Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 39 of 135
Found at i:9995870 original size:27 final size:27
Alignment explanation
Indices: 9995839--9995892 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9995829 GAATAAAACT
9995839 GCAGATTCTTTCATCTGAATCTTGCCG
1 GCAGATTCTTTCATCTGAATCTTGCCG
9995866 GCAGATTCTTTCATCTGAATCTTGCCG
1 GCAGATTCTTTCATCTGAATCTTGCCG
9995893 TCATCTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (27 bp):
GCAGATTCTTTCATCTGAATCTTGCCG
Found at i:9998711 original size:22 final size:22
Alignment explanation
Indices: 9998680--9998727 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9998670 AAATTTAGTG
* *
9998680 AGCAGCTTCGCAGGTAATGGCT
1 AGCAGCTTCGCAGGCAATGCCT
*
9998702 AGCAGGTTCGCAGGCAATGCCT
1 AGCAGCTTCGCAGGCAATGCCT
9998724 AGCA
1 AGCA
9998728 ATGAGGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (22 bp):
AGCAGCTTCGCAGGCAATGCCT
Found at i:10001104 original size:49 final size:50
Alignment explanation
Indices: 10001051--10001462 Score: 166
Period size: 49 Copynumber: 8.3 Consensus size: 50
10001041 TGGCTTTAAT
* * *
10001051 CTTTCCCATCAC-TTTTCTAAGGTGCTAGGTTCGCCATTACGAACTCAAC
1 CTTTCCCATCACATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAAC
* * * **
10001100 CTTTCCCATCACATCTTCTTAGGTACCAGGTTCGCCGTTGCGGCCTCAAC
1 CTTTCCCATCACATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAAC
* *** * * *
10001150 CTTTCCCTTTGTATCTTCGT--GGTACC-GAGTTCGCCGTTGCGACCTCAAC
1 CTTTCCCATCACATCTTC-TAAGGTACCAG-GTTCGCCATTACGAACTCAAC
* * * ** **
10001199 CTTTCCCATCACATATTTTAAGGTACC-GGATTCGCCGTCGCGGGCTCAATC
1 CTTTCCCATCACATCTTCTAAGGTACCAGG-TTCGCCATTACGAACTCAA-C
** * * * * * ** *
10001250 C-TTCCTTTCATC-TCTTC-ATGGTACTAGGTTTGCCGTTATGGCCTTAAC
1 CTTTCCCATCA-CATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAAC
*** * * * * * *
10001298 CTTTCCCATTGTATCTTCGT--GGTATCGGGTTCGTCGTTGCGACCTCAAC
1 CTTTCCCATCACATCTTC-TAAGGTACCAGGTTCGCCATTACGAACTCAAC
* * ** **
10001347 CTTTCCCATCACATCTTTTAAGGTACCAGATTCGCCATCGCGGCCTCAATC
1 CTTTCCCATCACATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAA-C
* * * * * * **
10001398 C-TTCCCTTCATC-TCTTC-ATGGTACTAGGTTCGTCGTTGCGGCCTCAAC
1 CTTTCCCATCA-CATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAAC
10001446 CTTTCCCATCACATCTT
1 CTTTCCCATCACATCTT
10001463 TTTAGTTACC
Statistics
Matches: 276, Mismatches: 68, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
48 8 0.03
49 150 0.54
50 111 0.40
51 7 0.03
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (50 bp):
CTTTCCCATCACATCTTCTAAGGTACCAGGTTCGCCATTACGAACTCAAC
Found at i:10001205 original size:99 final size:97
Alignment explanation
Indices: 10001079--10001452 Score: 283
Period size: 99 Copynumber: 3.8 Consensus size: 97
10001069 AAGGTGCTAG
*
10001079 GTTCGCCATTACGAACTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTCGCCGTTGCGGC
1 GTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTT-GGTACCAGGTTCGCCGTTGCGGC
* *
10001144 CTCAACCTTTCCCTTTGTATCTTCGTGGTACCGA
65 CTCAACCTTTCCCTTTATATCTTCATGGTACC-A
* * * *
10001178 GTTCGCCGTTGCGACCTCAACCTTTCCCATCACATATT-TTAAGGTACC-GGATTCGCCGTCGCG
1 GTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTT--GGTACCAGG-TTCGCCGTTGCG
* * *
10001241 GGCTCAATCC-TT-CCTTTCATCTCTTCATGGTACTA
63 GCCTCAA-CCTTTCCCTTT-ATATCTTCATGGTACCA
* * * * * *** * * * * *
10001276 GGTTTGCCGTTATGGCCTTAACCTTTCCCATTGTATCTTCGTGGTATCGGGTTCGTCGTTGCGAC
1 -GTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTTGGTACCAGGTTCGCCGTTGCGGC
