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTTCCAACA
Found at i:23319230 original size:26 final size:26
Alignment explanation
Indices: 23319199--23319306 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
23319189 TGAAATGCCC
23319199 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
23319225 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
23319251 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
23319277 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
23319303 ATCA
1 ATCA
23319307 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:23324592 original size:27 final size:27
Alignment explanation
Indices: 23324562--23324648 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
23324552 GTGACGAAGT
23324562 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
23324589 CACCAGA-ACAGGTATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
23324616 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
23324643 CACCAG
1 CACCAG
23324649 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 7 0.13
27 45 0.83
28 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:23324797 original size:26 final size:27
Alignment explanation
Indices: 23324753--23324827 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
23324743 AAAATTAACC
**
23324753 CTAGGGGTATAACGGTAATTTTACAT-
1 CTAGGGGTATAATAGTAATTTTACATA
* * *
23324779 CTAGGGGTATAATATTAATTATCCATA
1 CTAGGGGTATAATAGTAATTTTACATA
*
23324806 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATAATAGTAATTT
23324828 AGCTACTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.54
27 1 0.03
28 17 0.44
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
CTAGGGGTATAATAGTAATTTTACATA
Found at i:23326286 original size:26 final size:26
Alignment explanation
Indices: 23326255--23326362 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
23326245 TGAAATGCCC
23326255 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
23326281 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
23326307 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
23326333 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
23326359 ATCA
1 ATCA
23326363 ATTTGTACCT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:23328434 original size:18 final size:18
Alignment explanation
Indices: 23328411--23328447 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23328401 TTAATAGACA
23328411 TTGGTGGATCCACAGTTG
1 TTGGTGGATCCACAGTTG
23328429 TTGGTGGATCCACAGTTG
1 TTGGTGGATCCACAGTTG
23328447 T
1 T
23328448 CAAGCAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (18 bp):
TTGGTGGATCCACAGTTG
Found at i:23329001 original size:28 final size:28
Alignment explanation
Indices: 23328921--23329033 Score: 97
Period size: 28 Copynumber: 4.0 Consensus size: 28
23328911 GATCCATACT
* * *
23328921 TATTCATTTGGCCCCTTTAGGCCCAAT-T
1 TATTCATATGG-CCCATTAGGCCCAATCA
* *
23328949 TCATTCATATGGCCCA-TCGACCCCAATCA
1 T-ATTCATATGGCCCATTAG-GCCCAATCA
23328978 TATTCATATGGCCCATTAGGCCCAATCA
1 TATTCATATGGCCCATTAGGCCCAATCA
* * *
23329006 CT-TTCATATAGCCCGTCAGGCCCAATCA
1 -TATTCATATGGCCCATTAGGCCCAATCA
23329034 CTTTTATTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.03
28 55 0.79
29 13 0.19
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (28 bp):
TATTCATATGGCCCATTAGGCCCAATCA
Found at i:23329229 original size:16 final size:16
Alignment explanation
Indices: 23329208--23329243 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23329198 GTAGCCAAAC
* *
23329208 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTCCAGCA
23329224 TTTCGGCTTTCCAGCA
1 TTTCGGCTTTCCAGCA
23329240 TTTC
1 TTTC
23329244 AGCATTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.28, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTCGGCTTTCCAGCA
Found at i:23343827 original size:74 final size:74
Alignment explanation
Indices: 23343706--23343849 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
23343696 AGACATGCAT
23343706 ATTCGGCCAAGGGGGAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTAAC
1 ATTCGGCCAAGGGGGAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTAAC
23343771 TTTAAGAAA
66 TTTAAGAAA
* *
23343780 ATTCGGTCAAGGGGGAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTGAC
1 ATTCGGCCAAGGGGGAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTAAC
23343845 TTTAA
66 TTTAA
23343850 TGTCTAATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (74 bp):
ATTCGGCCAAGGGGGAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTAAC
TTTAAGAAA
Found at i:23344402 original size:23 final size:23
Alignment explanation
Indices: 23344376--23344420 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23344366 CGAAGGCATT
*
23344376 TGTGCGAGATACTAATTCCGGGC
1 TGTGCGAGATACTAAATCCGGGC
*
23344399 TGTGCGAGTTACTAAATCCGGG
1 TGTGCGAGATACTAAATCCGGG
23344421 AGTTACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (23 bp):
TGTGCGAGATACTAAATCCGGGC
Found at i:23344425 original size:16 final size:16
Alignment explanation
Indices: 23344404--23344436 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23344394 CGGGCTGTGC
23344404 GAGTTACTAAATCCGG
1 GAGTTACTAAATCCGG
23344420 GAGTTACTAAATCCGG
1 GAGTTACTAAATCCGG
23344436 G
1 G
23344437 TTAAGTCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (16 bp):
GAGTTACTAAATCCGG
Found at i:23344468 original size:40 final size:40
Alignment explanation
Indices: 23344420--23344536 Score: 200
Period size: 40 Copynumber: 2.9 Consensus size: 40
23344410 CTAAATCCGG
23344420 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
23344460 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
* *
23344500 GAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 GAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTG
23344537 AACGAGGAGC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 72 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
Found at i:23344554 original size:80 final size:79
Alignment explanation
Indices: 23344420--23344569 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
23344410 CTAAATCCGG
* ** * *
23344420 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCC
23344485 CGAAGGCATTTGTGC
65 CGAAGGCATTTGTGC
* * *
23344500 GAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
1 GAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
23344563 CCGAAGG
64 CCGAAGG
23344570 TACGTGATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 15 0.25
80 43 0.72
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCC
GAAGGCATTTGTGC
Found at i:23345223 original size:40 final size:40
Alignment explanation
Indices: 23344985--23345209 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
23344975 TTGAATGATG
* * * *
23344985 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23345025 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
23345065 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23345104 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23345144 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23345185 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23345210 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23345231 original size:119 final size:119
Alignment explanation
Indices: 23344985--23345242 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
23344975 TTGAATGATG
* *
23344985 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
23345050 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
23345104 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
