Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 89 of 322
Found at i:28868070 original size:43 final size:42
Alignment explanation
Indices: 28867914--28868076 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 42
28867904 ATGTGATTTT
* * * *
28867914 GTGTAAGACCACATTTGGGATGTTGGCATCG-ATTTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATTGTATTT--GA-TTAC
* * * * *
28867958 GTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTAC
*
28868000 GTGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGA-CGTTGGCATTG-TATTTGATTAC
* *
28868043 ATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATTGTAT
28868077 AAGCTTTTTG
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 31 0.32
43 36 0.37
44 26 0.27
45 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTAC
Found at i:28869994 original size:38 final size:40
Alignment explanation
Indices: 28869910--28870029 Score: 122
Period size: 38 Copynumber: 3.0 Consensus size: 40
28869900 ACAGTGATAT
* * *
28869910 ATCAGGCTTACTT-CCTAGTAGGCCTTGATGCCAGTGTATGT-T
1 ATCAGGCTTA-TTACCTAGCAGGCC-TG-TGCCGGTGTAT-TAA
*
28869952 ATCAGGCTTATTGCCTAGCAGG-CT-TGCCGGTGTATTAA
1 ATCAGGCTTATTACCTAGCAGGCCTGTGCCGGTGTATTAA
*
28869990 ATCAGGTTTATTACCTAGCAGGCTCTGTGCCGGTGTATTA
1 ATCAGGCTTATTACCTAGCAGGC-CTGTGCCGGTGTATTA
28870030 TACTAGGCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.01
38 30 0.44
40 3 0.04
41 16 0.24
42 18 0.26
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (40 bp):
ATCAGGCTTATTACCTAGCAGGCCTGTGCCGGTGTATTAA
Found at i:28871000 original size:13 final size:13
Alignment explanation
Indices: 28870982--28871011 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28870972 ACTTGCATGT
28870982 ATGTATATATATA
1 ATGTATATATATA
*
28870995 ATGTATATATATT
1 ATGTATATATATA
28871008 ATGT
1 ATGT
28871012 GTGAAATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
ATGTATATATATA
Found at i:28874338 original size:39 final size:41
Alignment explanation
Indices: 28874295--28874404 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 41
28874285 TACTTGAGGA
* *
28874295 AATG-TATCTGGGCTTAAAGACCCGCAGGCTAT-ATGCTGG
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
* * *
28874334 AATGTTATCCAGGCTTAAAGACCCGCAGGCT-TCGTGCTAG
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
*
28874374 AATGCTATCCGGGC-TAGAGACCCGCAGGCTA
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTA
28874405 CGAGATGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
39 20 0.33
40 41 0.67
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (41 bp):
AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
Found at i:28881864 original size:39 final size:41
Alignment explanation
Indices: 28881821--28881930 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 41
28881811 GACTTGAGGA
*
28881821 AATG-TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGG
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
* *
28881860 AATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTAG
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
* * *
28881900 AATGCTATCTGGGC-TAGAGACCCGTAGGCTA
1 AATGCTATCCGGGCTTAAAGACCCGCAGGCTA
28881931 CGAGCTGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 19 0.31
40 43 0.69
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
AATGCTATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAG
Found at i:28886957 original size:18 final size:18
Alignment explanation
Indices: 28886936--28886997 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
28886926 AAGAAACATT
28886936 ATCAGAACTAGAATCAAA
1 ATCAGAACTAGAATCAAA
*
28886954 ATCAGAA-TCAGAATCAAT
1 ATCAGAACT-AGAATCAAA
28886972 ATCAGGTAAC-AGAATCAAA
1 ATCA-G-AACTAGAATCAAA
28886991 ATCAGAA
1 ATCAGAA
28886998 TCAGTATCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.08
18 20 0.53
19 13 0.34
20 2 0.05
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (18 bp):
ATCAGAACTAGAATCAAA
Found at i:28886994 original size:31 final size:31
Alignment explanation
Indices: 28886953--28887030 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
28886943 CTAGAATCAA
*
28886953 AATCAGAATCAGAATCAATATCAGGTAACAG
1 AATCAAAATCAGAATCAATATCAGGTAACAG
*
28886984 AATCAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAATATCAGGTAACAG
*
28887015 AATAAAAAATCAGAAT
1 AAT-CAAAATCAGAAT
28887031 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGAATCAATATCAGGTAACAG
Found at i:28886999 original size:6 final size:6
Alignment explanation
Indices: 28886936--28887007 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
28886926 AAGAAACATT
*
28886936 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCA-A TATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA
* *
28886985 ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAG
28887008 GTAACAGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.07
6 45 0.83
7 3 0.06
8 1 0.02
9 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:28887239 original size:67 final size:67
Alignment explanation
Indices: 28887131--28887286 Score: 240
Period size: 67 Copynumber: 2.3 Consensus size: 67
28887121 CACACCACAG
* * *
28887131 AAATTGCAGCGACGCTGCTAGATATTGTGACGAAGTCACCAGGACAGATATATGTGGCGAAGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
*
28887196 CT
66 CC
* *
28887198 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
28887263 CC
66 CC
* *
28887265 AGATTGCAGCGAGTCTGCCAGA
1 AAATTGCAGCGAGGCTGCCAGA
28887287 ACGCTTCCTC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 81 1.00
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
CC
Found at i:28887683 original size:81 final size:81
Alignment explanation
Indices: 28887589--28887888 Score: 476
Period size: 81 Copynumber: 3.7 Consensus size: 81
28887579 TAAAATGGTA
*
28887589 ATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
28887653 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCAGT
* * *
28887669 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
28887734 ACAGGGGTATTTTAGT
66 ACAGGGGTATTTCAGT
* * * *
28887750 AATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
28887815 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* * *
28887831 ACTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
28887889 TTATAAATCG
Statistics
Matches: 201, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
80 4 0.02
81 197 0.98
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:28887878 original size:27 final size:27
Alignment explanation
Indices: 28887585--28887888 Score: 419
Period size: 27 Copynumber: 11.3 Consensus size: 27
28887575 GGGGTAAAAT
* * *
28887585 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
28887612 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28887639 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28887666 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
28887693 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28887720 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28887747 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28887774 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28887801 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
28887828 AGTACTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28887855 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28887882 AGTAATT
1 GGTAATT
28887889 TTATAAATCG
Statistics
Matches: 250, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 250 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:28887902 original size:27 final size:26
Alignment explanation
Indices: 28887842--28888266 Score: 348
Period size: 27 Copynumber: 15.8 Consensus size: 26
28887832 CTTCTACCCT
* **
28887842 ACAAGGGTATTTCGGT-ATTTCTACCCT
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
** *
28887869 ACAAGGGTATTTCAGTAATTTTATAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* **** * *
28887895 ATCGAGGGTAAAACGGTAATTCTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
28887922 ATCAAGGGTACTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *** *
28887949 GTCGAGGGTATTTCAATAATTTTACAGG
1 -ACAAGGGTATTTTGGTAATTTTACA-A
* * * *
28887977 TCGAGGGTATTTTAGTAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
28888003 ATCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
28888030 ACTAAGGGTATTTTGATAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
28888057 ACCAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
28888084 ACTAGGGGTATTTTGGTAATCTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
28888111 ACAAAGGGTATTTTAGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
* **
28888138 ACCAGGGGTATTTTGGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
28888165 ACCAATGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
28888192 ACCAGGGTATTTTGGTGATTTTATAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* *
28888218 ACCAATGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
28888245 ACCAGGGGTATTTTGGTAATTT
1 A-CAAGGGTATTTTGGTAATTT
28888267 GGTAAACTAA
Statistics
Matches: 326, Mismatches: 62, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
26 25 0.08
27 295 0.90
28 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:28887903 original size:54 final size:54
Alignment explanation
Indices: 28887630--28887918 Score: 193
Period size: 54 Copynumber: 5.4 Consensus size: 54
28887620 TACCCTACAG
* * * * *
28887630 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTA-CCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTT-TATACAT-CGA
* * * *
28887684 GGGTATTTCGGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACA--G-
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTA---TACATCGA
** * *
28887738 GGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGT-ATTTCTACCCTACA--G-
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTT-TA---TACATCGA
* * * * * *
28887792 GGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGTACTTCTA-CCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTATACAT-CGA
* * *
28887846 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTTTATAAATCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTATACATCGA
***
28887900 GGGTAAAACGGTAATTCTA
1 GGGTATTTCGGTAATTCTA
28887919 TAAATCAAGG
Statistics
Matches: 185, Mismatches: 38, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
50 1 0.01
53 3 0.02
54 174 0.94
55 6 0.03
58 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTATACATCGA
Found at i:28888273 original size:27 final size:27
Alignment explanation
Indices: 28887909--28888266 Score: 394
Period size: 27 Copynumber: 13.3 Consensus size: 27
28887899 AGGGTAAAAC
* * * *
28887909 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *
28887936 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
** *** *
28887963 AATAATTTTACAGGTCGAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
28887990 AGTAATTTCACAAATCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
28888017 GGTAATTTTACAAACTAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
28888044 GATAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
28888071 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
28888098 GGTAATCTTATAAACAAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
28888125 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** *
28888152 GGTAATTTTGTAAACCAATGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
28888179 GGTAATTTTACAAACC-AGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
28888205 GGTGATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
28888232 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
28888259 GGTAATTT
1 GGTAATTT
28888267 GGTAAACTAA
Statistics