* * * * *
10001341 CTCAACCTTTCCCATCACATCTTTTAAGGTACCA
65 CTCAACCTTTCCCTTTATATC-TTCATGGTACCA
** * * * * *
10001375 GATTCGCCATCGCGGCCTCAATCC-TTCCCTTCATC-TCTTCATGGTACTAGGTTCGTCGTTGCG
1 G-TTCGCCATTACGACCTCAA-CCTTTCCCATCA-CATCTTCTTGGTACCAGGTTCGCCGTTGCG
10001438 GCCTCAACCTTTCCC
63 GCCTCAACCTTTCCC
10001453 ATCACATCTT
Statistics
Matches: 215, Mismatches: 47, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
97 2 0.01
98 36 0.17
99 172 0.80
100 5 0.02
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (97 bp):
GTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTTGGTACCAGGTTCGCCGTTGCGGCC
TCAACCTTTCCCTTTATATCTTCATGGTACCA
Found at i:10001453 original size:99 final size:98
Alignment explanation
Indices: 10001325--10001709 Score: 405
Period size: 99 Copynumber: 3.9 Consensus size: 98
10001315 CGTGGTATCG
* * * *
10001325 GGTTCGTCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTACCAGATTCGCCATCGCGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATCGCGG
*
10001390 CCTCAATCCTTCCCTTCATCTCTTCATGGTACTA
66 CCTCAA-CCTTCCCTTCATATCTTCATGGTACTA
* * * ** ** * * *
10001424 GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTTAGTTACCGGGCTCGTCGTTGTGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATCGCGG
* ** * *
10001489 CCTTAACCTTTCCCTTTGTATCTTCGTGGTAC-C
66 CCTCAACC-TTCCCTTCATATCTTCATGGTACTA
* * ***
10001522 GAGTTCGCCGTTGCGGCCTCAACC-TTCCCATCACATCTTCTAAGGTACTGGATTCATTGTCGCG
1 G-GTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATCGCG
* * *
10001586 GCCTCAATCCTTCCCTTCATCTCTTCATGGTATTG
65 GCCTCAA-CCTTCCCTTCATATCTTCATGGTACTA
* * * * *
10001621 GGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAGGTATCGGGTTCACCATTGCGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATCGCGG
*
10001686 CCTCAACTTTTCCCTTCATATCTT
66 CCTCAAC-CTTCCCTTCATATCTT
10001710 TTAAGGTGCC
Statistics
Matches: 234, Mismatches: 46, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
98 79 0.34
99 155 0.66
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.35
Consensus pattern (98 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATCGCGG
CCTCAACCTTCCCTTCATATCTTCATGGTACTA
Found at i:10001462 original size:148 final size:147
Alignment explanation
Indices: 10001094--10001709 Score: 537
Period size: 148 Copynumber: 4.1 Consensus size: 147
10001084 CCATTACGAA
* * * *
10001094 CTCAACCTTTCCCATCA-CATCTTCTTAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCT
1 CTCAACC-TTCCCTTCATC-TCTTCAT-GGTACTAGGTTCGCCGTTGCGGCCTCAACCTTTCCCA
*** * *
10001158 TTGTATCTTCGTGGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATATTTTAAGGT
63 TCACATCTTCGTGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGT
* *
10001223 ACCGGATTCGCCGTCGCGGG
128 ACCGGATTCGCCATCGCGGC
* * ** * *
10001243 CTCAATCCTTCCTTTCATCTCTTCATGGTACTAGGTTTGCCGTTATGGCCTTAACCTTTCCCATT
1 CTCAA-CCTTCCCTTCATCTCTTCATGGTACTAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATC
** * *
10001308 GTATCTTCGTGGTATCGGGTTCGTCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTAC
65 ACATCTTCGTGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTAC
*
10001373 CAGATTCGCCATCGCGGC
130 CGGATTCGCCATCGCGGC
*
10001391 CTCAATCCTTCCCTTCATCTCTTCATGGTACTAGGTTCGTCGTTGCGGCCTCAACCTTTCCCATC
1 CTCAA-CCTTCCCTTCATCTCTTCATGGTACTAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATC
** * * * * * * * *** *
10001456 ACATCTTTTTAGTTACCGGGCTCGTCGTTGTGGCCTTAACCTTTCCCTTTGTATCTTCGT--GGT