23345167 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
23345224 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23345243 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:23348860 original size:282 final size:282
Alignment explanation
Indices: 23348356--23348915 Score: 1048
Period size: 282 Copynumber: 2.0 Consensus size: 282
23348346 TTGGATGGGT
* **
23348356 TGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
1 TGCCAGCGGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
23348421 GCGTATGTACTTGATGACGAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGCTTGTGAATA
66 GCGTATGTACTTGATGACGAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGCTTGTGAATA
23348486 CCCGGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTATTCGGGAGGTAGAGTTTGGTATTG
131 CCCGGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTATTCGGGAGGTAGAGTTTGGTATTG
23348551 AGCTTGTACCTGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAA
196 AGCTTGTACCTGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAA
23348616 GAGTTGAAAGCTCAGTTGGGGA
261 GAGTTGAAAGCTCAGTTGGGGA
23348638 TGCCAGCGGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
1 TGCCAGCGGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
*
23348703 GCGTATGTACTTGATGACGAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGTTTGTGAATA
66 GCGTATGTACTTGATGACGAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGCTTGTGAATA
* *
23348768 CCCGGATGTTTTTCCTGAAGAATTACCGGGTTTACCACCTGTTCGGGAGGTAGAGTTTGGTATTG
131 CCCGGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTATTCGGGAGGTAGAGTTTGGTATTG
* *
23348833 AGCTTGTACCTGGGACTATGCCGATTTCGATAGCTCCGTATCGTATGGCACCAACCGAGTTAAAA
196 AGCTTGTACCTGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAA
23348898 GAGTTGAAAGCTCAGTTG
261 GAGTTGAAAGCTCAGTTG
23348916 CAAGAATTGA
Statistics
Matches: 270, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
282 270 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (282 bp):
TGCCAGCGGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
GCGTATGTACTTGATGACGAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGCTTGTGAATA
CCCGGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTATTCGGGAGGTAGAGTTTGGTATTG
AGCTTGTACCTGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAA
GAGTTGAAAGCTCAGTTGGGGA
Found at i:23349796 original size:72 final size:72
Alignment explanation
Indices: 23349679--23349822 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
23349669 GAAAAGTTTC
* *
23349679 GATCAACTAAAAACTCATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCAGGTAAAGAGTT
1 GATCAACTAAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCAACCCGAATCAGGCAAAGAGTT
23349744 TGTCATT
66 TGTCATT
* *
23349751 GATCAACTAAAAACTTATTTGACTGAAGCTCCAATTTTAGTGCAACCCGAATTAGGCAAAGAGTT
1 GATCAACTAAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCAACCCGAATCAGGCAAAGAGTT
23349816 TGTCATT
66 TGTCATT
23349823 TATAGTGACG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
GATCAACTAAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCAACCCGAATCAGGCAAAGAGTT
TGTCATT
Found at i:23351714 original size:39 final size:40
Alignment explanation
Indices: 23351597--23351819 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
23351587 GCTCCTCGTT
* *
23351597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
** * *
23351637 CAAATGCCTTCGGGACTTAAACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
23351677 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
23351716 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
23351755 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
23351796 C-AA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23351820 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 62 0.38
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:23351774 original size:79 final size:80
Alignment explanation
Indices: 23351597--23351780 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 80
23351587 GCTCCTCGTT
* *
23351597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAAACCG
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAAACCG
*
23351661 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* **
23351677 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGACTTAAACCG
*
23351739 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
*
23351755 CAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGA-CTTAGCCCGGA
23351781 TATTGTCACT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
78 36 0.39
79 44 0.48
80 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAAACCGG
AATTAGTAACTCGCA
Found at i:23351803 original size:78 final size:78
Alignment explanation
Indices: 23351597--23351819 Score: 224
Period size: 79 Copynumber: 2.8 Consensus size: 78
23351587 GCTCCTCGTT
* * * **
23351597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAAACC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTAGCACAAATGCCTTCGGG-CTTAGCCC
*
23351660 GGATTTAGTAACTCGCA
62 GGAATTAGTAACTCGCA
*
23351677 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGCTTAGCCCGGAA
*
23351742 TTAGTATCTCGCA
66 TTAGTAACTCGCA
* * *
23351755 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGAGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCACAAATGCCTTCG-GGCTTAGCC
23351816 CGGA
61 CGGA
23351820 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 43 0.34
79 59 0.47
80 24 0.19
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGCTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:23362719 original size:13 final size:13
Alignment explanation
Indices: 23362701--23362736 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
23362691 TTTTATAGTA
23362701 CAAGAAAATTTTG
1 CAAGAAAATTTTG
23362714 CAAGAAAATTTTG
1 CAAGAAAATTTTG
23362727 CAAGAAAATT
1 CAAGAAAATT
23362737 AAATATGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (13 bp):
CAAGAAAATTTTG
Found at i:23363082 original size:34 final size:34
Alignment explanation
Indices: 23363043--23363112 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
23363033 TTTTTAAGTT
23363043 TTAGGTATATTCGATTTAGTCCAATTTATTATGA
1 TTAGGTATATTCGATTTAGTCCAATTTATTATGA
23363077 TTAGGTATATTCGATTTAGTCCAATTTATTATGA
1 TTAGGTATATTCGATTTAGTCCAATTTATTATGA
23363111 TT
1 TT
23363113 TAGTCTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (34 bp):
TTAGGTATATTCGATTTAGTCCAATTTATTATGA
Found at i:23363114 original size:20 final size:20
Alignment explanation
Indices: 23363055--23363117 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
23363045 AGGTATATTC
23363055 GATTTAGTCCAATTTATTAT
1 GATTTAGTCCAATTTATTAT
*
23363075 GA-TTAGGT---A--TATT-C
1 GATTTA-GTCCAATTTATTAT
23363089 GATTTAGTCCAATTTATTAT
1 GATTTAGTCCAATTTATTAT
23363109 GATTTAGTC
1 GATTTAGTC
23363118 TTTTGTCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
17 2 0.06
19 7 0.21
20 13 0.39
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (20 bp):
GATTTAGTCCAATTTATTAT
Found at i:23371744 original size:18 final size:18
Alignment explanation
Indices: 23371718--23371753 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23371708 AAGGAAAGGT
*
23371718 AACTAAATAAGTTTCAAA
1 AACTAAATAAGTTACAAA
*
23371736 AACTTAATAAGTTACAAA
1 AACTAAATAAGTTACAAA
23371754 GCAAATATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (18 bp):
AACTAAATAAGTTACAAA
Found at i:23374195 original size:27 final size:27
Alignment explanation
Indices: 23374157--23374217 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
23374147 GACCCCGGTT
* * * *
23374157 TGTAAAATTACTGAAATACTCTTGTAG