Matches: 280, Mismatches: 50, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.08
27 257 0.92
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:28889721 original size:93 final size:93
Alignment explanation
Indices: 28889608--28889779 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
28889598 CGCCCATAAG
* *
28889608 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
28889673 ACGACTTCGGATGCCTAGTTACATCTCA
66 ACGACTTCGGATGCCTAGTTACATCTCA
*
28889701 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
28889766 ACGAGTTCGGATGC
66 ACGACTTCGGATGC
28889780 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGACTTCGGATGCCTAGTTACATCTCA
Found at i:28889776 original size:46 final size:46
Alignment explanation
Indices: 28889601--28889776 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
28889591 TGCAACCCGC
* * *
28889601 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
28889647 CCATAAGTGAACTCGGACTCAACTCAACGACTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
28889697 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
28889740 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
28889777 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:28892165 original size:14 final size:15
Alignment explanation
Indices: 28892126--28892167 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
28892116 GAGTCACATA
*
28892126 ATTATTATTAAATAT
1 ATTATAATTAAATAT
28892141 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
28892155 A-TATAATTTAATA
1 ATTATAATTAAATA
28892168 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:28892234 original size:17 final size:16
Alignment explanation
Indices: 28892212--28892258 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
28892202 ACTCAAATCA
28892212 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
28892229 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
28892243 TAAATATATGATTTAA
1 T-AATATATGATTTAA
28892259 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:28892259 original size:17 final size:17
Alignment explanation
Indices: 28892231--28892264 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
28892221 ATTATAACTA
*
28892231 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
28892248 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
28892265 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:28892407 original size:93 final size:91
Alignment explanation
Indices: 28892297--28892490 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
28892287 GATTATAGTT
* *
28892297 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
28892360 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
28892390 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
28892455 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
28892481 TATGAATTTA
1 TATGAATTTA
28892491 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:28893903 original size:11 final size:11
Alignment explanation
Indices: 28893889--28893915 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
28893879 AAAAATCAAT
28893889 ACAAAAGTTTC
1 ACAAAAGTTTC
28893900 ACAAAAGTTTC
1 ACAAAAGTTTC
28893911 ACAAA
1 ACAAA
28893916 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:28896118 original size:15 final size:15
Alignment explanation
Indices: 28896098--28896128 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
28896088 ATATTATGTA
28896098 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
28896113 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
28896128 T
1 T
28896129 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:28904516 original size:46 final size:46
Alignment explanation
Indices: 28904449--28904620 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
28904439 TGTAACCCGC
*
28904449 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
28904495 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* *
28904545 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
28904588 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
28904621 TGGATGCTCA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:28904569 original size:93 final size:93
Alignment explanation
Indices: 28904456--28904627 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
28904446 CGCCCATAAG
*
28904456 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
28904521 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
28904549 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
28904614 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
28904628 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:28907435 original size:27 final size:26
Alignment explanation
Indices: 28907394--28907499 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 26
28907384 AGGAGGCGTC
28907394 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
28907421 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
28907448 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
28907476 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
28907500 TTCTAGCAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
26 3 0.04
27 51 0.72
28 17 0.24
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:28907498 original size:54 final size:54
Alignment explanation
Indices: 28907394--28907503 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 54
28907384 AGGAGGCGTC
*
28907394 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
28907448 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
28907502 CT
1 CT
28907504 AGCAGCCATG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.63
55 18 0.35
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:28908493 original size:16 final size:16
Alignment explanation
Indices: 28908472--28908503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28908462 AATGGGTGTA
*
28908472 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
28908488 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
28908504 ATAAAGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:28911527 original size:54 final size:54
Alignment explanation
Indices: 28911423--28911532 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
28911413 AGGAAGCGTC
* *
28911423 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCGGGTGCCTCTGCCACATATATCTGTT
* *
28911477 CTGGTGGCT-CTGCCACGATTATCTGTATCGGGTGCCTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCGGGTGCCTCTGCCACATATATCTGTT
28911531 CT
1 CT
28911533 AGCAGCCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.64
55 17 0.34
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCGGGTGCCTCTGCCACATATATCTGTT
Found at i:28911529 original size:27 final size:27
Alignment explanation
Indices: 28911423--28911529 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 27
28911413 AGGAAGCGTC
28911423 CTGGTGGCTAC-GCCACAATTATCTG-AT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTAT
28911450 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
28911477 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
28911505 CGGGTGCCTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
28911530 TCTAGCAGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
26 3 0.04
27 53 0.74
28 16 0.22
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:28919412 original size:27 final size:26
Alignment explanation
Indices: 28919307--28919418 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
28919297 AGGAAGCGTC
**
28919307 CTGGTGGCTAC-GCCACAATTATCTAAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTT
28919334 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
28919361 CTGGTGGCTCTCCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* **
28919389 CTGGTGACTCTGTAACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
28919415 CTGG
1 CTGG
28919419 CAACCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.11
27 51 0.69
28 15 0.20
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:28920633 original size:27 final size:27
Alignment explanation
Indices: 28920615--28920931 Score: 399
Period size: 27 Copynumber: 11.7 Consensus size: 27
28920605 ATTTTACCTC
*
28920615 ACAAGGGTATCTT-GGTAATTCTACCCT
1 ACAAGGGTAT-TTCAGTAATTCTACCCT
* * * *
28920642 ACATGGGTATTTCGGTATTTCTACACT
1 ACAAGGGTATTTCAGTAATTCTACCCT
* * *
28920669 ACAGGGGTATTTTAGTAATTCTACACT
1 ACAAGGGTATTTCAGTAATTCTACCCT
* *
28920696 ATAAGGGGTATTTCAATAATTCTACCCT
1 ACAA-GGGTATTTCAGTAATTCTACCCT
28920724 ACAAGGGTATTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCCT
*
28920751 ACAGGGGTATTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCCT
* *
28920778 ACAAGGGTATTTCGGTAATTCTACCTT
1 ACAAGGGTATTTCAGTAATTCTACCCT
* *
28920805 ACAGGGGTATTTTAGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCCT
28920832 ACAAGGGTATTTC-GATAATTCTACCCT
1 ACAAGGGTATTTCAG-TAATTCTACCCT
*
28920859 ACAGGGGTATTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCCT
*
28920886 ACAAGGGTATTTC-GATAATTCTACCTT
1 ACAAGGGTATTTCAG-TAATTCTACCCT
*
28920913 A-AAGGGGTATTTTAGTAAT
1 ACAA-GGGTATTTCAGTAAT
28920932 GTGTTAAACT
Statistics
Matches: 255, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.02
27 224 0.88
28 25 0.10
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
ACAAGGGTATTTCAGTAATTCTACCCT
Found at i:28920677 original size:54 final size:54
Alignment explanation
Indices: 28920615--28920931 Score: 447
Period size: 54 Copynumber: 5.9 Consensus size: 54
28920605 ATTTTACCTC
* * * *
28920615 ACAAGGGTATCTT-GGTAATTCTACCCTACATGGGTATTTCGGTATTTCTACACT
1 ACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* ** * * *
28920669 ACAGGGGTATTTTAGTAATTCTACACTATAAGGGGTATTTCAATAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTCAGTAATTCTACCCT
*
28920724 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
28920778 ACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
28920832 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* * * *
28920886 ACAAGGGTATTTCGATAATTCTACCTTAAAGGGGTATTTTAGTAAT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAAT
28920932 GTGTTAAACT
Statistics
Matches: 238, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 191 0.80
55 45 0.19
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
Found at i:28922172 original size:44 final size:43
Alignment explanation
Indices: 28922097--28922248 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
28922087 GATATGTGTC
* ** * *
28922097 TTTGTGCAAGACCACATCTGGGACGTTGGCATCAACT-TCTGTT
1 TTTGTGTAAGACCATGTCTGGGAC-ATGGCATCAACTATCTGAT
*
28922140 TTATGTGTAAGACCATGTCTGGGACATCGGCATC--GTATCTGAT
1 TT-TGTGTAAGACCATGTCTGGGACAT-GGCATCAACTATCTGAT
* * *
28922183 TTTGTGTAAGACCCTGTCTGGGACAATGGCATCAA-TGTTTGAT
1 TTTGTGTAAGACCATGTCTGGGAC-ATGGCATCAACTATCTGAT
*** *
28922226 TGCATGTAAGACCACGTCTGGGA
1 TTTGTGTAAGACCATGTCTGGGA
28922249 TGTTGGCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 25 0.28
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
TTTGTGTAAGACCATGTCTGGGACATGGCATCAACTATCTGAT
Found at i:28922201 original size:42 final size:43
Alignment explanation
Indices: 28922134--28922215 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
28922124 GGCATCAACT
*
28922134 TCTGTTTTATGTGTAAGACCATGTCTGGGAC-ATCGGCATCGTA
1 TCTGATTTATGTGTAAGACCATGTCTGGGACAAT-GGCATCGTA
*
28922177 TCTGATTT-TGTGTAAGACCCTGTCTGGGACAATGGCATC
1 TCTGATTTATGTGTAAGACCATGTCTGGGACAATGGCATC
28922216 AATGTTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (43 bp):
TCTGATTTATGTGTAAGACCATGTCTGGGACAATGGCATCGTA
Found at i:28925276 original size:79 final size:82
Alignment explanation
Indices: 28925165--28925349 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
28925155 GCTACTCGTT
* *