65 ACATCTTCGT-GGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTT-TTAAGGT
* *
10001519 ACC-GAGTTCGCCGTTGCGGC
128 ACCGGA-TTCGCCATCGCGGC
* * *** *
10001539 CTCAACCTTCCCATCA-CATCTTCTAAGGTACT-GGATTCATTGTCGCGGCCTCAATCC-TTCCC
1 CTCAACCTTCCCTTCATC-TCTTC-ATGGTACTAGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCC
* * ** * * *
10001601 TTCATC-TCTTCATGGTATTGGGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAG
62 ATCA-CATCTTCGTGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAG
* * * *
10001665 GTATCGGGTTCACCATTGCGGC
126 GTACCGGATTCGCCATCGCGGC
* *
10001687 CTCAACTTTTCCCTTCATATCTT
1 CTCAAC-CTTCCCTTCATCTCTT
10001710 TTAAGGTGCC
Statistics
Matches: 384, Mismatches: 68, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
146 2 0.01
147 53 0.14
148 255 0.66
149 70 0.18
150 4 0.01
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (147 bp):
CTCAACCTTCCCTTCATCTCTTCATGGTACTAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCA
CATCTTCGTGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTACC
GGATTCGCCATCGCGGC
Found at i:10001638 original size:197 final size:198
Alignment explanation
Indices: 10001283--10001664 Score: 604
Period size: 197 Copynumber: 1.9 Consensus size: 198
10001273 CTAGGTTTGC
* * *
10001283 CGTTATGGCCTTAACCTTTCCCATTGTATCTTCGTGGTATCGGGTTCGTCGTTGCGACCTCAACC
1 CGTTATGGCCTTAACCTTTCCCATTGTATCTTCGTGGTACCGAGTTCGCCGTTGCGACCTCAACC
* *
10001348 TTTCCCATCACATCTTTTAAGGTACCAGATTCGCCATCGCGGCCTCAATCCTTCCCTTCATCTCT
66 TTTCCCATCACATCTTCTAAGGTACCAGATTCACCATCGCGGCCTCAATCCTTCCCTTCATCTCT
* *
10001413 TCATGGTACTAGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTTAGTTACCGGGCT
131 TCATGGTACTAGGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAGTTACCGGGCT
10001478 CGT
196 CGT
* * *
10001481 CGTTGTGGCCTTAACCTTTCCCTTTGTATCTTCGTGGTACCGAGTTCGCCGTTGCGGCCTCAACC
1 CGTTATGGCCTTAACCTTTCCCATTGTATCTTCGTGGTACCGAGTTCGCCGTTGCGACCTCAACC
** ***
10001546 -TTCCCATCACATCTTCTAAGGTACTGGATTCATTGTCGCGGCCTCAATCCTTCCCTTCATCTCT
66 TTTCCCATCACATCTTCTAAGGTACCAGATTCACCATCGCGGCCTCAATCCTTCCCTTCATCTCT
* *
10001610 TCATGGTATTGGGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAG
131 TCATGGTACTAGGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAG
10001665 GTATCGGGTT
Statistics
Matches: 167, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
197 108 0.65
198 59 0.35
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (198 bp):
CGTTATGGCCTTAACCTTTCCCATTGTATCTTCGTGGTACCGAGTTCGCCGTTGCGACCTCAACC
TTTCCCATCACATCTTCTAAGGTACCAGATTCACCATCGCGGCCTCAATCCTTCCCTTCATCTCT
TCATGGTACTAGGTTCGCCGTCGCGGCCTCAACCTTTCCCATCACATCTTTTTAGTTACCGGGCT
CGT
Found at i:10001727 original size:50 final size:50
Alignment explanation
Indices: 10001094--10001746 Score: 225
Period size: 49 Copynumber: 13.2 Consensus size: 50
10001084 CCATTACGAA
* *
10001094 CTCAACCTTTCCCATCACATCTTCTT-AGGTACCAGG-TTCGCCGTTGCGGC
1 CTCAACCTTTCCCATCACATCTT-TTAAGGTACC-GGATTCACCATTGCGGC
* *** * * * *
10001144 CTCAACCTTTCCCTTTGTATCTTCGT--GGTACC-GAGTTCGCCGTTGCGAC
1 CTCAACCTTTCCCATCACATCTT-TTAAGGTACCGGA-TTCACCATTGCGGC
* * * * *
10001193 CTCAACCTTTCCCATCACATATTTTAAGGTACCGGATTCGCCGTCGCGGG
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
** * * * ** * **
10001243 CTCAATCC-TT-CC-TTTCATCTCTTCATGGTACTAGG-TTTGCCGTTATGGC
1 CTCAA-CCTTTCCCATCACATCT-TTTAAGGTAC-CGGATTCACCATTGCGGC
* *** * * * ** * *
10001292 CTTAACCTTTCCCATTGTATCTTCGT--GGTATCGGGTTCGTCGTTGCGAC
1 CTCAACCTTTCCCATCACATCTT-TTAAGGTACCGGATTCACCATTGCGGC
* * *