1 TGTAAAAATACTAAAATACCCCTGTAG
23374184 TGTAAAAATACTAAAATACCCCTGTAG
1 TGTAAAAATACTAAAATACCCCTGTAG
*
23374211 GGTAAAA
1 TGTAAAA
23374218 TGACTGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTAAAAATACTAAAATACCCCTGTAG
Found at i:23376262 original size:22 final size:23
Alignment explanation
Indices: 23376237--23376279 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23376227 ATTTCCTCTA
**
23376237 TTTTTCTTCAATTTTA-TTTTCC
1 TTTTTCTAAAATTTTACTTTTCC
23376259 TTTTTCTAAAATTTTACTTTT
1 TTTTTCTAAAATTTTACTTTT
23376280 TTTTCTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTCTAAAATTTTACTTTTCC
Found at i:23377941 original size:117 final size:117
Alignment explanation
Indices: 23377735--23377968 Score: 416
Period size: 117 Copynumber: 2.0 Consensus size: 117
23377725 TCCCGATTCC
*
23377735 CGAGCTGGCTTGTTCAAAACTACAGTAAATAAAGAGGAGGGAGTAAGCATAAATGCTTAGTAAAT
1 CGAGCTGGCTTGTTCAAAACTACAGTAAATAAAGAGGAAGGAGTAAGCATAAATGCTTAGTAAAT
23377800 TCATAGGTAAATAACAAGTAACATAACAATACAAATATACCAAACAACTTTA
66 TCATAGGTAAATAACAAGTAACATAACAATACAAATATACCAAACAACTTTA
* *
23377852 CGAGCTGGCTTGTTCAAAACTACAGTGAATGAAA-AGGAAGGAGTAAGCATAAATGCTTAGTAAG
1 CGAGCTGGCTTGTTCAAAACTACAGTAAAT-AAAGAGGAAGGAGTAAGCATAAATGCTTAGTAAA
*
23377916 TTCATATGTAAATAACAAGTAACATAACAATACAAATATACCAAACAACTTTA
65 TTCATAGGTAAATAACAAGTAACATAACAATACAAATATACCAAACAACTTTA
23377969 GCATGGTATC
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 109 0.97
118 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.24
Consensus pattern (117 bp):
CGAGCTGGCTTGTTCAAAACTACAGTAAATAAAGAGGAAGGAGTAAGCATAAATGCTTAGTAAAT
TCATAGGTAAATAACAAGTAACATAACAATACAAATATACCAAACAACTTTA
Found at i:23378361 original size:93 final size:93
Alignment explanation
Indices: 23378249--23378419 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
23378239 GCCCCTAAGT
23378249 GAACTCGGACTCAACTCAACGAGCTT--GAGCATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAG-TTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
23378312 AACGAGTTCGGATGCCTAGTTACATCTCAC
64 AACGAGTTCGGATGCCTAGTTACATCTCAC
*
23378342 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23378407 TGAGTTCGGATGC
66 CGAGTTCGGATGC
23378420 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.95
94 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23378415 original size:46 final size:46
Alignment explanation
Indices: 23378246--23378416 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
23378236 CCCGCCCCTA
23378246 AGTGAACTCGGACTCAACTCAACGAGCTT--GAGCATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGAGCATTCGCATCCAT
*
23378291 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCAT
*
23378339 CA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
*
23378384 AGGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
23378417 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 54 0.50
47 31 0.29
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
Found at i:23378873 original size:30 final size:30
Alignment explanation
Indices: 23378839--23378898 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23378829 ATTTAATACG
23378839 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23378869 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23378899 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23379689 original size:29 final size:29
Alignment explanation
Indices: 23379656--23379712 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
23379646 TTCTATCTCA
*
23379656 GATTTGTGGTCACGAAACCACTATTCCGG
1 GATTTGTGGTCACAAAACCACTATTCCGG
23379685 GATTTGTGGTCACAAAACCACTATTCCG
1 GATTTGTGGTCACAAAACCACTATTCCG
23379713 ATTAAGCCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (29 bp):
GATTTGTGGTCACAAAACCACTATTCCGG
Found at i:23385103 original size:15 final size:15
Alignment explanation
Indices: 23385079--23385108 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23385069 ATTAAGCTTG
23385079 AATTTAATAACTTAC
1 AATTTAATAACTTAC
*
23385094 AATTTCATAACTTAC
1 AATTTAATAACTTAC
23385109 TCATTATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTTAATAACTTAC
Found at i:23389814 original size:45 final size:46
Alignment explanation
Indices: 23389709--23389859 Score: 153
Period size: 45 Copynumber: 3.2 Consensus size: 46
23389699 CAGCTTGTAT
* * *
23389709 GAGCTTACCGATATATTAGCTCGTAAGAGCTTACTGTTTTTAGCTCATTA
1 GAGCTTACCG-T-T-TTAGCTCGTATGAGCTTACTG-TTTCAGCTCAATA
* *
23389759 GATCGTACCGTTTTAGCTCGTATGAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACCGTTTTAGCTCGTATGAGCTTACTGTTTCAGCTCAATA
* * *
23389804 GAGCTTACCGTTTCAGCTC-AATAGAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTTAGCTCGTAT-GAGCTTACTGTTTCAGCTCAATA
*
23389850 GGGGCTTACC
1 -GAGCTTACC
23389860 AATCATGGCT
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
44 2 0.02
45 35 0.40
46 12 0.14
47 28 0.32
48 1 0.01
49 1 0.01
50 8 0.09
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (46 bp):
GAGCTTACCGTTTTAGCTCGTATGAGCTTACTGTTTCAGCTCAATA
Found at i:23389822 original size:23 final size:23
Alignment explanation
Indices: 23389734--23389859 Score: 130
Period size: 23 Copynumber: 5.4 Consensus size: 23
23389724 TTAGCTCGTA
* * *
23389734 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACCG-TTTCAGCTCAAT
* * * *
23389758 AGATCGTACCGTTTTAGCTC-GT
1 AGAGCTTACCGTTTCAGCTCAAT
*
23389780 ATGAGCTTACTG-TTCAGCTCAAT
1 A-GAGCTTACCGTTTCAGCTCAAT
23389803 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
23389826 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
*
23389849 AGGGGCTTACC
1 A-GAGCTTACC
23389860 AATCATGGCT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.21
23 53 0.61
24 16 0.18
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:23390094 original size:20 final size:20
Alignment explanation
Indices: 23390055--23390108 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
23390045 GTTATTACTG
*
23390055 ATGAACTACTATTTACATGA
1 ATGAACTACTAGTTACATGA
* *
23390075 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTACATGA
* *
23390095 ACGAATTA-TAGTTA
1 ATGAACTACTAGTTA
23390109 TACGAATAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGAACTACTAGTTACATGA
Found at i:23390458 original size:3 final size:3
Alignment explanation
Indices: 23390450--23390497 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
23390440 TTTAAAATTT
23390450 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23390498 GCATAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23390621 original size:11 final size:11
Alignment explanation
Indices: 23390605--23390632 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23390595 GCGTGTAAGT
23390605 CCGTTTTGAAC
1 CCGTTTTGAAC
23390616 CCGTTTTGAAC
1 CCGTTTTGAAC
23390627 CCGTTT
1 CCGTTT
23390633 CTTCAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (11 bp):
CCGTTTTGAAC
Found at i:23392355 original size:28 final size:27
Alignment explanation
Indices: 23392305--23392418 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
23392295 CTATTCAGAA
*
23392305 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
23392332 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
23392359 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
23392393 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
23392419 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:23392360 original size:62 final size:60
Alignment explanation
Indices: 23392282--23392426 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
23392272 TCAAGCTTTA
* * *
23392282 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