28925165 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28925228 GGATTTAGTAAC-TCGCA
65 GGATGTAGTAACTTAGCA
* **
28925245 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28925308 GATGTGGTCACTTAGCA
66 GATGTAGTAACTTAGCA
28925325 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28925350 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATGTAGTAACTTAGCA
Found at i:28925349 original size:40 final size:39
Alignment explanation
Indices: 28925165--28925349 Score: 223
Period size: 40 Copynumber: 4.7 Consensus size: 39
28925155 GCTACTCGTT
* *
28925165 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
28925205 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
28925245 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
28925284 CAAATGCCTTC-GGATCTTAGTCCGGATGTGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
28925325 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28925350 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 79 0.62
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:28952198 original size:28 final size:29
Alignment explanation
Indices: 28952166--28952227 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
28952156 TACATATATA
*
28952166 CATATGACCCACTAGGCCC-AATCTCATT
1 CATATGACCCACTAGGCCCAAATCACATT
* *
28952194 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGACCCACTAGGCCCAAATCACATT
28952223 CATAT
1 CATAT
28952228 TCATGCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.26
Consensus pattern (29 bp):
CATATGACCCACTAGGCCCAAATCACATT
Found at i:28953605 original size:28 final size:28
Alignment explanation
Indices: 28953565--28953621 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
28953555 CACAATTAAC
28953565 TATAAGGCTTATGTGCCTAAGCCTCAGT
1 TATAAGGCTTATGTGCCTAAGCCTCAGT
28953593 TATAAGGCTTATGTGCCTAAGCCTCAGT
1 TATAAGGCTTATGTGCCTAAGCCTCAGT
28953621 T
1 T
28953622 CTCTTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (28 bp):
TATAAGGCTTATGTGCCTAAGCCTCAGT
Found at i:28962491 original size:47 final size:47
Alignment explanation
Indices: 28962438--28962613 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
28962428 TTCAGATATT
28962438 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
* * *
28962485 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAAC
*
28962536 ---G--TTCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
* *
28962578 TAGGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCA
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
28962614 CTTATGGATG
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 28 0.25
47 62 0.56
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
Found at i:28962564 original size:46 final size:46
Alignment explanation
Indices: 28962491--28962666 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
28962481 TAACTAGGCA
28962491 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
28962537 TTCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
28962582 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
28962630 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28962667 GCAAGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:28962605 original size:93 final size:93
Alignment explanation
Indices: 28962445--28962658 Score: 392
Period size: 93 Copynumber: 2.3 Consensus size: 93
28962435 ATTTAGGCAT
28962445 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGA
*
28962510 GTCCGAGTTCACTTATGGATGCGAACGT
66 GTCCGAGTTCACTTATGGATGCGAACGC
* *
28962538 TCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTTGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGA
28962603 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
*
28962631 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
28962659 GCTTATGGGC
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 116 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAACGC
Found at i:28968151 original size:46 final size:46
Alignment explanation
Indices: 28968099--28968364 Score: 206
Period size: 46 Copynumber: 5.7 Consensus size: 46
28968089 TTGGGCATCC
*
28968099 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
* * * * * * * *
28968145 GAACTCGTTGAGTTGAGTCCGAG--CCCGTGA-GATATAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATG-GAT-GCGA-ACGTCT
* * *
28968192 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
* * * *
28968238 AAACTCGTTGAGTTGAGTCCGAG-T--C-TGTGAGATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G--TCT
* *
28968285 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
* *
28968331 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28968365 GCGGGTTACA
Statistics
Matches: 169, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
42 6 0.04
43 5 0.03
44 3 0.02
45 6 0.04
46 81 0.48
47 48 0.28
48 6 0.04
49 3 0.02
50 5 0.03
51 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
Found at i:28968308 original size:47 final size:47
Alignment explanation
Indices: 28968148--28968308 Score: 163
Period size: 47 Copynumber: 3.4 Consensus size: 47
28968138 AACGTCTGAA
* * *
28968148 CTCGTTGAGTTGAGTCCGAGCCCGTGAGATATAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTCTGTGAGATGTAACTAGGCATCCGAG
* * ** *
28968195 CTCGTTGAGTTGAGTCTGAGTTCACTTATG-GATGTGAAC---G--TCTAAA
1 CTCGTTGAGTTGAGTCCGAG-T--C-TGTGAGATGT-AACTAGGCATCCGAG
28968241 CTCGTTGAGTTGAGTCCGAGTCTGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTCTGTGAGATGTAACTAGGCATCCGAG
28968288 CTCGTTGAGTTGAGTCCGAGT
1 CTCGTTGAGTTGAGTCCGAGT
28968309 TCACTTATGG
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
42 6 0.07
43 6 0.07
45 2 0.02
46 22 0.24
47 43 0.48
48 1 0.01
50 5 0.06
51 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTCTGTGAGATGTAACTAGGCATCCGAG
Found at i:28968354 original size:93 final size:93
Alignment explanation
Indices: 28968092--28968354 Score: 436
Period size: 93 Copynumber: 2.8 Consensus size: 93
28968082 CGGGTATTTG
* *
28968092 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
*
28968157 TTGAGTCCGAGCCCGTGAGATATAACTA
66 TTGAGTCCGAGTCCGTGAGATATAACTA
* * *
28968185 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGTCTAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
* *
28968250 TTGAGTCCGAGTCTGTGAGATGTAACTA
66 TTGAGTCCGAGTCCGTGAGATATAACTA
* *
28968278 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
28968343 TTGAGTCCGAGT
66 TTGAGTCCGAGT
28968355 TCGCTTATGG
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTCCGTGAGATATAACTA
Found at i:28981344 original size:18 final size:18
Alignment explanation
Indices: 28981318--28981364 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
28981308 TATTTCACTC
* *
28981318 TCTTTTTCTTTTTTGCTT
1 TCTTTTTCTTTTTCGATT
*
28981336 TCTTATTCTTTTTCGATT
1 TCTTTTTCTTTTTCGATT
28981354 TCTTTTTCTTT
1 TCTTTTTCTTT
28981365 CATTTTTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (18 bp):
TCTTTTTCTTTTTCGATT
Found at i:28995083 original size:20 final size:21
Alignment explanation
Indices: 28995060--28995098 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
28995050 CATATCAAAT
28995060 AAATAAC-ATTAAGTTACTTA
1 AAATAACAATTAAGTTACTTA
* *
28995080 AAATGACAATTATGTTACT
1 AAATAACAATTAAGTTACT
28995099 ACATTTACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
AAATAACAATTAAGTTACTTA
Found at i:28998927 original size:20 final size:20
Alignment explanation
Indices: 28998902--28998964 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
28998892 CAAAAATAAG
28998902 GGCACACGCTCGTGCCTCCA
1 GGCACACGCTCGTGCCTCCA
28998922 GGCACACGCTCGTGCCTCCA
1 GGCACACGCTCGTGCCTCCA
* * *
28998942 GGCACATGTTCATGCCTCCA
1 GGCACACGCTCGTGCCTCCA
28998962 GGC
1 GGC
28998965 TATGTCCCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.16, C:0.41, G:0.25, T:0.17
Consensus pattern (20 bp):
GGCACACGCTCGTGCCTCCA
Found at i:29004833 original size:40 final size:40
Alignment explanation
Indices: 29004789--29004975 Score: 338
Period size: 40 Copynumber: 4.7 Consensus size: 40
29004779 CAACTCGCAC
*
29004789 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
29004829 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
29004869 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
29004909 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
29004949 AAATGCCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
29004976 TCATTCAAAT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:29013036 original size:40 final size:40
Alignment explanation
Indices: 29012981--29013132 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
29012971 ATAACCACAA
* * *
29012981 GCACAATTACCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
29013021 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * * *
29013061 GCACAAATGCCTTTGGGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
29013101 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
29013133 CATTCAAATG
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.95
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:29017000 original size:47 final size:47
Alignment explanation
Indices: 29016945--29017667 Score: 1131
Period size: 47 Copynumber: 15.4 Consensus size: 47
29016935 GATGTACAAG
* * *
29016945 GTGTGTATATGTGATAAGGCCGAGTGGCCAAGGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
29016992 GTGTGTATATGTGATAAGGCCGAGTGGCCAAGGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
29017039 GTGTGTATATGTGATAAGGCCGAGTGGCCAAGGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
29017086 GTGTGTATATGTGATAAGGCCGAGTGGCCAAGGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
29017133 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* ** *
29017180 GTGTGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29017227 GTGGATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
29017274 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29017321 GTGTATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
29017368 GTGTGTATATGTGTTAAAGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29017415 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAT
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29017462 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
29017509 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * * *
29017556 GTGTATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29017603 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29017650 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
29017668 TCCCGAAGGG
Statistics
Matches: 631, Mismatches: 45, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 631 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:29017263 original size:22 final size:22
Alignment explanation
Indices: 29017235--29017310 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
29017225 AAGTGGATAT
29017235 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
29017257 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
29017281 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
29017304 ATGTGAT
1 ATGTGAT
29017311 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:29017451 original size:22 final size:22
Alignment explanation
Indices: 29017423--29017545 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
29017413 AAGTGTATAT
29017423 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * **
29017445 ATGTGATGAATG-TGAATGTGTATA
1 ATGTGAT-AAGGCCGAATG-G-CCA
*
29017469 TATGTGATAAGGCCGAGTGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * * ***
29017492 ACGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
29017516 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
29017539 ATGTGAT