10001341 CTCAACCTTTCCCATCACATCTTTTAAGGTACCAGATTCGCCATCGCGGC
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
* * * * ** *
10001391 CTCAATCC-TTCCC-T-TCATCTCTTCATGGTACTAGG-TTCGTCGTTGCGGC
1 CTCAA-CCTTTCCCATCACATCT-TTTAAGGTAC-CGGATTCACCATTGCGGC
* * ** ** * *
10001440 CTCAACCTTTCCCATCACATCTTTTTAGTTACCGGGCTCGTCGTTGTGGC
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
* * *** * * *
10001490 CTTAACCTTTCCCTTTGTATCTTCGT--GGTACC-GAGTTCGCCGTTGCGGC
1 CTCAACCTTTCCCATCACATCTT-TTAAGGTACCGGA-TTCACCATTGCGGC
* * *** *
10001539 CTCAACC-TTCCCATCACATCTTCTAAGGTACTGGATTCATTGTCGCGGC
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
* * * ** * * * *
10001588 CTCAATCC-TTCCC-T-TCATCTCTTCATGGTATTGGGTTCGCCGTCGCGGC
1 CTCAA-CCTTTCCCATCACATCT-TTTAAGGTACCGGATTCACCATTGCGGC
* * *
10001637 CTCAACCTTTCCCATCACATCTTTTTAGGTATCGGGTTCACCATTGCGGC
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
* * * * ** *
10001687 CTCAACTTTTCCCTTCATATCTTTTAAGGTGCCGGATTCACTGTTGCGCC
1 CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
10001737 CTCAATCCTT
1 CTCAA-CCTT
10001747 CTCGGTCAAA
Statistics
Matches: 454, Mismatches: 116, Indels: 65
0.71 0.18 0.10
Matches are distributed among these distances:
47 2 0.00
48 37 0.08
49 199 0.44
50 190 0.42
51 26 0.06
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.34
Consensus pattern (50 bp):
CTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATTCACCATTGCGGC
Found at i:10002502 original size:40 final size:40
Alignment explanation
Indices: 10002406--10002517 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
10002396 GAATTTGAGT
** * *
10002406 CGCCCTTTGCGGGTTTTCAACTCAAAATTCTTTTGGTTTCAAGA
1 CGCCCTTAACGGGTTTTCATCTC--AA-TCTTTT-TTTTCAAGA
* * * *
10002450 TGCCCTTTACGGGTTTTCATCTCGATCTTTTTTTTCGAGA
1 CGCCCTTAACGGGTTTTCATCTCAATCTTTTTTTTCAAGA
10002490 CGCCCTTAACGGGTTTTCATCTCAATCT
1 CGCCCTTAACGGGTTTTCATCTCAATCT
10002518 GTCCATTTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 32 0.54
41 6 0.10
42 1 0.02
44 20 0.34
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (40 bp):
CGCCCTTAACGGGTTTTCATCTCAATCTTTTTTTTCAAGA
Found at i:10008901 original size:29 final size:30
Alignment explanation
Indices: 10008869--10009108 Score: 171
Period size: 29 Copynumber: 8.2 Consensus size: 30
10008859 CAAAGCGATG
*
10008869 ATTTTTGGATGCTTGAGGGT-AAAATGGTA
1 ATTTTTGGATGTTTGAGGGTCAAAATGGTA
*
10008898 A-TTTTGGAAAAGTTT-AGGGTCAAAATGGTA
1 ATTTTTGG--ATGTTTGAGGGTCAAAATGGTA
* *
10008928 ATTTTTGGATGTTTG-GGGTCAAAATAGTG
1 ATTTTTGGATGTTTGAGGGTCAAAATGGTA
* * *
10008957 ATTTTTGGGTGTTTAAGGGT-AAAACGGTA
1 ATTTTTGGATGTTTGAGGGTCAAAATGGTA
* * *
10008986 A-CTTTAGATATTTG-GGGTCAAAAATGGTA
1 ATTTTTGGATGTTTGAGGGTC-AAAATGGTA
* *
10009015 ATTTTTGAATGTTT-AGGGGTAAAAAT-GTA
1 ATTTTTGGATGTTTGA-GGGTCAAAATGGTA
* *
10009044 A-TTTTGGAAAAGTTT-AGGGTCAATATGGTA
1 ATTTTTGG--ATGTTTGAGGGTCAAAATGGTA
* * * *
10009074 TTTTTTGGATATTTGGGGGGTAAAAAT-GTA
1 ATTTTTGGATGTTT-GAGGGTCAAAATGGTA
10009104 ATTTT
1 ATTTT
10009109 GGAAAAATTT
Statistics
Matches: 162, Mismatches: 32, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
27 4 0.02
28 19 0.12
29 68 0.42
30 47 0.29
31 24 0.15
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.39
Consensus pattern (30 bp):
ATTTTTGGATGTTTGAGGGTCAAAATGGTA
Found at i:10008925 original size:30 final size:29
Alignment explanation
Indices: 10008884--10009177 Score: 167
Period size: 29 Copynumber: 10.0 Consensus size: 29
10008874 TGGATGCTTG