23392344 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
23392405 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
23392427 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:23392490 original size:19 final size:20
Alignment explanation
Indices: 23392447--23392502 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
23392437 ATTGGGTCTT
23392447 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
23392467 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
23392486 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
23392503 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:23397194 original size:17 final size:18
Alignment explanation
Indices: 23397154--23397196 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23397144 ATATGGCCTC
*
23397154 TATGGATTTTTCTTAAAT
1 TATGGATTTTTATTAAAT
* *
23397172 TTTGGATTTTTATT-AGT
1 TATGGATTTTTATTAAAT
23397189 TATGGATT
1 TATGGATT
23397197 ATAACTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (18 bp):
TATGGATTTTTATTAAAT
Found at i:23397682 original size:25 final size:25
Alignment explanation
Indices: 23397654--23397702 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23397644 CTATTTTTGA
* *
23397654 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
23397679 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
23397703 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:23403140 original size:40 final size:40
Alignment explanation
Indices: 23403096--23403182 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
23403086 TGACGTTTTT
* * *
23403096 CCTTTTCTTTTCCTAGTCGAACCTTTG-CTGGGCTTCTTCC
1 CCTTTTCTGTCCCTAGCCGAACCTTTGTC-GGGCTTCTTCC
23403136 CCTTTTCTGTCCCTAGCCGAACCTTTGTCGGGCTTCTTCC
1 CCTTTTCTGTCCCTAGCCGAACCTTTGTCGGGCTTCTTCC
23403176 CCTTTTC
1 CCTTTTC
23403183 AGTTCTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.07, C:0.36, G:0.15, T:0.43
Consensus pattern (40 bp):
CCTTTTCTGTCCCTAGCCGAACCTTTGTCGGGCTTCTTCC
Found at i:23416840 original size:37 final size:37
Alignment explanation
Indices: 23416786--23416863 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
23416776 CAATGAGATT
23416786 CATA-TACATAACATCATCTACCACTTAGGCATTATA
1 CATACTACATAACATCATCTACCACTTAGGCATTATA
23416822 CATACTACATAACATCATCTACCACTTAGGCATTATA
1 CATACTACATAACATCATCTACCACTTAGGCATTATA
23416859 CATAC
1 CATAC
23416864 CTATAGCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 4 0.10
37 37 0.90
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.29
Consensus pattern (37 bp):
CATACTACATAACATCATCTACCACTTAGGCATTATA
Found at i:23432772 original size:30 final size:29
Alignment explanation
Indices: 23432725--23432786 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
23432715 TCCTCAAATA
23432725 GCCGAAGCTAGTTAAATCGCACACTTAGT
1 GCCGAAGCTAGTTAAATCGCACACTTAGT
23432754 GCCGAAGCTAGTTTAAATCGCACACTTAGT
1 GCCGAAGCTAG-TTAAATCGCACACTTAGT
23432784 GCC
1 GCC
23432787 AAAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (29 bp):
GCCGAAGCTAGTTAAATCGCACACTTAGT
Found at i:23438836 original size:17 final size:18
Alignment explanation
Indices: 23438808--23438841 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23438798 GAGTTGAGAG
23438808 TTAGTGGGTTAGTGGGAT
1 TTAGTGGGTTAGTGGGAT
23438826 TTAGT-GGTTAGTGGGA
1 TTAGTGGGTTAGTGGGA
23438842 GGTTAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (18 bp):
TTAGTGGGTTAGTGGGAT
Found at i:23440563 original size:14 final size:14
Alignment explanation
Indices: 23440544--23440571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23440534 TTGGTACTAA
23440544 GTATATAAATGAAT
1 GTATATAAATGAAT
23440558 GTATATAAATGAAT
1 GTATATAAATGAAT
23440572 ACGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
GTATATAAATGAAT
Found at i:23441046 original size:17 final size:17
Alignment explanation
Indices: 23441024--23441064 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
23441014 AAATGTGAAA
23441024 ACCTAATCAAAATCAAC
1 ACCTAATCAAAATCAAC
23441041 ACCTAATCAAAATCAAC
1 ACCTAATCAAAATCAAC
*
23441058 ATCTAAT
1 ACCTAAT
23441065 TAAACTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (17 bp):
ACCTAATCAAAATCAAC
Found at i:23447275 original size:32 final size:26
Alignment explanation
Indices: 23447214--23447265 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
23447204 AGGGGGACTA
23447214 AATTGATGAAGATGAACATCTTTTAT
1 AATTGATGAAGATGAACATCTTTTAT
*
23447240 AATTGATGAAGATGAACATCATTTAT
1 AATTGATGAAGATGAACATCTTTTAT
23447266 TTAGTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (26 bp):
AATTGATGAAGATGAACATCTTTTAT
Found at i:23453612 original size:16 final size:16
Alignment explanation
Indices: 23453591--23453621 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23453581 ATTTCGTTTT
23453591 CTAATTTCCAAATTAC
1 CTAATTTCCAAATTAC
23453607 CTAATTTCCAAATTA
1 CTAATTTCCAAATTA
23453622 ACCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (16 bp):
CTAATTTCCAAATTAC
Found at i:23454188 original size:43 final size:43
Alignment explanation
Indices: 23454126--23454229 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
23454116 TTAAGAATCT
* *
23454126 CCTCTCGGTCTTATTCTAGACTAAAAGATACCACCTAAGATTA
1 CCTCTCGGTCTCATCCTAGACTAAAAGATACCACCTAAGATTA
* * * *
23454169 CCTCTCAGTCTCATCCTAGACTGAAAGATATCACCTAAGGTTA
1 CCTCTCGGTCTCATCCTAGACTAAAAGATACCACCTAAGATTA
23454212 CCTCTCGGTCTCA-CCTAG
1 CCTCTCGGTCTCATCCTAG
23454230 GCATATATAC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 5 0.09
43 49 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (43 bp):
CCTCTCGGTCTCATCCTAGACTAAAAGATACCACCTAAGATTA
Found at i:23454276 original size:27 final size:27
Alignment explanation
Indices: 23454210--23454279 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
23454200 CACCTAAGGT
*
23454210 TACCTCTCGGTCTCACCTAGGCATATA
1 TACCTCTCGGTCTCATCTAGGCATATA
*
23454237 TACCTATCGGTCTCATCTAGGCATATA
1 TACCTCTCGGTCTCATCTAGGCATATA
* *
23454264 TACCTCCCAGTCTCAT
1 TACCTCTCGGTCTCAT
23454280 TACTCGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (27 bp):
TACCTCTCGGTCTCATCTAGGCATATA
Found at i:23464152 original size:49 final size:48
Alignment explanation
Indices: 23464032--23464210 Score: 184
Period size: 49 Copynumber: 3.7 Consensus size: 48
23464022 CGAGATGTGT
* * * *
23464032 TAGTCTAAGACCATGTCTGGGACATGGCAT-TGGCACAGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGGCTC-GAT-T-TGATAGC
* *
23464082 TAGTGTAAGACCATGTTTGGGACATGGCATCGGGCTCGATTTCGATAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGGCTCGATTT-GATAGC
* * *
23464131 TAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TGGATGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGGCTCGATTTGAT-AGC
* * *
23464178 CAGTGTAAGACCATGTTTGGGATATGGCATCGG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGG
23464211 CATTATACCC
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
46 3 0.03
47 31 0.28
48 7 0.06
49 35 0.32
50 31 0.28
51 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGGCTCGATTTGATAGC
Found at i:23464205 original size:96 final size:98
Alignment explanation
Indices: 23463986--23464210 Score: 263
Period size: 96 Copynumber: 2.4 Consensus size: 98
23463976 TTATTTGTAT
** **
23463986 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATC-GATTACGAGAT-G-T-GTTAGTCTAAGACCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGGCT-CGATTTCGATAGTTAGTCTAAGACCA
*
23464045 TGTCTGGGACATGGCATTGGCACAGATATGTGAGA
65 TGTCTGGGACATGGCATTCGCACAGA-ATGTGAGA
* *