1 ATGTGAT
29017546 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 26 0.38
23 12 0.17
24 13 0.19
25 18 0.26
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:29019577 original size:40 final size:40
Alignment explanation
Indices: 29019522--29019791 Score: 479
Period size: 40 Copynumber: 6.8 Consensus size: 40
29019512 AGTATGTTAT
29019522 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
29019562 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
*
29019602 TCCGGGCTAAGTGCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
*
29019642 TCCGGGCTAAGTCCCGAAAAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
* *
29019682 TCTGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
*
29019722 TCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
*
29019762 TCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29019792 TGGACAAAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 11 0.05
40 208 0.95
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
Found at i:29020087 original size:25 final size:25
Alignment explanation
Indices: 29020037--29020087 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
29020027 TGTGTGACAA
* *
29020037 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
29020062 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
29020087 C
1 C
29020088 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:29023792 original size:47 final size:47
Alignment explanation
Indices: 29023733--29024172 Score: 670
Period size: 47 Copynumber: 9.4 Consensus size: 47
29023723 GATGTACAAG
* * *
29023733 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29023780 GTGTATATATGTGATAAGGGCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29023827 GTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29023874 GTGTATATATGTGATAAGGCC-AAGTGGCCAACGTGATGACTGTGAAA
1 GTGTATATATGTGATAAGGCCGAA-TGGCCAATGTGATGAATGTGAAA
29023921 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29023968 GTGTATATATGTGATAAGGCC-AAGTGGCCAACGTGATGACTGTGAAA
1 GTGTATATATGTGATAAGGCCGAA-TGGCCAATGTGATGAATGTGAAA
29024015 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG-ATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
29024061 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29024108 GTGTATATATGTGGTAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29024155 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
29024173 TCCCGAAGGG
Statistics
Matches: 359, Mismatches: 29, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
46 45 0.13
47 310 0.86
48 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:29025510 original size:12 final size:12
Alignment explanation
Indices: 29025493--29025542 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
29025483 AAGAAACATT
29025493 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
29025505 ATCAAAATGAGA
1 ATCAAAATCAGA
*
29025517 ATCAGAATCAGA
1 ATCAAAATCAGA
*
29025529 ATCAAAATTAGA
1 ATCAAAATCAGA
29025541 AT
1 AT
29025543 TAGGTGACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:29025520 original size:24 final size:24
Alignment explanation
Indices: 29025493--29025542 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
29025483 AAGAAACATT
29025493 ATCAAAA-CTAGAATCAAAATGAGA
1 ATCAAAATC-AGAATCAAAATGAGA
* *
29025517 ATCAGAATCAGAATCAAAATTAGA
1 ATCAAAATCAGAATCAAAATGAGA
29025541 AT
1 AT
29025543 TAGGTGACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (24 bp):
ATCAAAATCAGAATCAAAATGAGA
Found at i:29025559 original size:25 final size:25
Alignment explanation
Indices: 29025502--29025592 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
29025492 TATCAAAACT
*
29025502 AGAATCAAAATGAGAATCA-G-AATC
1 AGAATCAAAATTAGAATCAGGTAA-C
* *
29025526 AGAATCAAAATTAGAATTAGGTGAC
1 AGAATCAAAATTAGAATCAGGTAAC
*
29025551 AGAATCAAAATTAGTATCAGGTAAC
1 AGAATCAAAATTAGAATCAGGTAAC
* * *
29025576 AAAATCAGAATCAGAAT
1 AGAATCAAAATTAGAAT
29025593 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.31
25 37 0.67
26 1 0.02
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (25 bp):
AGAATCAAAATTAGAATCAGGTAAC
Found at i:29025748 original size:27 final size:26
Alignment explanation
Indices: 29025710--29025817 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
29025700 ATCATGGCTG
* *
29025710 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
29025736 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
29025763 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
29025790 CCAGAAACAAATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
29025817 C
1 C
29025818 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.15
27 53 0.75
28 7 0.10
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:29026004 original size:22 final size:22
Alignment explanation
Indices: 29025976--29026040 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
29025966 GCAAATACGT
*
29025976 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
29025998 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
29026020 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
29026041 AATAATCGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:29026622 original size:27 final size:27
Alignment explanation
Indices: 29026428--29026614 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
29026418 GGGGCAAAAT
* * *
29026428 GGTAATTTTACCCCACAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
* * *
29026455 AGTAATTCTAACCTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29026482 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29026509 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29026536 GGTATTTC-ACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29026562 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29026589 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
29026615 GAATAATTTT
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 24 0.18
27 112 0.82
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:29026638 original size:107 final size:105
Alignment explanation
Indices: 29026432--29026622 Score: 242
Period size: 107 Copynumber: 1.8 Consensus size: 105
29026422 CAAAATGGTA
* * *
29026432 ATTTTACCCCACAAGGGTATCTTAGTAATTCTAACCTAAAGGGGTATTTCGGTATTTCTACCCTA
1 ATTTCACCCCACAAGGGTATCTTAGTAATTCTAACCTAAAGGGGTATTTCAGTAATTCTACCCTA
* *
29026497 CAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGT
66 CAAGGGTATTTCGATAATTCT--CTTAAAGGGGTATTTCGGT
* * * *
29026539 ATTTCACCCTACAAGGGTAT-TTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCACCCCACAAGGGTATCTTAG-TAATTCTAACCTAAAGGGGTATTTCAGTAATTCTACCCT
*
29026603 ACAGGGGTATTT-GAATAATT
65 ACAAGGGTATTTCG-ATAATT
29026623 TTGTAAATCG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
106 4 0.05
107 69 0.95
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (105 bp):
ATTTCACCCCACAAGGGTATCTTAGTAATTCTAACCTAAAGGGGTATTTCAGTAATTCTACCCTA
CAAGGGTATTTCGATAATTCTCTTAAAGGGGTATTTCGGT
Found at i:29052676 original size:27 final size:27
Alignment explanation
Indices: 29052608--29052943 Score: 170
Period size: 27 Copynumber: 12.4 Consensus size: 27
29052598 AGAATTACTG
* ** *
29052608 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACAAA
* *
29052635 AATACCCCTGGTTTGTAAAATTACAAA
1 AATACCCTTGATTTGTAAAATTACAAA
* * * * *
29052662 AATACCCCTGGTTTGTGAAATGACCAA
1 AATACCCTTGATTTGTAAAATTACAAA
* ** ** * * *
29052689 AACACCCTCAACCTATAAACTTACCAA
1 AATACCCTTGATTTGTAAAATTACAAA
* *
29052716 AATA-CCTATGACTTGTAAAATTACTAA
1 AATACCCT-TGATTTGTAAAATTACAAA
** *
29052743 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACAAA
* * ***
29052770 AATACCCTTAATTTGAAAAATTATTGA
1 AATACCCTTGATTTGTAAAATTACAAA
* * * *
29052797 AATACCCTTAATTTGGAAAATTATAGA
1 AATACCCTTGATTTGTAAAATTACAAA
* ** * *
29052824 AATACCCCTGATTTACATAATTACAAG
1 AATACCCTTGATTTGTAAAATTACAAA
* * * *
29052851 AATACCCTTAACTTTCTAAAAATTATAGA
1 AATACCCTTGA-TTTGT-AAAATTACAAA
* * * *
29052880 AATACCATTGGTTTGCAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACAAA
* * * * *
29052907 AATACCATTGGTTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACAAA
*
29052934 AACACCCTTG
1 AATACCCTTG
29052944 TAGGTGAAAT
Statistics
Matches: 239, Mismatches: 66, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
26 3 0.01
27 212 0.89
28 9 0.04
29 15 0.06
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACAAA
Found at i:29052758 original size:81 final size:81
Alignment explanation
Indices: 29052628--29052777 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
29052618 GTTTACAAAA
* ** ** *
29052628 TTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCTGGTTTGTGAAATGACCAAAACA
1 TTACCAAAATACCCATGACTTGTAAAATTACAAAAATACCCCTAATTTGTAAAATGACCAAAACA
29052693 CCCTCAACCTATAAAC
66 CCCTCAACCTATAAAC
* * * *
29052709 TTACCAAAATACCTATGACTTGTAAAATTACTAAAATA-CCCTCAATTTGTAAAATTACCAAAAT
1 TTACCAAAATACCCATGACTTGTAAAATTACAAAAATACCCCT-AATTTGTAAAATGACCAAAAC
29052773 ACCCT
65 ACCCT
29052778 TAATTTGAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.07
81 54 0.93
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (81 bp):
TTACCAAAATACCCATGACTTGTAAAATTACAAAAATACCCCTAATTTGTAAAATGACCAAAACA
CCCTCAACCTATAAAC
Found at i:29052790 original size:54 final size:54
Alignment explanation
Indices: 29052608--29052912 Score: 192
Period size: 54 Copynumber: 5.6 Consensus size: 54
29052598 AGAATTACTG
* * ** *
29052608 AATACCCTTGGTTT-ACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACAAA
1 AATACCCTTGATTTGA-AAAATTACTAAAATACCCTC-AATTTGTAAAATTACCAA
* * ** * * * ** * *
29052662 AATACCCCTGGTTTGTGAAATGACCAAAACACCCTCAACCTATAAACTTACCAA
1 AATACCCTTGATTTGAAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
* *
29052716 AATA-CCTATGACTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
1 AATACCCT-TGATTTGAAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
* * * * * *
29052770 AATACCCTTAATTTGAAAAATTATTGAAATACCCTTAATTTGGAAAATTA-TAGA
1 AATACCCTTGATTTGAAAAATTACTAAAATACCCTCAATTTGTAAAATTACCA-A
* * * * *
29052824 AATACCCCTGATTT-ACATAATTAC-AAGAATACCCTTAACTTTCTAAAAATTA-TAGA
1 AATACCCTTGATTTGA-AAAATTACTAA-AATACCCTCAA-TTTGT-AAAATTACCA-A
* * *
29052880 AATACCATTGGTTTGCAAAATTACTAAAATACC
1 AATACCCTTGATTTGAAAAATTACTAAAATACC
29052913 ATTGGTTTGT
Statistics
Matches: 197, Mismatches: 43, Indels: 20
0.76 0.17 0.08
Matches are distributed among these distances:
53 5 0.03
54 148 0.75
55 7 0.04
56 35 0.18
57 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATACCCTTGATTTGAAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
Found at i:29052800 original size:81 final size:83
Alignment explanation
Indices: 29052715--29052912 Score: 203
Period size: 81 Copynumber: 2.4 Consensus size: 83
29052705 AAACTTACCA
* * **
29052715 AAATACCTATGACTTGTAAAATTACTAAAATA-CCCTCAATTTGTAAAATTACCAA-AATACCCT
1 AAATACCTATGATTTGCAAAATTACTAAAATACCCCT-AATTTACAAAATTA-CAAGAATACCCT
*
29052778 TAA-TTT-GAAAAATTATTG
64 TAACTTTCGAAAAATTATAG
* * * *
29052796 AAATACCCT-TAATTTGGAAAATTA-TAGAAATACCCCTGATTTACATAATTACAAGAATACCCT
1 AAATA-CCTATGATTTGCAAAATTACTA-AAATACCCCTAATTTACAAAATTACAAGAATACCCT
*
29052859 TAACTTTCTAAAAATTATAG
64 TAACTTTCGAAAAATTATAG
*
29052879 AAATACC-ATTGGTTTGCAAAATTACTAAAATACC
1 AAATACCTA-TGATTTGCAAAATTACTAAAATACC
29052913 ATTGGTTTGT
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
80 5 0.05
81 43 0.45
82 12 0.12
83 34 0.35
84 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (83 bp):
AAATACCTATGATTTGCAAAATTACTAAAATACCCCTAATTTACAAAATTACAAGAATACCCTTA
ACTTTCGAAAAATTATAG
Found at i:29052941 original size:83 final size:81
Alignment explanation
Indices: 29052732--29052942 Score: 219
Period size: 83 Copynumber: 2.6 Consensus size: 81