10008884 AGGGT-AAAATGGTAATTTTGGAAAAGTTT
1 AGGGTCAAAATGGTAATTTTGG-AAAGTTT
*
10008913 AGGGTCAAAATGGTAATTTTTGG-ATGTTT
1 AGGGTCAAAATGGTAA-TTTTGGAAAGTTT
* * * **
10008942 GGGGTCAAAATAGTGATTTTTGG-GTGTTT
1 AGGGTCAAAATGGT-AATTTTGGAAAGTTT
* * * *
10008971 AAGGGT-AAAACGGTAACTTTAGATA-TTT
1 -AGGGTCAAAATGGTAATTTTGGAAAGTTT
* * *
10008999 GGGGTCAAAAATGGTAATTTTTGAATGTTT
1 AGGGTC-AAAATGGTAATTTTGGAAAGTTT
*
10009029 AGGGGTAAAAAT-GTAATTTTGGAAAAGTTT
1 A-GGGTCAAAATGGTAATTTTGG-AAAGTTT
* * *
10009059 AGGGTCAATATGGTATTTTTTGGATA-TTT
1 AGGGTCAAAATGGTA-ATTTTGGAAAGTTT
* * *
10009088 GGGGGGTAAAAAT-GTAATTTTGGAAAAATTT
1 --AGGGTCAAAATGGTAATTTTGG-AAAGTTT
* *
10009119 AAGGGTTAAAAT-GTAATTTTTGAAAAGTTT
1 -AGGGTCAAAATGGTAA-TTTTGGAAAGTTT
* *
10009149 AGGGGTTAAAAT-GTAATTTTTGAGAAGTT
1 A-GGGTCAAAATGGTAATTTTGGA-AAGTT
10009178 CGAGTGTTAA
Statistics
Matches: 207, Mismatches: 39, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.02
28 8 0.04
29 85 0.41
30 78 0.38
31 32 0.15
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (29 bp):
AGGGTCAAAATGGTAATTTTGGAAAGTTT
Found at i:10008934 original size:88 final size:88
Alignment explanation
Indices: 10008811--10009021 Score: 207
Period size: 88 Copynumber: 2.4 Consensus size: 88
10008801 AAAATTGAAC
* * * * *
10008811 TTTTGGAAAAATCTAAGGTCAAAAAT-GTGACTTTTGGAAATTTGAGGG-C-AAAGCGATGATTT
1 TTTTGG-AAAATTTAGGGTCAAAAATGGTAATTTTTGGAAATTTG-GGGTCAAAAGAG-TGATTT
* *
10008873 TTGGATGCTTGAGGGTAAAATGGTAA
63 TTGGATGCTTAAGGGTAAAACGGTAA
** *
10008899 TTTTGGAAAAGTTTAGGGTC-AAAATGGTAATTTTTGGATGTTTGGGGTCAAAATAGTGATTTTT
1 TTTTGGAAAA-TTTAGGGTCAAAAATGGTAATTTTTGGAAATTTGGGGTCAAAAGAGTGATTTTT
* *
10008963 GGGTGTTTAAGGGTAAAACGGTAA
65 GGATGCTTAAGGGTAAAACGGTAA
* * * *
10008987 CTTTAG-ATATTTGGGGTCAAAAATGGTAATTTTTG
1 TTTTGGAAAATTTAGGGTCAAAAATGGTAATTTTTG
10009022 AATGTTTAGG
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
86 8 0.08
87 30 0.29
88 60 0.59
89 4 0.04
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (88 bp):
TTTTGGAAAATTTAGGGTCAAAAATGGTAATTTTTGGAAATTTGGGGTCAAAAGAGTGATTTTTG
GATGCTTAAGGGTAAAACGGTAA
Found at i:10009096 original size:60 final size:60
Alignment explanation
Indices: 10009000--10009228 Score: 205
Period size: 60 Copynumber: 3.8 Consensus size: 60
10008990 TAGATATTTG
*
10009000 GGGTCAAAAATGGTAATTTTTG-AATGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTT-A
1 GGGTC-AAAAT-GTAATTTTTGAAAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTAA
* * * * * *
10009060 GGGTCAATATGGTATTTTTTGGATA-TTTGGGGGGTAAAAATGTAATTTTGGAAAAATTTAA
1 GGGTCAAAAT-GTAATTTTTGAAAAGTTT-AGGGGTAAAAATGTAATTTTGGAAAAGTTTAA
* * * * **
10009121 GGGTTAAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTTGAGAAGTTCGA
1 GGGTCAAAATGTAATTTTTGAAAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTAA
* * * * * * *
10009181 GTGTTAAAATATGATTTTTGAGAAG-TTCGGGTGTTAAAATGTAATTTT
1 GGGTCAAAATGTAATTTTTGAAAAGTTTAGGG-GTAAAAATGTAATTTT
10009229 TAAACAAAAC
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
59 22 0.16
60 107 0.76
61 12 0.09
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (60 bp):
GGGTCAAAATGTAATTTTTGAAAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTAA
Found at i:10009169 original size:90 final size:89
Alignment explanation
Indices: 10008967--10009170 Score: 220
Period size: 90 Copynumber: 2.3 Consensus size: 89
10008957 ATTTTTGGGT
* * * * **
10008967 GTTTAAGGGT-AAAACGGTAA-CTTTAGATATTTGGGGTCAAAAATGGTAATTTTTGAATGTTTA
1 GTTT-AGGGTCAAAATGGTAATTTTTGGATATTTGGGGTCAAAAATGGTAATTTTGGAAAATTTA