23464080 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGGCTCGATTTCGATAGTTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGGCTCGATTTCGATAGTTAGTCTAAGACCAT
*
23464145 GTCTGGGACATGGCA-TCG-ACTTG-ATG-GATGA
66 GTCTGGGACATGGCATTCGCAC-AGAATGTGA-GA
*
23464176 GCCAGTGTAAGACCATGTTTGGGATATGGCATCGG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
23464211 CATTATACCC
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
94 11 0.10
95 16 0.14
96 47 0.42
97 5 0.04
98 4 0.04
99 30 0.27
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (98 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGGCTCGATTTCGATAGTTAGTCTAAGACCAT
GTCTGGGACATGGCATTCGCACAGAATGTGAGA
Found at i:23469849 original size:110 final size:110
Alignment explanation
Indices: 23469722--23469925 Score: 288
Period size: 110 Copynumber: 1.9 Consensus size: 110
23469712 AAAAATTACT
* *
23469722 CTCCTCTCCTTCCAAAATCACAAAATTAAACAAATAGTAAGT-AACACAAAACCCTAAACAAATA
1 CTCCTCTCCTTCCAAAATCACAAAATCAAACAAATAATAAGTAAAC-CAAAACCCTAAACAAATA
*
23469786 ACTAACAATTACAAAAAATTACCTTT-AAAATAAAATTTATTGTTGC
65 AATAACAATTA-AAAAAATTACCTTTCAAAATAAAATTTATTGTTGC
* * *
23469832 CTCCTC-CCTTTCTAAAATCACAAAATCAAATAAATAATAAGTAAACCAAAATCCTAAACAAATA
1 CTCCTCTCC-TTCCAAAATCACAAAATCAAACAAATAATAAGTAAACCAAAACCCTAAACAAATA
* *
23469896 AATAATACTTAAAAAAATTACCTTTCAAAA
65 AATAACAATTAAAAAAATTACCTTTCAAAA
23469926 CCACAAAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
109 16 0.19
110 64 0.77
111 3 0.04
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (110 bp):
CTCCTCTCCTTCCAAAATCACAAAATCAAACAAATAATAAGTAAACCAAAACCCTAAACAAATAA
ATAACAATTAAAAAAATTACCTTTCAAAATAAAATTTATTGTTGC
Found at i:23484203 original size:22 final size:21
Alignment explanation
Indices: 23484154--23484223 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
23484144 CTTTTGAATG
23484154 ATATTTTTA-TTAA-ATAATAA
1 ATATTTTTATTTAATATAAT-A
23484174 ATTAATTTTTATTTAATAGTAATA
1 A-T-ATTTTTATTTAATA-TAATA
**
23484198 ATATTTTATAAGTAATATAATA
1 ATATTTT-TATTTAATATAATA
23484220 ATAT
1 ATAT
23484224 ATATAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 21 0.50
23 12 0.29
24 3 0.07
25 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATATTTTTATTTAATATAATA
Found at i:23484865 original size:55 final size:55
Alignment explanation
Indices: 23484804--23484912 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
23484794 TCATCTTAAT
* ** *
23484804 TGTTGGAATACTACTTCTTTTGAA-CATATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGGAATACTACTTCTTTTGAATC-GATTAATTATATGTTTAAATCGACTGTCA
**
23484859 TGTTGGAATACTGTTTCTTTTGAATCGATTAATTATATGTTTAAATCGACTGTC
1 TGTTGGAATACTACTTCTTTTGAATCGATTAATTATATGTTTAAATCGACTGTC
23484913 GTACTTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 46 0.98
56 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.48
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTGAATCGATTAATTATATGTTTAAATCGACTGTCA
Found at i:23485018 original size:21 final size:21
Alignment explanation
Indices: 23484989--23485030 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23484979 GAGAAGTGCC
*
23484989 AATACCTAGGTATGAGATTCT
1 AATAACTAGGTATGAGATTCT
*
23485010 AATAACTAGGTATGAGTTTCT
1 AATAACTAGGTATGAGATTCT
23485031 GATACCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (21 bp):
AATAACTAGGTATGAGATTCT
Found at i:23485663 original size:41 final size:41
Alignment explanation
Indices: 23485616--23485698 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
23485606 GCATGTGAGT
23485616 AAGTTTTGAATGTGTATAGTATTGGAAGCTGACTAAATATA
1 AAGTTTTGAATGTGTATAGTATTGGAAGCTGACTAAATATA
23485657 AAGTTTTGAATGTGTATAGTATTGGAAGCTGACTAAATATA
1 AAGTTTTGAATGTGTATAGTATTGGAAGCTGACTAAATATA
23485698 A
1 A
23485699 GAATTCCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (41 bp):
AAGTTTTGAATGTGTATAGTATTGGAAGCTGACTAAATATA
Found at i:23487126 original size:54 final size:54
Alignment explanation
Indices: 23487061--23487193 Score: 166
Period size: 54 Copynumber: 2.5 Consensus size: 54
23487051 ACATGTCGAA
*
23487061 AAATGGAATGCCTTTGTGGCATAATGGGAAAGAAAAACCTATATGGTTG-TTCTT
1 AAATGAAATGCCTTTGTGGCATAATGGGAAAGAAAAACCTATATGG-TGATTCTT
* * *
23487115 GAATGAAATGCCTTTGTGG-AGTAATGGGAAAGAAAAACCTCTGTGGTGATTCTT
1 AAATGAAATGCCTTTGTGGCA-TAATGGGAAAGAAAAACCTATATGGTGATTCTT
23487169 AAATGGACAA--CCTTTGTGGCATAAT
1 AAAT-GA-AATGCCTTTGTGGCATAAT
23487194 ATGAAGGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.04
54 61 0.88
55 3 0.04
56 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (54 bp):
AAATGAAATGCCTTTGTGGCATAATGGGAAAGAAAAACCTATATGGTGATTCTT
Found at i:23487209 original size:26 final size:27
Alignment explanation
Indices: 23487179--23487243 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
23487169 AAATGGACAA
*
23487179 CCTTTGTGGCATAATATGAAGG-AAAG
1 CCTTTGTGGCATAACATGAAGGAAAAG
* ** *
23487205 CCTTTGTAGTGTAACATTAAGGAAAAG
1 CCTTTGTGGCATAACATGAAGGAAAAG
23487232 CC-TTGTGGCATA
1 CCTTTGTGGCATA
23487244 CCGTGAAGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCATAACATGAAGGAAAAG
Found at i:23490057 original size:22 final size:21
Alignment explanation
Indices: 23490032--23490074 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23490022 AAAACCCTAG
*
23490032 AAAAATAC-AGAGAAAAACTAA
1 AAAAAAACTAGAG-AAAACTAA
*
23490053 AAAAAACCTAGAGAAAACTAA
1 AAAAAAACTAGAGAAAACTAA
23490074 A
1 A
23490075 CTTAAACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.70, C:0.12, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAAACTAGAGAAAACTAA
Found at i:23493863 original size:50 final size:49
Alignment explanation
Indices: 23493747--23493965 Score: 211
Period size: 50 Copynumber: 4.5 Consensus size: 49
23493737 TAAGATTCCA
* * * * *
23493747 ATGCCATGT-CCTGAACATGGTTTTACACTG-GCTCACACATCAAGGTCG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGATCTCACATATCAAGGCCG
* * * *
23493795 TTGCCATATCCTAGACATGGTCTTACACTGACTCTCATATATCAAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-TCTCACATATCAAGGCCG
* * *
23493845 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATC-TGTC-AGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GATCTCA-CATATCAAG-GCCG
*
23493895 ATGCCATGTCCCAGACATGGTCTTACACTGA---CACATATCAA-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGATCTCACATATCAAGGCCG
*
23493940 ATGCCATGTCCCAGACATAGTCTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
23493966 TGTAACACCC
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 29 0.20
46 5 0.04
47 1 0.01
48 22 0.15
49 5 0.04
50 79 0.56
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGATCTCACATATCAAGGCCG
Found at i:23493932 original size:98 final size:94
Alignment explanation
Indices: 23493747--23493965 Score: 244
Period size: 98 Copynumber: 2.3 Consensus size: 94
23493737 TAAGATTCCA
** * * * *
23493747 ATGCCATGTCCTGAACATGGTTTTACACTGGCTCACACATCAAGGTCGTTGCCATATCCTAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACATCAAGGCCGATGCCATATCCCAGACA
*
23493812 TGGTCTTACACTGACTCTCATATATCAAGGCCG
66 TGGTCTTACACTGA--C-CACATATCAA-GCCG
* * *
23493845 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTGTC-AGTGCCGATGCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACA-C-ATCAAG-GCCGATGCCATATCCCAG
*
23493909 ACATGGTCTTACACTGA-CACATATCAAGCTG
63 ACATGGTCTTACACTGACCACATATCAAGCCG
* *
23493940 ATGCCATGTCCCAGACATAGTCTTAC
1 ATGCCATGTCCCAAACATGGTCTTAC
23493966 TGTAACACCC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
95 27 0.26
96 9 0.09
98 33 0.31
99 3 0.03
100 33 0.31
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACATCAAGGCCGATGCCATATCCCAGACA
TGGTCTTACACTGACCACATATCAAGCCG
Found at i:23500779 original size:29 final size:29