29052722 TATGACTTGT
** *
29052732 AAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTAATTTGAAAAATTATTGA
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTAATTTGAAAAATTATAGA
* *
29052797 AATACCCTTAATTTGG
66 AATACCATTAATTTGC
* ** * *
29052813 AAAATTA-TAGAAATACCCCTGATTTACATAATTA-CAAGAATACCCTTAACTTTCTAAAAATTA
1 AAAATTACTA-AAATACCCTTGATTTGTAAAATTACCAA-AATACCCTTAA-TTT-GAAAAATTA
**
29052876 TAGAAATACCATTGGTTTGC
62 TAGAAATACCATTAATTTGC
* * * * *
29052896 AAAATTACTAAAATACCATTGGTTTGTAGATTTACCAAAACACCCTT
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTT
29052943 GTAGGTGAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
80 5 0.05
81 36 0.35
82 3 0.03
83 55 0.53
84 5 0.05
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTAATTTGAAAAATTATAGA
AATACCATTAATTTGC
Found at i:29053037 original size:27 final size:27
Alignment explanation
Indices: 29052973--29053037 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
29052963 GCCCCTAATA
* * * *
29052973 GGTAAAAAGACCGTAATGCCCTTGTAG
1 GGTAAAATGATCGTAATACCCCTGTAG
* *
29053000 GGTAAAGTGATCGTAATACCCCTGTAT
1 GGTAAAATGATCGTAATACCCCTGTAG
29053027 GGTAAAATGAT
1 GGTAAAATGAT
29053038 GATTATGCCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (27 bp):
GGTAAAATGATCGTAATACCCCTGTAG
Found at i:29053220 original size:27 final size:27
Alignment explanation
Indices: 29053180--29053233 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29053170 AAGTTTTGTA
29053180 CTGGTGACTATGCCAC-ATTCACTGTTT
1 CTGGTGACTATGCCACAATT-ACTGTTT
* *
29053207 CTGGTGGCTTTGCCACAATTACTGTTT
1 CTGGTGACTATGCCACAATTACTGTTT
29053234 ATGGAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (27 bp):
CTGGTGACTATGCCACAATTACTGTTT
Found at i:29055121 original size:27 final size:27
Alignment explanation
Indices: 29055090--29055267 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29055080 TAAATTGTAC
29055090 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29055117 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29055143 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29055171 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29055199 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
29055226 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29055253 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29055268 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29055151 original size:54 final size:55
Alignment explanation
Indices: 29055090--29055267 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
29055080 TAAATTGTAC
* *
29055090 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
* * * * *
29055145 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
29055199 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
*
29055253 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29055268 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
54 61 0.58
55 44 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:29055204 original size:82 final size:81
Alignment explanation
Indices: 29055091--29055246 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29055081 AAATTGTACA
* *
29055091 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
29055155 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29055172 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
29055237 TGCGAGTTGA
65 TGCGAATTGA
29055247 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29055258 original size:82 final size:81
Alignment explanation
Indices: 29055087--29055267 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
29055077 GATTAAATTG
* *
29055087 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29055152 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29055168 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29055232 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29055250 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29055268 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29064833 original size:28 final size:29
Alignment explanation
Indices: 29064793--29064875 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 29
29064783 ACTATATTGT
* * *
29064793 TACTGCATTGGGCTTAGGCCCA-TACTGC
1 TACTGTATAGGGCTTAGGCCCACTACTGA
29064821 TACTGTATAGGGCTTAGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTTAGGCCC--AC--TACTGA
29064854 TACTGTATAGGGCTTAGGCCCA
1 TACTGTATAGGGCTTAGGCCCA
29064876 AACCGTACAG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
28 19 0.40
30 1 0.02
31 1 0.02
33 26 0.55
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (29 bp):
TACTGTATAGGGCTTAGGCCCACTACTGA
Found at i:29064858 original size:33 final size:33
Alignment explanation
Indices: 29064815--29064926 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 33
29064805 CTTAGGCCCA
*
29064815 TACTGCTACTGTATAGGGCTTAGGCCCAGACTG
1 TACTGATACTGTATAGGGCTTAGGCCCAGACTG
* *
29064848 TACTGATACTGTATAGGGCTTAGGCCCAAACCG
1 TACTGATACTGTATAGGGCTTAGGCCCAGACTG
* * * * *
29064881 TACAGATACTGAATAGGGCTTTGGCCTAGACTA
1 TACTGATACTGTATAGGGCTTAGGCCCAGACTG
29064914 TACTGATACTGTA
1 TACTGATACTGTA
29064927 AAAATGTAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
TACTGATACTGTATAGGGCTTAGGCCCAGACTG
Found at i:29065380 original size:30 final size:30
Alignment explanation
Indices: 29065323--29065380 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29065313 TTTTCGAGCA
* * **
29065323 TAGGGGCAAAATTGTTAATTTGTCAAAGTC
1 TAGGGGCAAAATGGTCAATTTACCAAAGTC
*
29065353 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCAATTTACCAAAG
29065381 ATGTGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCAATTTACCAAAGTC
Found at i:29065885 original size:30 final size:30
Alignment explanation
Indices: 29065828--29065885 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29065818 TTTTCGAGCA
* * **
29065828 TAGGGGCAAAATTGTTAATTTGTCAAAGTC
1 TAGGGGCAAAATGGTCAATTTACCAAAGTC
*
29065858 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCAATTTACCAAAG
29065886 ATGTGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCAATTTACCAAAGTC
Found at i:29066210 original size:505 final size:505
Alignment explanation
Indices: 29065260--29066269 Score: 2020
Period size: 505 Copynumber: 2.0 Consensus size: 505
29065250 TCTATAAGAG
29065260 AAAAAATAGTTCAATTAGGCCTAAGATACAAAGAAATTCGATAAAAAAATTGATTTTCGAGCATA
1 AAAAAATAGTTCAATTAGGCCTAAGATACAAAGAAATTCGATAAAAAAATTGATTTTCGAGCATA
29065325 GGGGCAAAATTGTTAATTTGTCAAAGTCTAGGGGCAAAATGGTCATTTTACCAAAGATGTGAATT
66 GGGGCAAAATTGTTAATTTGTCAAAGTCTAGGGGCAAAATGGTCATTTTACCAAAGATGTGAATT
29065390 TATAATTGCCTAATTGTAACTAGTGACTAAATGAGTGTATATTGCTATTATAGATCAAGAATTAC
131 TATAATTGCCTAATTGTAACTAGTGACTAAATGAGTGTATATTGCTATTATAGATCAAGAATTAC
29065455 CAAATCCGAACCTAGATCGGGGGAAGGCCAAGCAAACATCTAGACCGAATAGCCAATTAATTTTT
196 CAAATCCGAACCTAGATCGGGGGAAGGCCAAGCAAACATCTAGACCGAATAGCCAATTAATTTTT
29065520 GTAAACCGAGGTAAGTTGTATGTAAATGATACAACTACACTGTTAATACTTGTATTCATATTGCC
261 GTAAACCGAGGTAAGTTGTATGTAAATGATACAACTACACTGTTAATACTTGTATTCATATTGCC
29065585 ATTGAATTGATATTGTGTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAA
326 ATTGAATTGATATTGTGTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAA
29065650 TAGAGATATCCCGTTGAAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTT
391 TAGAGATATCCCGTTGAAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTT
29065715 GTGCGCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
456 GTGCGCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
29065765 AAAAAATAGTTCAATTAGGCCTAAGATACAAAGAAATTCGATAAAAAAATTGATTTTCGAGCATA
1 AAAAAATAGTTCAATTAGGCCTAAGATACAAAGAAATTCGATAAAAAAATTGATTTTCGAGCATA
29065830 GGGGCAAAATTGTTAATTTGTCAAAGTCTAGGGGCAAAATGGTCATTTTACCAAAGATGTGAATT
66 GGGGCAAAATTGTTAATTTGTCAAAGTCTAGGGGCAAAATGGTCATTTTACCAAAGATGTGAATT
29065895 TATAATTGCCTAATTGTAACTAGTGACTAAATGAGTGTATATTGCTATTATAGATCAAGAATTAC
131 TATAATTGCCTAATTGTAACTAGTGACTAAATGAGTGTATATTGCTATTATAGATCAAGAATTAC
29065960 CAAATCCGAACCTAGATCGGGGGAAGGCCAAGCAAACATCTAGACCGAATAGCCAATTAATTTTT
196 CAAATCCGAACCTAGATCGGGGGAAGGCCAAGCAAACATCTAGACCGAATAGCCAATTAATTTTT
29066025 GTAAACCGAGGTAAGTTGTATGTAAATGATACAACTACACTGTTAATACTTGTATTCATATTGCC
261 GTAAACCGAGGTAAGTTGTATGTAAATGATACAACTACACTGTTAATACTTGTATTCATATTGCC
29066090 ATTGAATTGATATTGTGTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAA
326 ATTGAATTGATATTGTGTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAA
29066155 TAGAGATATCCCGTTGAAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTT
391 TAGAGATATCCCGTTGAAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTT
29066220 GTGCGCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
456 GTGCGCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
29066270 GCCAGTGTAA
Statistics
Matches: 505, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 505 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (505 bp):
AAAAAATAGTTCAATTAGGCCTAAGATACAAAGAAATTCGATAAAAAAATTGATTTTCGAGCATA
GGGGCAAAATTGTTAATTTGTCAAAGTCTAGGGGCAAAATGGTCATTTTACCAAAGATGTGAATT
TATAATTGCCTAATTGTAACTAGTGACTAAATGAGTGTATATTGCTATTATAGATCAAGAATTAC
CAAATCCGAACCTAGATCGGGGGAAGGCCAAGCAAACATCTAGACCGAATAGCCAATTAATTTTT
GTAAACCGAGGTAAGTTGTATGTAAATGATACAACTACACTGTTAATACTTGTATTCATATTGCC
ATTGAATTGATATTGTGTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAA
TAGAGATATCCCGTTGAAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTT
GTGCGCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
Found at i:29066296 original size:47 final size:45
Alignment explanation
Indices: 29066224--29066563 Score: 249
Period size: 47 Copynumber: 7.3 Consensus size: 45
29066214 CGATTTGTGC
* *
29066224 GCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * *
29066270 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCCAGACA--AGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG---CCACATATGAGA
* * * * *
29066318 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * *
29066364 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATATGAGA
* * *
29066412 GCCAGTGTAAGACACGTCTGGGACATGCATCGGCCTTGACA-AAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATATGAGA
* * * * * * *
29066459 GCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATG-AGA
* * * *
29066503 GCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--ATATGAGA
29066551 GCCAGTGTAAGAC
1 GCCAGTGTAAGAC
29066564 CGTGAGTTGT
Statistics
Matches: 228, Mismatches: 45, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
43 6 0.03
44 31 0.14
45 1 0.00
46 37 0.16
47 87 0.38
48 57 0.25
49 4 0.02
50 1 0.00
51 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
Found at i:29066388 original size:94 final size:92
Alignment explanation
Indices: 29066227--29067044 Score: 442
Period size: 94 Copynumber: 8.8 Consensus size: 92
29066217 TTTGTGCGCC
* * * * * *
29066227 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
*
29066292 GACATGGCATCGGTATCCAGACAAGGGCT
66 GACATGGCATCGGTA--CAGAGAAGGGCT
*
29066321 AGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* * *
29066386 GACATGGCATCGGCACAGAGATGAGTGCC
66 GACATGGCATCGGTACAGAGA--AGGGCT
* * * * * * *
29066415 AGTGTAAGACACGTCTGGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGA-CGTGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTATGATAGCCAGTGTAAGACCATGTCTG
* ** *
29066479 GGACAT-GCTTCGGCTA-AGAGTTGTGCT
65 GGACATGGCATCGG-TACAGAGAAGGGCT
* * * * **
29066506 AGTATAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCGTGAG
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGATAGCCAGTGTAAGACCATGTC
* * * ** * ** * *
29066570 T-TGTCAAGTTATC--AATTGAGAATGTCT
63 TGGGACATGGCATCGGTACAGAGAAGGGCT
* * * * * * * * * * ** * * *