*
10009030 GGGGTAAAAATGTAATTTTGGAAAA
65 AGGGTAAAAATGTAATTTTGGAAAA
* *
10009055 GTTTAGGGTCAATATGGTATTTTTTGGATATTTGGGGGGT-AAAAAT-GTAATTTTGGAAAAATT
1 GTTTAGGGTCAAAATGGTAATTTTTGGATATTT--GGGGTCAAAAATGGTAATTTTGG-AAAATT
* *
10009118 TAAGGGTTAAAATGTAATTTTTGAAAA
63 TAAGGGTAAAAATGTAATTTTGGAAAA
*
10009145 GTTTAGGGGTTAAAAT-GTAATTTTTG
1 GTTTA-GGGTCAAAATGGTAATTTTTG
10009171 AGAAGTTCGA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
87 5 0.05
88 11 0.11
89 19 0.20
90 48 0.50
91 13 0.14
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (89 bp):
GTTTAGGGTCAAAATGGTAATTTTTGGATATTTGGGGTCAAAAATGGTAATTTTGGAAAATTTAA
GGGTAAAAATGTAATTTTGGAAAA
Found at i:10009187 original size:30 final size:30
Alignment explanation
Indices: 10009006--10009229 Score: 152
Period size: 30 Copynumber: 7.5 Consensus size: 30
10008996 TTTGGGGTCA
* * *
10009006 AAAATGGTAATTTTTG-AATGTT-TAGGGGTA
1 AAAAT-GTAATTTTTGAAAAGTTCGA-GGGTT
* * *
10009036 AAAATGTAATTTTGGAAAAGTT-TAGGGTC
1 AAAATGTAATTTTTGAAAAGTTCGAGGGTT
* * * * * * * *
10009065 AATATGGTATTTTTTGGATATTTGGGGGGTA
1 AAAAT-GTAATTTTTGAAAAGTTCGAGGGTT
* * **
10009096 AAAATGTAATTTTGGAAAAATTTAAGGGTT
1 AAAATGTAATTTTTGAAAAGTTCGAGGGTT
*
10009126 AAAATGTAATTTTTGAAAAGTT-TAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTCGA-GGGTT
* *
10009156 AAAATGTAATTTTTGAGAAGTTCGAGTGTT
1 AAAATGTAATTTTTGAAAAGTTCGAGGGTT
* * *
10009186 AAAATATGATTTTTGAGAAGTTCG-GGTGTT
1 AAAATGTAATTTTTGAAAAGTTCGAGG-GTT
10009216 AAAATGTAATTTTT
1 AAAATGTAATTTTT
10009230 AAACAAAACA
Statistics
Matches: 155, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
29 19 0.12
30 127 0.82
31 9 0.06
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTCGAGGGTT
Found at i:10009190 original size:90 final size:90
Alignment explanation
Indices: 10009000--10009190 Score: 199
Period size: 90 Copynumber: 2.1 Consensus size: 90
10008990 TAGATATTTG
* ** *
10009000 GGGTCAAAAATGGTAATTTTTG-AATGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTAGGGT
1 GGGT-AAAAAT-GTAATTTTGGAAAAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAGGGT
* * * * *
10009064 CAATATGGTATTTTTTGGATATTTGGG
64 CAAAATGGTAATTTTTGGATAGTTCGA
* * *
10009091 GGGTAAAAATGTAATTTTGGAAAAATTTAAGGGTTAAAATGTAATTTTTGAAAAGTTTAGGGGTT
1 GGGTAAAAATGTAATTTTGGAAAAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTA-GGGTC
10009156 AAAAT-GTAATTTTTGAGA-AGTTCGA
65 AAAATGGTAATTTTTG-GATAGTTCGA
* *
10009181 GTGTTAAAAT
1 GGGTAAAAAT
10009191 ATGATTTTTG
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
89 9 0.11
90 60 0.72
91 14 0.17
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (90 bp):
GGGTAAAAATGTAATTTTGGAAAAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAGGGTCA
AAATGGTAATTTTTGGATAGTTCGA
Found at i:10009198 original size:90 final size:89
Alignment explanation
Indices: 10009026--10009229 Score: 205
Period size: 90 Copynumber: 2.3 Consensus size: 89
10009016 TTTTTGAATG
* * * * * * *
10009026 TTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTAGGGTCAATATGGTATTTTTTGGATATTTGGG
1 TTTAGGGGTTAAAATGTAATTTTTGAAAAGTTTAGGGTCAAAATGGTAATTTTTGGATAGTTCGA
*
10009091 GGGTAAAAATGTAATTTTGGAAAAA
66 GGGTAAAAATATAATTTTGG-AAAA
* *
10009116 TTTAAGGGTTAAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAAT-GTAATTTTTGAGA-AGTTC
1 TTTAGGGGTTAAAATGTAATTTTTGAAAAGTTTA-GGGTCAAAATGGTAATTTTTG-GATAGTTC
* * * * *
10009179 GAGTGTTAAAATATGATTTTTGAGAA
64 GAGGGTAAAAATATAATTTTGGAAAA
* *
10009205 GTTCGGGTGTTAAAATGTAATTTTT