Alignment explanation
Indices: 23500737--23500794 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
23500727 TCACTTACTT
23500737 GCAAAGGCTTAGAGTTGCTAAAATTTTGA
1 GCAAAGGCTTAGAGTTGCTAAAATTTTGA
*
23500766 GCAAAGGTTTAGAGTTGCTAAAATTTTGA
1 GCAAAGGCTTAGAGTTGCTAAAATTTTGA
23500795 AGCTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (29 bp):
GCAAAGGCTTAGAGTTGCTAAAATTTTGA
Found at i:23501610 original size:46 final size:45
Alignment explanation
Indices: 23501556--23501722 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
23501546 CTTGTAGCCG
*
23501556 ATGCATGTCCTAGACATGTCTTACACTGACTTACGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGACTTAC-TCTCGAGGCCA
* * ** *
23501602 ATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TCTCAATACCG
1 ATGCATGTCCCAGACATGTCTTACACT-G-ACTTACTCTCGAGGCCA
* * ** *
23501648 ATGCCATGTCCCTGACATGATCTTACACTGGCTCTCACAAT-GTGGCCA
1 ATG-CATGTCCCAGACATG-TCTTACACTGACT-T-ACTCTCGAGGCCA
23501696 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
23501723 AGCTCACAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
46 47 0.48
47 30 0.31
48 19 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGACTTACTCTCGAGGCCA
Found at i:23502075 original size:23 final size:23
Alignment explanation
Indices: 23502045--23502092 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23502035 CATACTTAAC
23502045 ATCTATTTTACAACTCATGCAAT
1 ATCTATTTTACAACTCATGCAAT
23502068 ATCTATTTTACAACTCATGCAAT
1 ATCTATTTTACAACTCATGCAAT
23502091 AT
1 AT
23502093 AGTCCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (23 bp):
ATCTATTTTACAACTCATGCAAT
Found at i:23507060 original size:17 final size:17
Alignment explanation
Indices: 23507038--23507092 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
23507028 ATCTGACAAA
*
23507038 GCCTGATAAGTGAAAAT
1 GCCTGATAAATGAAAAT
*
23507055 GCCTGAAATAAATGATAAT
1 GCCTG--ATAAATGAAAAT
23507074 GCCTGATAAATGATAAAT
1 GCCTGATAAATGA-AAAT
23507092 G
1 G
23507093 ATAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 13 0.41
18 4 0.12
19 15 0.47
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (17 bp):
GCCTGATAAATGAAAAT
Found at i:23507074 original size:19 final size:17
Alignment explanation
Indices: 23507038--23507089 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
23507028 ATCTGACAAA
* *
23507038 GCCTGATAAGTGAAAAT
1 GCCTGATAAATGATAAT
23507055 GCCTGAAATAAATGATAAT
1 GCCTG--ATAAATGATAAT
23507074 GCCTGATAAATGATAA
1 GCCTGATAAATGATAA
23507090 ATGATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (17 bp):
GCCTGATAAATGATAAT
Found at i:23512440 original size:21 final size:21
Alignment explanation
Indices: 23512416--23512467 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
23512406 AAAACAGGGC
23512416 ACACGCCCGTATGGAAGGGTA
1 ACACGCCCGTATGGAAGGGTA
* * *
23512437 ACACACCTGTATGGGAGGGTA
1 ACACGCCCGTATGGAAGGGTA
23512458 ACACGCCCGT
1 ACACGCCCGT
23512468 GCCCCACACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTATGGAAGGGTA
Found at i:23513420 original size:46 final size:46
Alignment explanation
Indices: 23513337--23513458 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 46
23513327 CTCTTAGCCG
** * * *
23513337 ATGCATGTCGTAGACATGCCTTACACTGGCATACGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGCCATACGTCTCAAGGCCA
* * * *
23513383 ATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCAATGTCG
1 ATGCATGTCCCAGACATGTCTTACACT-GCCATACGTCTCAAGGCCA
*
23513429 ATGCCATCTCCCAGACATGGTCTTACACTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTG
23513459 GCTCTCATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 36 0.57
47 17 0.27
48 10 0.16
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGCCATACGTCTCAAGGCCA
Found at i:23519753 original size:21 final size:21
Alignment explanation
Indices: 23519701--23519753 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23519691 AAAACAGGGC
*
23519701 ACACACCCGTGTGCAAGGGTA
1 ACACGCCCGTGTGCAAGGGTA
* * **
23519722 ACATGCTCGTGTGGGAGGGTA
1 ACACGCCCGTGTGCAAGGGTA
23519743 ACACGCCCGTG
1 ACACGCCCGTG
23519754 CCCCATACCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGCAAGGGTA
Found at i:23520092 original size:67 final size:67
Alignment explanation
Indices: 23520013--23520147 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
23520003 GTGTGTTTAT
* *
23520013 TATCATGCATACTAACTTAAAATTTTTATGTACAGGGGACACACGGCCAGACCACACACCCATGG
1 TATCATGCATACTAACTTAAAATTTTTACGTACAGGGGACACACGACCAGACCACACACCCATGG
23520078 GG
66 GG
* * * *
23520080 TATCATGCATACTAACTTGAAATTTTTACGTGCAGGGGACACACGACCGGACCACACGCCCATGG
1 TATCATGCATACTAACTTAAAATTTTTACGTACAGGGGACACACGACCAGACCACACACCCATGG
23520145 GG
66 GG
23520147 T
1 T
23520148 TGACCGTGTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (67 bp):
TATCATGCATACTAACTTAAAATTTTTACGTACAGGGGACACACGACCAGACCACACACCCATGG
GG
Found at i:23522320 original size:79 final size:81
Alignment explanation
Indices: 23522218--23522401 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
23522208 GCTCCTCGTT
* *
23522218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
23522280 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
23522298 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
23522362 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
23522378 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23522402 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:23522335 original size:39 final size:41
Alignment explanation
Indices: 23522218--23522401 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
23522208 GCTCCTCGTT
* *
23522218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
23522258 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
23522298 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
23522337 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
23522378 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23522402 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:23524117 original size:46 final size:44
Alignment explanation
Indices: 23524021--23524191 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 44
23524011 TCATCTCTTA
* * * *
23524021 GCCGATGCATGTCCCAGACATGTCTTATACTGTCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGCCTT-C-TCTCAAT
*
23524067 GCCGATGCATGTGCCAGACATGTCTTACACTAGCCTTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GCCTTC-TCTCAAT
*
23524113 GCCGATGCCATG-CCGCAGACATGGTCTTACACTGGC-TCTCAT-AATGT
1 GCCGATG-CATGTCC-CAGACAT-GTCTTACACTGCCTTCTC-TCAA--T
23524160 GGCCGATGCATGTCCCAGACATGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
23524192 AGCTCACACA
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.04
46 56 0.52
47 29 0.27
48 19 0.18
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGCCTTCTCTCAAT
Found at i:23528094 original size:18 final size:18
Alignment explanation
Indices: 23528071--23528111 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23528061 AGTCAGTCAA
23528071 CAGTAATAATCAGTTAAT
1 CAGTAATAATCAGTTAAT
* * *
23528089 CAGTAATATTCATTTATT
1 CAGTAATAATCAGTTAAT
23528107 CAGTA
1 CAGTA
23528112 TCGGTAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (18 bp):
CAGTAATAATCAGTTAAT
Found at i:23528898 original size:19 final size:19
Alignment explanation
Indices: 23528857--23528897 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
23528847 AACCCTTCAA
23528857 TTTT-TCCTTTCTTCTTTC
1 TTTTCTCCTTTCTTCTTTC
23528875 TTTTCTCCTTTCTTTCTTTC
1 TTTTCTCCTTTC-TTCTTTC
23528895 TTT
1 TTT
23528898 CCCTGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTCCTTTCTTCTTTC
Found at i:23539549 original size:40 final size:40
Alignment explanation
Indices: 23539505--23539692 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
23539495 GCAAACACAT
* * *
23539505 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
23539545 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
23539585 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
23539625 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23539665 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
23539693 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:23548925 original size:100 final size:100
Alignment explanation
Indices: 23548752--23548953 Score: 377
Period size: 100 Copynumber: 2.0 Consensus size: 100
23548742 TAAATTGTAC
*
23548752 AAAAATGATTATAAAATAAAATTTATATGCTTAAACTCCTTAATGCGTCTAGTTTCAAATGAAAT
1 AAAAATGATTATAAAATAAAATTTATATGCTTAAACTCCTTAATGAGTCTAGTTTCAAATGAAAT
23548817 CAAATACAACACATTTGGAATTCTGTAAAATGAGA
66 CAAATACAACACATTTGGAATTCTGTAAAATGAGA
* *
23548852 AAAAATGATTATAAGATAAAATTTATATGCTTAAACTCCTTAATGAGTCTGGTTTCAAATGAAAT
1 AAAAATGATTATAAAATAAAATTTATATGCTTAAACTCCTTAATGAGTCTAGTTTCAAATGAAAT
23548917 CAAATACAACACATTTGGAATTCTGTAAAATGAGA
66 CAAATACAACACATTTGGAATTCTGTAAAATGAGA
23548952 AA
1 AA
23548954 TTTGATTCGT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (100 bp):
AAAAATGATTATAAAATAAAATTTATATGCTTAAACTCCTTAATGAGTCTAGTTTCAAATGAAAT
CAAATACAACACATTTGGAATTCTGTAAAATGAGA
Found at i:23549732 original size:40 final size:40
Alignment explanation
Indices: 23549677--23549907 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
23549667 ATTTGAATTT
*
23549677 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
23549717 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
*
23549757 TATCCGAGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
* * * *
23549797 TATCCAGGCTAAGACCTGCAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
* * *
23549837 TATCCGGGCTAAGACCCGGAGGCATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
** * * *
23549877 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGC
23549908 TTGTGGTAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
Found at i:23551553 original size:29 final size:28
Alignment explanation
Indices: 23551492--23551663 Score: 229
Period size: 29 Copynumber: 6.0 Consensus size: 28
23551482 CATACATGCA
* * *
23551492 TATGGCCCACTAGGCCCAATCTCATTC-
1 TATGGCCCATTAGGCCAAATCACATTCG
23551519 TCATGGCCCATTAGGTCCAAATCACATTCG
1 T-ATGGCCCATTAGG-CCAAATCACATTCG
*
23551549 TATGGCCCATTAGGCCTAAATCACAATCG
1 TATGGCCCATTAGGCC-AAATCACATTCG
*
23551578 TATGGCCCATTAGGCCCAAATCACATTCT
1 TATGGCCCATTAGG-CCAAATCACATTCG
*
23551607 TATGACCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGG-CCAAATCACATTCG
23551636 TATGGCCCATTAGGCTCAAATCACATTC
1 TATGGCCCATTAGGC-CAAATCACATTC
23551664 ATAGTCATGC
Statistics
Matches: 130, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
27 1 0.01
28 15 0.12
29 111 0.85
30 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
TATGGCCCATTAGGCCAAATCACATTCG
Found at i:23551629 original size:87 final size:86
Alignment explanation
Indices: 23551492--23551660 Score: 268
Period size: 87 Copynumber: 2.0 Consensus size: 86
23551482 CATACATGCA
* * *
23551492 TATGGCCCACTAGGCCCAATCTCATTCTCATGGCCCATTAGGTCCAAATCACATTCGTATGGCCC
1 TATGGCCCACTAGGCCCAATCACATTCTCATGACCCATTAGGCCCAAATCACATTCGTATGGCCC
23551557 ATTAGGC-CTAAATCACAATCG
66 ATTAGGCTC-AAATCACAATCG
* *
23551578 TATGGCCCATTAGGCCCAAATCACATTCTTATGACCCATTAGGCCCAAATCACATTCGTATGGCC
1 TATGGCCCACTAGGCCC-AATCACATTCTCATGACCCATTAGGCCCAAATCACATTCGTATGGCC
23551643 CATTAGGCTCAAATCACA
65 CATTAGGCTCAAATCACA
23551661 TTCATAGTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 16 0.21
87 59 0.78
88 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (86 bp):
TATGGCCCACTAGGCCCAATCACATTCTCATGACCCATTAGGCCCAAATCACATTCGTATGGCCC
ATTAGGCTCAAATCACAATCG
Found at i:23551896 original size:16 final size:16
Alignment explanation
Indices: 23551875--23551910 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23551865 TATAGCCACA
23551875 ATTTTGGCTTTTCAGC
1 ATTTTGGCTTTTCAGC
*
23551891 ATTTTGGCTTTTCGGC
1 ATTTTGGCTTTTCAGC
23551907 ATTT
1 ATTT
23551911 CGGGATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (16 bp):
ATTTTGGCTTTTCAGC
Found at i:23570974 original size:13 final size:13
Alignment explanation
Indices: 23570956--23570984 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23570946 GGTTGTTTAT
23570956 TAAACTAATTAAC
1 TAAACTAATTAAC
23570969 TAAACTAATTAAC
1 TAAACTAATTAAC
23570982 TAA
1 TAA
23570985 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:23579385 original size:13 final size:13
Alignment explanation
Indices: 23579367--23579395 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23579357 GGTTGTTTAT
23579367 TAAACTAATTAAC
1 TAAACTAATTAAC
23579380 TAAACTAATTAAC
1 TAAACTAATTAAC
23579393 TAA
1 TAA
23579396 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:23581738 original size:47 final size:47
Alignment explanation
Indices: 23581669--23581840 Score: 344
Period size: 47 Copynumber: 3.7 Consensus size: 47
23581659 GGATGGTTGA
23581669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
23581716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
23581763 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
23581810 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT
23581841 TTACTAAAAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23586730 original size:3 final size:3
Alignment explanation
Indices: 23586722--23586774 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
23586712 TGCATATTTA
23586722 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23586770 ATT AT
1 ATT AT
23586775 AAGACTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23590625 original size:12 final size:12
Alignment explanation
Indices: 23590608--23590633 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23590598 CCTAACACAC
23590608 CCGTGTGCTAGG
1 CCGTGTGCTAGG
23590620 CCGTGTGCTAGG
1 CCGTGTGCTAGG
23590632 CC
1 CC
23590634 ATGCCAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:23607695 original size:26 final size:26
Alignment explanation
Indices: 23607659--23607742 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
23607649 CATGAAATTC
23607659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23607685 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23607711 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23607737 TTATCA
1 TTATCA
23607743 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23612047 original size:17 final size:18
Alignment explanation
Indices: 23612017--23612062 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
23612007 ATTTAAATTG
23612017 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
23612035 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
23612051 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
23612063 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:23613876 original size:14 final size:14
Alignment explanation
Indices: 23613838--23613880 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
23613828 TAAAATGTAC
23613838 AATATAATTAAA-T
1 AATATAATTAAATT
23613851 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
23613866 AA-ATAATTTAATT
1 AATATAATTAAATT
23613879 AA
1 AA
23613881 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:23617095 original size:20 final size:22
Alignment explanation