29066597 AGTAATATTTGAGATAAT-AGAGATATCCCGTTGAAACAT--TA-GAATA-CGAACTG---GA-T
1 AGT-GTA--AGACAT-GTCTGGGACAT-GC-ATCAGCCATACTATG-ATAGC-CAGTGTAAGACC
* * * * *** *
29066653 AT-TC-GTGCCAAGGCATTGG-AC-GATTTGTGCGCC
58 ATGTCTGGGACATGGCATCGGTACAGAGAAG-G-GCT
* * * * *
29066686 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
*
29066751 GACATGGCATCGGTATCCAGACAAGGGCT
66 GACATGGCATCGGTA--CAGAGAAGGGCT
*
29066780 AGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* * * *
29066845 GACATGGCATTGGCACAGAGATGAGTGCC
66 GACATGGCATCGGTACAGAGA--AGGGCT
* * * * * * *
29066874 AGTGTAAGACACGTCTGGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGA-CGTGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTATGATAGCCAGTGTAAGACCATGTCTG
* ** *
29066938 GGACAT-GCTTCGGCTA-AGAGTTGTGCT
65 GGACATGGCATCGG-TACAGAGAAGGGCT
* * *
29066965 AGTATAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGATAGCCAGTGTAAGACCATGTC
29067029 TGGGACATGGCATCGG
63 TGGGACATGGCATCGG
29067045 CAATATATCC
Statistics
Matches: 543, Mismatches: 134, Indels: 94
0.70 0.17 0.12
Matches are distributed among these distances:
84 4 0.01
85 2 0.00
86 16 0.03
87 12 0.02
88 5 0.01
89 8 0.01
90 3 0.01
91 74 0.14
92 66 0.12
93 45 0.08
94 261 0.48
95 42 0.08
96 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGTACAGAGAAGGGCT
Found at i:29066477 original size:141 final size:138
Alignment explanation
Indices: 29066224--29066564 Score: 318
Period size: 141 Copynumber: 2.4 Consensus size: 138
29066214 CGATTTGTGC
* ** *
29066224 GCCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCACGTC
* * *
29066289 TGGGACATGGCATCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCA
66 TGGGACATGGCATCGG--TCCAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCGTCAGCCA
29066354 TACTATGATA
129 TACTATGATA
* *
29066364 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGTGCCAGTGTAAGA-CAC
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACA-AGATGAGAGCCAGTGTAAGACCAC
* * *
29066427 GTCTGGGACAT-GCATCGG-CCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTC
63 GTCTGGGACATGGCATCGGTCC-AGAC-AAG--AGCCAGTGTAAGACATGTCTAGGACATGCGTC
* * * *
29066490 GGCTAAGAGT-TG-T-
124 AGC-CATACTATGATA
* * * * * * *
29066503 GCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACC
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGC-CAC-AAGATGAGAGCCAGTGTAAGACC
29066565 GTGAGTTGTC
Statistics
Matches: 166, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
137 8 0.05
138 17 0.10
139 33 0.20
140 21 0.13
141 61 0.37
142 26 0.16
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (138 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCACGTC
TGGGACATGGCATCGGTCCAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCGTCAGCCATA
CTATGATA
Found at i:29066754 original size:47 final size:45
Alignment explanation
Indices: 29066683--29067045 Score: 277
Period size: 47 Copynumber: 7.8 Consensus size: 45
29066673 CGATTTGTGC
*
29066683 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * *
29066729 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCCAGACA--AGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG---CCACATATGAGA
* * * * *
29066777 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * * *
29066823 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATATGAGA
* * *
29066871 GCCAGTGTAAGACACGTCTGGGACATGCATCGGCCTTGACA-AAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATATGAGA
* * * * * * *
29066918 GCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATG-AGA
* * * *
29066962 GCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--ATATGAGA
29067010 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
29067046 AATATATCCC
Statistics
Matches: 247, Mismatches: 47, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.02
44 31 0.13
45 1 0.00
46 36 0.15
47 88 0.36
48 55 0.22
49 18 0.07
50 8 0.03
51 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
Found at i:29066936 original size:141 final size:135
Alignment explanation
Indices: 29066683--29067045 Score: 376
Period size: 141 Copynumber: 2.6 Consensus size: 135
29066673 CGATTTGTGC
*
29066683 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCACA-TTATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATT-GG-CACAGATATGAGAGCCAGTGTAAGACCATG
* * *
29066746 TCTGGGACATGGCATCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
64 TCTGGGACATGGCATCGG---CCAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCGTCAGC
* *
29066811 -CATACTATGAT
126 TAAGACT-TG-T
* * *
29066822 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGTGCCAGTGTAAGA-CAC
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCACAGATATGAGAGCCAGTGTAAGACCAT
* * * *
29066886 GTCTGGGACAT-GCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCG
63 GTCTGGGACATGGCATCGGCC-AGAC-AAG--AGCCAGTGTAAGACATGTCTAGGACATGCGTCA
*
29066950 GCTAAGAGTTGT
124 GCTAAGACTTGT
* * ** *
29066962 GCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCAC-AG-ATATGAGAGCCAGTGTAAGACCATG
29067027 TCTGGGACATGGCATCGGC
64 TCTGGGACATGGCATCGGC
29067046 AATATATCCC
Statistics
Matches: 188, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 10 0.05
138 18 0.10
139 31 0.16
140 33 0.18
141 70 0.37
142 24 0.13
143 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (135 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTGGCACAGATATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCCAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCGTCAGCTAAGA
CTTGT
Found at i:29066964 original size:459 final size:459
Alignment explanation
Indices: 29066106--29067023 Score: 1818
Period size: 459 Copynumber: 2.0 Consensus size: 459
29066096 TTGATATTGT
29066106 GTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAATAGAGATATCCCGTTG
1 GTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAATAGAGATATCCCGTTG
29066171 AAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTTGTGCGCCAGTGTAAGA
66 AAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTTGTGCGCCAGTGTAAGA
29066236 CATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
131 CATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
29066301 TCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGC
196 TCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGC
29066366 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACACGTCT
261 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACACGTCT
29066431 GGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTAA
326 GGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTAA
29066496 GAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAA
391 GAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAA
29066561 GACC
456 GACC
29066565 GTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAATAGAGATATCCCGTTG
1 GTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAATAGAGATATCCCGTTG
29066630 AAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTTGTGCGCCAGTGTAAGA
66 AAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTTGTGCGCCAGTGTAAGA
*
29066695 CATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
131 CATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
29066760 TCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGC
196 TCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGC
*
29066825 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGTGCCAGTGTAAGACACGTCT
261 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACACGTCT
29066890 GGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTAA
326 GGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTAA
29066955 GAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAA
391 GAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAA
29067020 GACC
456 GACC
29067024 ATGTCTGGGA
Statistics
Matches: 457, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
459 457 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (459 bp):
GTGAGTTGTCAAGTTATCAATTGAGAATGTCTAGTAATATTTGAGATAATAGAGATATCCCGTTG
AAACATTAGAATACGAACTGGATATTCGTGCCAAGGCATTGGACGATTTGTGCGCCAGTGTAAGA
CATGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
TCGGTATCCAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATAGC
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACACGTCT
GGGACATGCATCGGCCTTGACAAAGATAGCCAGTGTAAGACGTGTCTAGGACATGCTTCGGCTAA
GAGTTGTGCTAGTATAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAA
GACC
Found at i:29067517 original size:57 final size:57
Alignment explanation
Indices: 29067445--29067558 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
29067435 TGAAAAGTGG
*
29067445 CATGTATAGGTCTAGACTAGGATGTTATTTTAAGAGAATGATTCATTTATTTTGGCT
1 CATGTATAGGGCTAGACTAGGATGTTATTTTAAGAGAATGATTCATTTATTTTGGCT
29067502 CATGTATAGGGCTAGACTAGGATGTTATTTTAAGAGAATGATTCATTTATTTTGGCT
1 CATGTATAGGGCTAGACTAGGATGTTATTTTAAGAGAATGATTCATTTATTTTGGCT
29067559 TAAGTCATAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (57 bp):
CATGTATAGGGCTAGACTAGGATGTTATTTTAAGAGAATGATTCATTTATTTTGGCT
Found at i:29070323 original size:18 final size:18
Alignment explanation
Indices: 29070300--29070336 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
29070290 GCACATACAT
29070300 ACTCATTAAATTGAACCA
1 ACTCATTAAATTGAACCA
29070318 ACTCATTAAATTGAACCA
1 ACTCATTAAATTGAACCA
29070336 A
1 A
29070337 TCTCTTGCAT
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:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
ACTCATTAAATTGAACCA
Found at i:29088048 original size:40 final size:40
Alignment explanation
Indices: 29087992--29088155 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
29087982 ACTAAGATCT
*
29087992 GAAGGCA-GTTGTGCGAGTTACTATATCCGGGCTATGTCCC
1 GAAGGCATG-TGTGCGAGTTACTATATCCGGGCTAAGTCCC
* *
29088032 AAAGGCATGTGTGCGAGTTACTATACCCGGGCTAAGTCCC
1 GAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* * *
29088072 GAAGGCATTTGTGCGAGTTGCTATAACCGGGCTAAGTCCC
1 GAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* * *
29088112 GAAGGCATTTGTGCGAGTTGCTATATCCGGG-TAAATCCC
1 GAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGTCCC
29088151 GAAGG
1 GAAGG
29088156 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
39 12 0.11
40 101 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGTCCC
Found at i:29095299 original size:40 final size:40
Alignment explanation
Indices: 29095251--29095456 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
29095241 GGACTAAGAT
*
29095251 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
29095291 CTGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
29095331 CCGAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29095371 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
29095411 CCGAAGGCAATTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29095450 CCGAAGG
1 CCGAAGG
29095457 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:29097368 original size:22 final size:23
Alignment explanation
Indices: 29097343--29097385 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
29097333 TTTCCCCGAA
*
29097343 TGGAGTGTAG-GGTTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
29097365 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
29097386 GTAGGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.53, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:29102022 original size:40 final size:40
Alignment explanation
Indices: 29101975--29102051 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
29101965 TCGATATATT
*
29101975 GCACACTAAATGTTATACATAGCCGAAGCTATCTCGAATC
1 GCACACTAAATGTCATACATAGCCGAAGCTATCTCGAATC
* * **
29102015 GCACACTAAGTGTCATATATAGTTGAAGCTATCTCGA
1 GCACACTAAATGTCATACATAGCCGAAGCTATCTCGA