1 TTTAGGG-GTTAAAATGTAATTTTT
10009230 AAACAAAACA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
89 7 0.08
90 76 0.82
91 10 0.11
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.40
Consensus pattern (89 bp):
TTTAGGGGTTAAAATGTAATTTTTGAAAAGTTTAGGGTCAAAATGGTAATTTTTGGATAGTTCGA
GGGTAAAAATATAATTTTGGAAAA
Found at i:10013873 original size:40 final size:39
Alignment explanation
Indices: 10013829--10013914 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 39
10013819 TATTTTTTTA
*
10013829 AATTTA-CTAAAATATAAAAAA-TAAATATTCTTAAAATAAT
1 AATTTATC-AAAATATAAAAAACTAAATA--CTCAAAATAAT
10013869 AATTTATCAAAATATAAAAAACTTAAATACTCAAAATAAT
1 AATTTATCAAAATATAAAAAAC-TAAATACTCAAAATAAT
10013909 -ATTTAT
1 AATTTAT
10013915 TAGTTTGCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
39 6 0.14
40 29 0.69
41 1 0.02
42 6 0.14
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (39 bp):
AATTTATCAAAATATAAAAAACTAAATACTCAAAATAAT
Found at i:10016381 original size:1 final size:1
Alignment explanation
Indices: 10016375--10016399 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10016365 TGGTTTTCCA
10016375 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
10016400 AAACAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10017908 original size:11 final size:11
Alignment explanation
Indices: 10017892--10017933 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
10017882 AATCTTCAAA
10017892 ATTTATAAAAT
1 ATTTATAAAAT
10017903 ATTTATAAAAT
1 ATTTATAAAAT
* *
10017914 ATTTTTCAAAAA
1 ATTTAT-AAAAT
10017926 ATTTATAA
1 ATTTATAA
10017934 GTATACATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTATAAAAT
Found at i:10018238 original size:68 final size:68
Alignment explanation
Indices: 10018129--10018264 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
10018119 AGTTATGTTC
10018129 TTCAACTCGAAAATTAGTCATATTGTGAATAAGATTCCAATATGGCCAGCTTGTTTTTTTTCAAT
1 TTCAACTCGAAAATTAGTCATATTGTGAATAAGATTCCAATATGGCCAGCTTGTTTTTTTTCAAT
10018194 TTA
66 TTA
*
10018197 TTCAACTCGAAAATTAGTCATATTGTGAATAAGATTCCAATATGGTCAGCTTGTTTTTTTTCAAT
1 TTCAACTCGAAAATTAGTCATATTGTGAATAAGATTCCAATATGGCCAGCTTGTTTTTTTTCAAT
10018262 TTA
66 TTA
10018265 ACTCGAACAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (68 bp):
TTCAACTCGAAAATTAGTCATATTGTGAATAAGATTCCAATATGGCCAGCTTGTTTTTTTTCAAT
TTA
Found at i:10018310 original size:21 final size:20
Alignment explanation
Indices: 10018272--10018313 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
10018262 TTAACTCGAA
10018272 CAAATTTATTCGACTCAACT
1 CAAATTTATTCGACTCAACT
10018292 CAAATTTCATTTC-ACTCAACT
1 CAAATTT-A-TTCGACTCAACT
10018313 C
1 C
10018314 GATTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 10 0.50
22 3 0.15
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (20 bp):
CAAATTTATTCGACTCAACT
Found at i:10022209 original size:2 final size:2
Alignment explanation
Indices: 10022202--10022229 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10022192 TTACTAACTA
10022202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10022230 TAGATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10027185 original size:23 final size:22
Alignment explanation
Indices: 10027063--10027187 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 22
10027053 AGTGCTGGGG
*
10027063 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACAAAGTGC
* * *
10027085 AATCCAGTAGGCACACACAGTGC
1 AA-ACAGTAAGCACACAAAGTGC
** * * *
10027108 AATTAGTAGGCGCACATAGTGC