Indices: 23617072--23617115 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
23617062 AATAATAACT
23617072 AAAAAATA-TTAAAAAAT-AAA
1 AAAAAATATTTAAAAAATGAAA
* *
23617092 AAAATATATTTAATAAATGAAA
1 AAAAAATATTTAAAAAATGAAA
23617114 AA
1 AA
23617116 TCAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAAATATTTAAAAAATGAAA
Found at i:23625164 original size:19 final size:19
Alignment explanation
Indices: 23625136--23625173 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23625126 CCACTGTCAC
23625136 CCATCATAATCAAATTTGT
1 CCATCATAATCAAATTTGT
*
23625155 CCATCGTAATCAAATTTGT
1 CCATCATAATCAAATTTGT
23625174 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (19 bp):
CCATCATAATCAAATTTGT
Found at i:23628640 original size:25 final size:25
Alignment explanation
Indices: 23628586--23628671 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 25
23628576 GGTTATCGAT
* * * *
23628586 TTCAGTTCTTATGAGCTTACCGATA
1 TTCAGCTCGTATGAGCTTACTGTTA
*
23628611 CTCAGCTCGTATGAGCTTACTGTTA
1 TTCAGCTCGTATGAGCTTACTGTTA
* * *
23628636 TTCAGCTCGGAGGAGCTTACTATT-
1 TTCAGCTCGTATGAGCTTACTGTTA
*
23628660 TACAGCTCGTAT
1 TTCAGCTCGTAT
23628672 AAGCATACAT
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 9 0.18
25 40 0.82
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACTGTTA
Found at i:23634969 original size:53 final size:53
Alignment explanation
Indices: 23634878--23634981 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
23634868 CGTATATCCC
* * *
23634878 TATATGTTGCATTGTGGGGTTAAACTCTTTGCATGATAAATCCATTATCTTCA
1 TATATCTTGCATTGTGGGGTTAAACTCTTCGCACGATAAATCCATTATCTTCA
* *
23634931 TATATCTTGTATTGTGGGGTTAAAGTCTTCGCACGATAAATCCATTATCTT
1 TATATCTTGCATTGTGGGGTTAAACTCTTCGCACGATAAATCCATTATCTT
23634982 AAAATCTTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (53 bp):
TATATCTTGCATTGTGGGGTTAAACTCTTCGCACGATAAATCCATTATCTTCA
Found at i:23635341 original size:23 final size:24
Alignment explanation
Indices: 23635315--23635362 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
23635305 ATTTTGATAT
*
23635315 TTTTCTTAT-AATTTCATACTTAA
1 TTTTCTTATCAATTTCACACTTAA
*
23635338 TTTTTTTATCCAATTTCACACTTAA
1 TTTTCTTAT-CAATTTCACACTTAA
23635363 ACCTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTCTTATCAATTTCACACTTAA
Found at i:23637657 original size:17 final size:18
Alignment explanation
Indices: 23637628--23637662 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23637618 TTTGGTTTCG
*
23637628 GTTTTTGATAATTTTTAC
1 GTTTTTGATAATTGTTAC
23637646 GTTTTTGA-AATTGTTAC
1 GTTTTTGATAATTGTTAC
23637663 TTCGAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (18 bp):
GTTTTTGATAATTGTTAC
Found at i:23638875 original size:45 final size:45
Alignment explanation
Indices: 23638811--23638897 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
23638801 CTTAAAATAT
23638811 ATATGTATATGCGATTATATAAATCAATGTGGTTTCGAATTTCTC
1 ATATGTATATGCGATTATATAAATCAATGTGGTTTCGAATTTCTC
*
23638856 ATATGTATATTCGATTATATAAATCAATGTGGTTTCGAATTT
1 ATATGTATATGCGATTATATAAATCAATGTGGTTTCGAATTT
23638898 GAGAACATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (45 bp):
ATATGTATATGCGATTATATAAATCAATGTGGTTTCGAATTTCTC
Found at i:23638892 original size:24 final size:24
Alignment explanation
Indices: 23638822--23638893 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
23638812 TATGTATATG
23638822 CGATTATATAAATCAATGTGGTTT
1 CGATTATATAAATCAATGTGGTTT
** *
23638846 CGA--AT-T-TCTCATATGT-ATATT
1 CGATTATATAAATCA-ATGTGGT-TT
23638867 CGATTATATAAATCAATGTGGTTT
1 CGATTATATAAATCAATGTGGTTT
23638891 CGA
1 CGA
23638894 ATTTGAGAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 10 0.29
22 2 0.06
23 2 0.06
24 13 0.37
25 4 0.11
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
CGATTATATAAATCAATGTGGTTT
Found at i:23639136 original size:40 final size:40
Alignment explanation
Indices: 23639081--23639160 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
23639071 GTTTAATTTG
23639081 CTTAAGGAATACTAAGCTAAGTTAGCTTACTTTGTGTATA
1 CTTAAGGAATACTAAGCTAAGTTAGCTTACTTTGTGTATA
*
23639121 CTTAAGGAATACTAAGCTAAGTTATCTTACTTTGTGTATA
1 CTTAAGGAATACTAAGCTAAGTTAGCTTACTTTGTGTATA
23639161 TATATATTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (40 bp):
CTTAAGGAATACTAAGCTAAGTTAGCTTACTTTGTGTATA
Found at i:23643551 original size:19 final size:19
Alignment explanation
Indices: 23643527--23643565 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23643517 TGAACTGGTG
23643527 ATTGACTATCACCCAGGAA
1 ATTGACTATCACCCAGGAA
*
23643546 ATTGACTATCACCCGGGAA
1 ATTGACTATCACCCAGGAA
23643565 A
1 A
23643566 GGCTAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (19 bp):
ATTGACTATCACCCAGGAA
Found at i:23645675 original size:17 final size:18
Alignment explanation
Indices: 23645646--23645680 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23645636 TTTGGTTTCG
*
23645646 GTTTTTGATAATTTTTAC
1 GTTTTTGATAATTGTTAC
23645664 GTTTTTGA-AATTGTTAC
1 GTTTTTGATAATTGTTAC
23645681 TTCGAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (18 bp):
GTTTTTGATAATTGTTAC
Found at i:23648978 original size:28 final size:27
Alignment explanation
Indices: 23648921--23649008 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
23648911 ATTAACCTTT
* * *
23648921 TATACATTATTTACTTTAGA-TATTTTTA
1 TATAAATTATTTA-TTTAAACTA-TTATA
23648949 TATAAATTATTTATTTTAAACTATTATA
1 TATAAATTATTTA-TTTAAACTATTATA
*
23648977 TATTTTAAATT-TTCATTTAAACTATTATA
1 TA---TAAATTATTTATTTAAACTATTATA
23649006 TAT
1 TAT
23649009 TTTAAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.02
28 23 0.45
29 18 0.35
30 3 0.06
31 6 0.12
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.56
Consensus pattern (27 bp):
TATAAATTATTTATTTAAACTATTATA
Found at i:23648980 original size:17 final size:17
Alignment explanation
Indices: 23648954--23649014 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
23648944 TTTTATATAA
*
23648954 ATTATTTATTTTAAACT
1 ATTATATATTTTAAACT
23648971 ATTATATATTTTAAA-T
1 ATTATATATTTTAAACT
*
23648987 -TT-T-CA-TTTAAACT
1 ATTATATATTTTAAACT
23649000 ATTATATATTTTAAA
1 ATTATATATTTTAAA
23649015 TTTTCATGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
12 6 0.17
13 2 0.06
14 3 0.08
15 3 0.08
16 2 0.06
17 20 0.56
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTAAACT
Found at i:23648996 original size:29 final size:29
Alignment explanation
Indices: 23648963--23649021 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23648953 AATTATTTAT
23648963 TTTAAACTATTATATATTTTAAATTTTCA
1 TTTAAACTATTATATATTTTAAATTTTCA
23648992 TTTAAACTATTATATATTTTAAATTTTCA
1 TTTAAACTATTATATATTTTAAATTTTCA
23649021 T
1 T
23649022 GTATAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAAACTATTATATATTTTAAATTTTCA
Found at i:23649171 original size:81 final size:80
Alignment explanation
Indices: 23649068--23649229 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 80
23649058 CATTTTAAAA
* * * * * **
23649068 TTTTTGTATTACTTATTTTAAGTTGTTTTA-TTATTATAAATTATAAATTTTTCTTTTTTATACA
1 TTTTTATATTAATTACTTTAAGTCGTTTCATTTATTATAAATTATAAA-CCTT-TTTTTTATACA
*
23649132 TTATTTATTCGAAACTG
64 TTATTTATTCAAAACTG
** * *
23649149 TTTTTATATTAATTACTTTAAGTCGTTTCATTTATTATCCATTTTAAACCTTTTTTTTATATATT
1 TTTTTATATTAATTACTTTAAGTCGTTTCATTTATTATAAATTATAAACCTTTTTTTTATACATT
*
23649214 ATTTATTTAAAACTG
66 ATTTATTCAAAACTG
23649229 T
1 T
23649230 CTTATTATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
80 26 0.39
81 27 0.40
82 14 0.21
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (80 bp):
TTTTTATATTAATTACTTTAAGTCGTTTCATTTATTATAAATTATAAACCTTTTTTTTATACATT
ATTTATTCAAAACTG
Done.