29102052 TCTTGCATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (40 bp):
GCACACTAAATGTCATACATAGCCGAAGCTATCTCGAATC
Found at i:29102076 original size:41 final size:40
Alignment explanation
Indices: 29101999--29102081 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 40
29101989 ATACATAGCC
* *
29101999 GAAGCTATCTCGAATCGCACACTAAGTGTCATATATAGTT
1 GAAGCTATCTCGAATCGCACACTAAGTGCCACATATAGTT
*
29102039 GAAGCTATCTCG-ATCTTGCATACTAAGTGCCACATATAGTT
1 GAAGCTATCTCGAATC--GCACACTAAGTGCCACATATAGTT
29102080 GA
1 GA
29102082 TTTGTCGCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.08
40 12 0.32
41 23 0.61
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (40 bp):
GAAGCTATCTCGAATCGCACACTAAGTGCCACATATAGTT
Found at i:29104172 original size:40 final size:40
Alignment explanation
Indices: 29104128--29104389 Score: 342
Period size: 39 Copynumber: 6.7 Consensus size: 40
29104118 GCTCCTCGTT
* *
29104128 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
29104168 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29104208 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29104247 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29104286 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
29104325 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
29104366 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29104390 CATCATTCAA
Statistics
Matches: 204, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 66 0.32
41 10 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:29112437 original size:27 final size:26
Alignment explanation
Indices: 29112420--29112489 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
29112410 ATATTAAGTC
29112420 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
29112447 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
29112475 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
29112490 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:29112483 original size:28 final size:28
Alignment explanation
Indices: 29112420--29112517 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
29112410 ATATTAAGTC
*
29112420 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29112447 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29112475 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29112504 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29112518 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29112975 original size:2 final size:2
Alignment explanation
Indices: 29112968--29112997 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
29112958 CATACTTATG
*
29112968 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29112998 CTTCGGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29121952 original size:41 final size:40
Alignment explanation
Indices: 29121843--29121952 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
29121833 GAATGCTCGA
*
29121843 TATCTTGCACACTAAGTGCAGTACATAGCCGAAGCTATCTC
1 TATCTCGCACACTAAGTGCA-TACATAGCCGAAGCTATCTC
** * *
29121884 -AAATCGTACACTAAGTGCCATATATAGCCGAAGCTATCTC
1 TATCTCGCACACTAAGTG-CATACATAGCCGAAGCTATCTC
*
29121924 TATCTCGCACACTAAGTGCTACACATAGC
1 TATCTCGCACACTAAGTGC-ATACATAGC
29121953 TGATTTGTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 33 0.59
41 23 0.41
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
TATCTCGCACACTAAGTGCATACATAGCCGAAGCTATCTC
Found at i:29132250 original size:21 final size:23
Alignment explanation
Indices: 29132210--29132257 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
29132200 GTTCTTTTAG
29132210 TTGAATTTTCAATGTATTGACTA
1 TTGAATTTTCAATGTATTGACTA
*
29132233 TTGACTTTTC-AT-TATTGACTA
1 TTGAATTTTCAATGTATTGACTA
29132254 TTGA
1 TTGA
29132258 GTGCTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.50
Consensus pattern (23 bp):
TTGAATTTTCAATGTATTGACTA
Found at i:29132396 original size:221 final size:221
Alignment explanation
Indices: 29132013--29132446 Score: 852
Period size: 221 Copynumber: 2.0 Consensus size: 221
29132003 CCTATGGTAA
29132013 TGACTTTTCATTATTGACTATTGAGTGCTTCATTTATTGTCCTTAAACACCTCGAGTTGTTTGAG
1 TGACTTTTCATTATTGACTATTGAGTGCTTCATTTATTGTCCTTAAACACCTCGAGTTGTTTGAG
29132078 TGAATCTGTAGTGAGGATCTGAAACTCTGTGATATTTTGAATCAATGGTAACTACTTAGATGAGG
66 TGAATCTGTAGTGAGGATCTGAAACTCTGTGATATTTTGAATCAATGGTAACTACTTAGATGAGG
29132143 GGAGACACCTATGTTTGCATGATTAAATACTCAACTTGGAATGTTTGAAACTTTTATGTTCTTTT
131 GGAGACACCTATGTTTGCATGATTAAATACTCAACTTGGAATGTTTGAAACTTTTATGTTCTTTT
29132208 AGTTGAATTTTCAATGTATTGACTAT
196 AGTTGAATTTTCAATGTATTGACTAT
29132234 TGACTTTTCATTATTGACTATTGAGTGCTTCATTTATTGTCCTTAAACACCTCGAG-TGATTTGA
1 TGACTTTTCATTATTGACTATTGAGTGCTTCATTTATTGTCCTTAAACACCTCGAGTTG-TTTGA
29132298 GTGAATCTGTAGTGAGGATCTGAAACTCTGTGATATTTTGAATCAATGGTAACTACTTAGATGAG
65 GTGAATCTGTAGTGAGGATCTGAAACTCTGTGATATTTTGAATCAATGGTAACTACTTAGATGAG
29132363 GGGAGACACCTATGTTTGCATGATTAAATACTCAACTTGGAATGTTTGAAACTTTTATGTTCTTT
130 GGGAGACACCTATGTTTGCATGATTAAATACTCAACTTGGAATGTTTGAAACTTTTATGTTCTTT
29132428 TAGTTGAATTTTCAATGTA
195 TAGTTGAATTTTCAATGTA
29132447 CGATTACCTA
Statistics
Matches: 212, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
220 2 0.01
221 210 0.99
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (221 bp):
TGACTTTTCATTATTGACTATTGAGTGCTTCATTTATTGTCCTTAAACACCTCGAGTTGTTTGAG
TGAATCTGTAGTGAGGATCTGAAACTCTGTGATATTTTGAATCAATGGTAACTACTTAGATGAGG
GGAGACACCTATGTTTGCATGATTAAATACTCAACTTGGAATGTTTGAAACTTTTATGTTCTTTT
AGTTGAATTTTCAATGTATTGACTAT
Found at i:29134004 original size:17 final size:17
Alignment explanation
Indices: 29133982--29134017 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
29133972 AAGATTATCA
29133982 ATCAACAATTT-GAATAT
1 ATCAAC-ATTTAGAATAT
29133999 ATCAACATTTAGAATAT
1 ATCAACATTTAGAATAT
29134016 AT
1 AT
29134018 TAGCTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
ATCAACATTTAGAATAT
Found at i:29135171 original size:5 final size:5
Alignment explanation
Indices: 29135163--29135188 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
29135153 TACAAAACAA
29135163 TTGTT TTGTT TTGTT TTGTT TTGTT T
1 TTGTT TTGTT TTGTT TTGTT TTGTT T
29135189 ATTTTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTGTT
Found at i:29138345 original size:45 final size:44
Alignment explanation
Indices: 29138296--29138541 Score: 258
Period size: 45 Copynumber: 5.5 Consensus size: 44
29138286 TGCCATAGTG
* * * * *
29138296 TCTTTCAACCATGGTCTTATTTCTTTGATTCATGATACCATAACA
1 TCTTTCAACCATGGTCTTA-CTCATAGAATCATGATGCCATAACA
* * * *
29138341 TCTTTTAGCTATGGTCTTACTCGTAGAATCATGATGCCATAACA
1 TCTTTCAACCATGGTCTTACTCATAGAATCATGATGCCATAACA
* *
29138385 TCTTTCAATCATGGTCTTACTCGATAGAATCATGATGCCATAATA
1 TCTTTCAACCATGGTCTTACTC-ATAGAATCATGATGCCATAACA
** *
29138430 TCTTTCAGTCATGGTCTTACTCGATAAAATCATGATGCCATAACA
1 TCTTTCAACCATGGTCTTACTC-ATAGAATCATGATGCCATAACA
** * * **
29138475 TCTTTCAGTCATGGTCTTACTCGACAGAATCAAGATGCCATAATG
1 TCTTTCAACCATGGTCTTACTC-ATAGAATCATGATGCCATAACA
* *
29138520 TCTTTCAATCATAGTCTTACTC
1 TCTTTCAACCATGGTCTTACTC
29138542 GTTTCTAGTA
Statistics
Matches: 176, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 38 0.22
45 138 0.78
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (44 bp):
TCTTTCAACCATGGTCTTACTCATAGAATCATGATGCCATAACA
Found at i:29138542 original size:45 final size:45
Alignment explanation
Indices: 29138325--29138542 Score: 305
Period size: 45 Copynumber: 4.9 Consensus size: 45
29138315 TTTCTTTGAT
* * *
29138325 TCATGATACCATAACATCTTT-TAGCTATGGTCTTACTCG-TAGAA
1 TCATGATGCCATAACATCTTTCAATC-ATGGTCTTACTCGATAGAA
29138369 TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGAA
1 TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGAA
* * *
29138414 TCATGATGCCATAATATCTTTCAGTCATGGTCTTACTCGATAAAA
1 TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGAA
* *
29138459 TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCGACAGAA
1 TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGAA
* ** *
29138504 TCAAGATGCCATAATGTCTTTCAATCATAGTCTTACTCG
1 TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCG
29138543 TTTCTAGTAT
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
44 33 0.21
45 125 0.79
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
TCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGAA
Found at i:29138579 original size:135 final size:133
Alignment explanation
Indices: 29138283--29138585 Score: 333
Period size: 135 Copynumber: 2.3 Consensus size: 133
29138273 ATTCTTGTCT
* * * ** * *
29138283 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTTCTTTGATTCATGATACCATAACATCTTTTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTA-CTCATAAAATCATGATACCATAACATCTTTCA
* * *
29138348 GCTATGGTCTTACTCGTAGAATCATGATGCCATAACATCTTTCAATCATGGTCTTACTCGATAGA
65 GCTATGGTCTTACTCGCAGAATCAAGATGCCATAACATCTTTCAATCATAGTCTTACTCGATAGA
29138413 ATCA
130 ATCA
* * * *
29138417 TGATGCCATAATATCTTTC-AGTCATGGTCTTACTCGATAAAATCATGATGCCATAACATCTTTC
1 TGATGCCATAGTGTCTTTCAACT-ATGGTCTTACTC-ATAAAATCATGATACCATAACATCTTTC
** *
29138481 AG-TCATGGTCTTACTCGACAGAATCAAGATGCCATAATGTCTTTCAATCATAGTCTTACTCGTT
64 AGCT-ATGGTCTTACTCG-CAGAATCAAGATGCCATAACATCTTTCAATCATAGTCTTACTCG-A
** *
29138545 TCTAGT-A
126 TAGAATCA
* *
29138552 TGATGTCATAGTGTCTTTCAACTATGGTTTTACT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACT
29138586 TCTTTTCTGG
Statistics
Matches: 138, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
133 4 0.03
134 63 0.46
135 66 0.48
136 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (133 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATAAAATCATGATACCATAACATCTTTCAG
CTATGGTCTTACTCGCAGAATCAAGATGCCATAACATCTTTCAATCATAGTCTTACTCGATAGAA
TCA
Found at i:29138585 original size:45 final size:46
Alignment explanation
Indices: 29138508--29138629 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
29138498 ACAGAATCAA
* *
29138508 GATGCCATAATGTCTTTCAA-TCATAGTCTTAC-TCGTTTCTAGTAT
1 GATGCCATAGTGTCTTTCAACT-ATGGTCTTACTTCGTTTCTAGTAT
* * * *
29138553 GATGTCATAGTGTCTTTCAACTATGGTTTTACTTCTTTTCTGGTAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTTCGTTTCTAGTAT
* *
29138599 -AGTGCCACAGTGTCTTTCCACTATGGTCTTA
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTA
29138630 ATCATTTTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 27 0.42
46 37 0.58
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (46 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTACTTCGTTTCTAGTAT
Found at i:29144171 original size:193 final size:193
Alignment explanation
Indices: 29143842--29144210 Score: 738
Period size: 193 Copynumber: 1.9 Consensus size: 193
29143832 ATTTTATCGA
29143842 TAGAGGGTCCAATTTGATATTTAGGACAAAATTACAAAAGTTGTAAAATGTGTGTTCTAGTTCAC
1 TAGAGGGTCCAATTTGATATTTAGGACAAAATTACAAAAGTTGTAAAATGTGTGTTCTAGTTCAC
29143907 AAAGGTACTAAGTACTTGTGAGTAATGGGTTTTTAAAGTGGACGTCCTTGGATAGTAATTAGAAC
66 AAAGGTACTAAGTACTTGTGAGTAATGGGTTTTTAAAGTGGACGTCCTTGGATAGTAATTAGAAC
29143972 ATTATACTAGTTTGGACAAAAATGCCTAAAGGAAGATAAAACACCACAAAATTACAAAAGTTG
131 ATTATACTAGTTTGGACAAAAATGCCTAAAGGAAGATAAAACACCACAAAATTACAAAAGTTG
29144035 TAGAGGGTCCAATTTGATATTTAGGACAAAATTACAAAAGTTGTAAAATGTGTGTTCTAGTTCAC
1 TAGAGGGTCCAATTTGATATTTAGGACAAAATTACAAAAGTTGTAAAATGTGTGTTCTAGTTCAC
29144100 AAAGGTACTAAGTACTTGTGAGTAATGGGTTTTTAAAGTGGACGTCCTTGGATAGTAATTAGAAC
66 AAAGGTACTAAGTACTTGTGAGTAATGGGTTTTTAAAGTGGACGTCCTTGGATAGTAATTAGAAC
29144165 ATTATACTAGTTTGGACAAAAATGCCTAAAGGAAGATAAAACACCA
131 ATTATACTAGTTTGGACAAAAATGCCTAAAGGAAGATAAAACACCA
29144211 TAGTTTTTAA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 176 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (193 bp):
TAGAGGGTCCAATTTGATATTTAGGACAAAATTACAAAAGTTGTAAAATGTGTGTTCTAGTTCAC
AAAGGTACTAAGTACTTGTGAGTAATGGGTTTTTAAAGTGGACGTCCTTGGATAGTAATTAGAAC
ATTATACTAGTTTGGACAAAAATGCCTAAAGGAAGATAAAACACCACAAAATTACAAAAGTTG
Found at i:29145170 original size:55 final size:53
Alignment explanation
Indices: 29145109--29145365 Score: 195
Period size: 55 Copynumber: 4.8 Consensus size: 53
29145099 ATTAGGGTTT
* *
29145109 AAGGATACCATGTAAGACTATGCCAAGGCACGGCAATTGGTAAGGCTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAAGG-TTCTAAGGC
* * * * * * * * *
29145164 AAGGATATCATATAAGACCATGTCAAGACATGACATTGATAAGTTATTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG--GTTCTAAGG-C
* *
29145220 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTTC-TAAGGC
* * * * * *
29145272 AAGGATACCATGTAAGACCATGTCGAGACATGACAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTTCTAAGGC
* * * *
29145321 AAGGATACCACGTAAGACCATGACAAGTG-ATGGAAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCATTGGTAAGGT
29145366 ACCCGTGTAT
Statistics
Matches: 158, Mismatches: 37, Indels: 20
0.73 0.17 0.09
Matches are distributed among these distances:
49 37 0.23
52 8 0.05
53 35 0.22
54 11 0.07
55 63 0.40
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTTCTAAGGC
Found at i:29145315 original size:108 final size:110
Alignment explanation
Indices: 29145116--29145316 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
29145106 TTTAAGGATA
* *
29145116 CCATGTAAGACTATGCCAAGGCACGGCAATTGGTAAGGCTTCTAAGGCAAGGATATCATATAAGA
1 CCATGTAAGACCATGCCAAGGCACGGCAATTGGTAAGGCTTCTAAGGCAAGGATACCATATAAGA
*
29145181 CCATGTCAAGACATGACATTGATAAGTTATTATAAGGAAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTATTATAAGGAAAAGGTC
* * *
29145226 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCACGGCAATTGGTAAGGCTTC-TAAGGCAAGGATACCATATAAG
* *
29145288 ACCATGTCGAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
29145317 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCACGGCAATTGGTAAGGCTTCTAAGGCAAGGATACCATATAAGA
CCATGTCAAGACATGACAATGATAAGTTATTATAAGGAAAAGGTC
Found at i:29145577 original size:16 final size:16
Alignment explanation
Indices: 29145556--29145586 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29145546 AGAAATTTGA
29145556 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29145572 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29145587 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:29151327 original size:30 final size:30
Alignment explanation
Indices: 29151293--29151353 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
29151283 TTCCCAAGCC
29151293 TAGGGGCAAAA-GTGTAAATATGCAAAAGTT
1 TAGGGG-AAAATGTGTAAATATGCAAAAGTT
* * *
29151323 TAGGGGAAAATTTGTAATTTTGCAAAAGTT
1 TAGGGGAAAATGTGTAAATATGCAAAAGTT
29151353 T
1 T
29151354 GAATTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAATGTGTAAATATGCAAAAGTT
Found at i:29172136 original size:45 final size:45
Alignment explanation
Indices: 29172038--29172213 Score: 234
Period size: 45 Copynumber: 4.0 Consensus size: 45
29172028 CCCGAATTCA
* *
29172038 TTCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-AT-CTCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-AT
* *
29172080 TTCATCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
* *
29172125 TTCACTGGCATTATAGCCTGCTAGGCTCGAAGGCCCTAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
** *
29172170 CACACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
29172214 CTGTACGATA
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
42 11 0.09
43 16 0.14
44 5 0.04
45 84 0.72
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
Found at i:29173092 original size:25 final size:25
Alignment explanation
Indices: 29173042--29173152 Score: 154
Period size: 25 Copynumber: 4.5 Consensus size: 25
29173032 TCGGAAACAA
* *
29173042 TAAGGGCAAATTTAAT-GGAAATAT
1 TAAGAGCAAATTTAATCGGAATTAT
*
29173066 TAAAAGCAAATTTAATCGGAATTAT
1 TAAGAGCAAATTTAATCGGAATTAT
29173091 TAAGAGCAAATTTAA-CTGGAATTAT
1 TAAGAGCAAATTTAATC-GGAATTAT
*
29173116 TAAGAGCAAATTTAACCGGAATTAT
1 TAAGAGCAAATTTAATCGGAATTAT
*
29173141 TAAGAGGAAATT
1 TAAGAGCAAATT
29173153 ATCAAGGTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
24 15 0.19
25 63 0.80
26 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (25 bp):
TAAGAGCAAATTTAATCGGAATTAT
Found at i:29185635 original size:47 final size:47
Alignment explanation
Indices: 29185523--29185700 Score: 286
Period size: 47 Copynumber: 3.7 Consensus size: 47
29185513 AGTATATATA
* * *
29185523 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTGTATGTATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
29185572 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
29185619 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
29185666 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
29185701 GAAGTGTATA
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
47 86 0.69
49 37 0.30
50 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.28
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:29185717 original size:47 final size:46
Alignment explanation
Indices: 29185512--29185721 Score: 262
Period size: 47 Copynumber: 4.4 Consensus size: 46
29185502 ATTGATGTAC
* * *
29185512 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
29185559 AAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTA--TA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
29185608 ACATGTGTAT-GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-A-GTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
29185655 ACATGTGTAT-GTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 A-A-GTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
29185702 AAGTGTATAAATGTGATAAG
1 AAGTGTAT-AATGTGATAAG
29185722 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
45 6 0.04
46 1 0.01
47 97 0.65
49 40 0.27
50 1 0.01
51 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (46 bp):
AAGTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:29193646 original size:43 final size:43
Alignment explanation
Indices: 29193585--29193731 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
29193575 AGATATCGTG
*
29193585 TAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
1 TAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
* * *
29193628 TAAGACCATGTCTGGGACATC-GGCATTGTATCT--GATTT-CGTG
1 TAAGACCATGTCTGGGACA-CAGGCCTCG-AT-TGAGATTTACGTA
** * * *
29193670 TAAGACTGTGTATGGGAAACAGGCCTCGATTGAGATTTATGTA
1 TAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
* *
29193713 TAAGACTATGTCTGAGACA
1 TAAGACCATGTCTGGGACA
29193732 TCGGCATCGT
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 28 0.35
43 45 0.56
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
Found at i:29193707 original size:42 final size:42
Alignment explanation
Indices: 29193575--29193707 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 42
29193565 CATATGTCTA
* *
29193575 AGATATCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTG
1 AGATTTCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTG
* * * * *
29193617 AGATTTACGTATAAGACCATGTCTGGGACATC-GGCATTGTATCT-
1 AGATTT-CGTGTAAGACCGTGTCTGGGA-AACAGGCCTCG-AT-TG
* *
29193661 -GATTTCGTGTAAGACTGTGTATGGGAAACAGGCCTCGATTG
1 AGATTTCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTG
29193702 AGATTT
1 AGATTT
29193708 ATGTATAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
40 1 0.01
41 4 0.06
42 32 0.46
43 29 0.41
44 3 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTG
Found at i:29193750 original size:43 final size:43
Alignment explanation
Indices: 29193618--29193750 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
29193608 CCTCGATTGA
* *
29193618 GATTTACGTATAAGACCATGTCTGGGACATCGGCATTGTATCT
1 GATTTACGTATAAGACTATGTCTGGGACATCGGCATCGTATCT
* * * * *
29193661 GATTT-CGTGTAAGACTGTGTATGGGA-AACAGGCCTCG-AT-T
1 GATTTACGTATAAGACTATGTCTGGGACATC-GGCATCGTATCT
* *
29193701 GAGATTTATGTATAAGACTATGTCTGAGACATCGGCATCGTATCT
1 --GATTTACGTATAAGACTATGTCTGGGACATCGGCATCGTATCT
29193746 GATTT
1 GATTT
29193751 CGTGGAAGAC
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
40 1 0.01
41 4 0.06
42 27 0.39
43 32 0.46
44 4 0.06
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTTACGTATAAGACTATGTCTGGGACATCGGCATCGTATCT
Found at i:29193771 original size:85 final size:85
Alignment explanation
Indices: 29193580--29193771 Score: 294
Period size: 85 Copynumber: 2.3 Consensus size: 85
29193570 GTCTAAGATA
* *
29193580 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
*
29193645 CATCGGCATTGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * *
29193665 TCGTGTAAGACTGTGTATGGGAAACAGGCCTCGATTGAGATTTATGTATAAGACTATGTCTGAGA
1 TCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
29193730 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * *
29193750 TCGTGGAAGACCCTATCTGGGA
1 TCGTGTAAGACCGTGTCTGGGA
29193772 CAGAGGCATC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGGAAACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
CATCGGCATCGTATCTGATT
Found at i:29193802 original size:85 final size:84
Alignment explanation
Indices: 29193597--29193823 Score: 224
Period size: 85 Copynumber: 2.7 Consensus size: 84
29193587 AGACCGTGTC
* * * * *
29193597 TGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATCGGCATTGTATCTG
1 TGGGAAACAGGCATCGATTGAGATTCATG-ATAAGACCATGTCTGGGACATCGGCATCGTATCTG
* ** *
29193662 ATTTCGTGTAAGACTGTGTA
65 ATTTCGTGGAAGACCCTATA
* * * *
29193682 TGGGAAACAGGCCTCGATTGAGATTTATGTATAAGACTATGTCTGAGACATCGGCATCGTATCTG
1 TGGGAAACAGGCATCGATTGAGATTCATG-ATAAGACCATGTCTGGGACATCGGCATCGTATCTG
*
29193747 ATTTCGTGGAAGACCCTATC
65 ATTTCGTGGAAGACCCTATA
* * * * *
29193767 TGGGACAGAGGCATCAATATTGA-ATTACATG-TAAGACCACGTCTGGGACGTCGGCAT
1 TGGGAAACAGGCATC--GATTGAGATT-CATGATAAGACCATGTCTGGGACATCGGCAT
29193824 TGTACTTGAT
Statistics
Matches: 120, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
85 109 0.91
86 3 0.03
87 8 0.07
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (84 bp):
TGGGAAACAGGCATCGATTGAGATTCATGATAAGACCATGTCTGGGACATCGGCATCGTATCTGA
TTTCGTGGAAGACCCTATA
Found at i:29201043 original size:85 final size:85
Alignment explanation
Indices: 29200854--29201035 Score: 265
Period size: 85 Copynumber: 2.1 Consensus size: 85
29200844 GTCTAAGATA
* * * * *
29200854 TCGTGTAAGACCGTGTCTGGGACACAGGCCTTGATTGAGATTTACGTATAAGACCATGTCTGGGG
1 TCGTGTAAGACCGTGTCTGGCACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
* *
29200919 CATCGACATTGTATCTGATT
66 CATCGACATCGTATCTAATT
* * *
29200939 CCGTGTAAGACCGTGTCTGGCACACAAGCCTCGTTTGAGATTTATGTATAAGACCATGTCTGAGA
1 TCGTGTAAGACCGTGTCTGGCACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
*
29201004 CATCGGCATCGTATCTAATT
66 CATCGACATCGTATCTAATT
29201024 TCGTGTAAGACC
1 TCGTGTAAGACC
29201036 CTATCTGGGA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGCACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGA
CATCGACATCGTATCTAATT
Found at i:29204708 original size:35 final size:35
Alignment explanation
Indices: 29204659--29204794 Score: 130
Period size: 35 Copynumber: 3.9 Consensus size: 35
29204649 GAAAAAATTA
*
29204659 CCTTAGACGTGTCTATCCCAACCTTTCTAAGGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTCTAAGGTTG
* *
29204694 CCTTAGATGGGTCTATCCCAACCTTT-TAAAGGTTA
1 CCTTAGACGGGTCTATCCCAACCTTTCT-AAGGTTG
* ** * * * * **
29204729 TCTTAGATAGATCTTTCCCAGCCTTTTTAAAATTG
1 CCTTAGACGGGTCTATCCCAACCTTTCTAAGGTTG
*
29204764 CATTAGACGGGTCTATCCCAACCTTTTCTAA
1 CCTTAGACGGGTCTATCCCAACC-TTTCTAA
29204795 AGGTCAGGCT
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
34 1 0.01
35 71 0.90
36 7 0.09
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (35 bp):
CCTTAGACGGGTCTATCCCAACCTTTCTAAGGTTG
Done.