1 AAACAGTAAGCACACAAAGTGC
* *
10027130 AAATCAGTAGGCACACAAGGTGC
1 AAA-CAGTAAGCACACAAAGTGC
10027153 GAAACAGTAAGCACACAAAGTGC
1 -AAACAGTAAGCACACAAAGTGC
10027176 GAAACAGTAAGC
1 -AAACAGTAAGC
10027188 GCGCTAGCGT
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
22 20 0.23
23 64 0.74
24 3 0.03
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (22 bp):
AAACAGTAAGCACACAAAGTGC
Found at i:10041588 original size:95 final size:95
Alignment explanation
Indices: 10041389--10041594 Score: 220
Period size: 95 Copynumber: 2.2 Consensus size: 95
10041379 TCAATTATTT
* *
10041389 AAATCCTCTTTAATTTCTACTTTTATTCGAGAGTCAATATTTAATCTTTTCTTGATTGGAATTTG
1 AAATCCTCTTTAATTTCTACTTTTATTCGAGAGTCAATATTCAATCTTTTCTTGATTGCAATTTG
* *
10041454 AAATATATTACCTCATAATTTCGACAATTT
66 AAATATATTACCTCATAACTTCGACAATTC
* * * * *
10041484 AAA-CTCTCTTTACTTTCT-TTTTTATT-GAGGGATCAATATTCAATTTTTTCTTTTATTGCAAT
1 AAATC-CTCTTTAATTTCTACTTTTATTCGAGAG-TCAATATTCAATCTTTTC-TTGATTGCAAT
* * * * * * *
10041546 TTGATATTTGTTGCCTCTTAACTTCGGCCATTC
63 TTGAAATATATTACCTCATAACTTCGACAATTC
10041579 AAATCCTCTTTAATTT
1 AAATCCTCTTTAATTT
10041595 TTCTGGGTCA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
93 4 0.04
94 24 0.27
95 61 0.68
96 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (95 bp):
AAATCCTCTTTAATTTCTACTTTTATTCGAGAGTCAATATTCAATCTTTTCTTGATTGCAATTTG
AAATATATTACCTCATAACTTCGACAATTC
Found at i:10048533 original size:12 final size:14
Alignment explanation
Indices: 10048505--10048536 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
10048495 TCATATTAGT
10048505 ATAATATCAATTTA
1 ATAATATCAATTTA
10048519 ATAATAT-AA-TTA
1 ATAATATCAATTTA
10048531 ATAATA
1 ATAATA
10048537 AAATATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATCAATTTA
Found at i:10051764 original size:13 final size:13
Alignment explanation
Indices: 10051746--10051771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10051736 TTTCAAAAAT
10051746 ATTAAAAAGTAAA
1 ATTAAAAAGTAAA
10051759 ATTAAAAAGTAAA
1 ATTAAAAAGTAAA
10051772 TGAATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
ATTAAAAAGTAAA
Found at i:10056181 original size:19 final size:19
Alignment explanation
Indices: 10056151--10056187 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
10056141 TGAAAATTAC
10056151 TTTAATTATAAA-TAATAG
1 TTTAATTATAAATTAATAG
10056169 TTTAATATATAAATTAATA
1 TTTAAT-TATAAATTAATA
10056188 TCTTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTTAATTATAAATTAATAG
Found at i:10056503 original size:18 final size:18
Alignment explanation
Indices: 10056489--10056523 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10056479 ATTAAAAACT
10056489 CAAAAATTGAAAAAAATA
1 CAAAAATTGAAAAAAATA
* *
10056507 TAAAAATTTAAAAAAAT
1 CAAAAATTGAAAAAAAT
10056524 TACCATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
CAAAAATTGAAAAAAATA
Found at i:10058275 original size:13 final size:13
Alignment explanation
Indices: 10058257--10058287 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
10058247 CTGCAGTTGG
10058257 CACTTTCGAGTGC
1 CACTTTCGAGTGC
10058270 CACTTTCGAGTGC
1 CACTTTCGAGTGC
10058283 CACTT
1 CACTT
10058288 AGCAACTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.32
Consensus pattern (13 bp):
CACTTTCGAGTGC
Found at i:10061305 original size:17 final size:19
Alignment explanation
Indices: 10061268--10061307 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10061258 AAAACATACT
*
10061268 CAAACCTAACACCTTAGCC
1 CAAACCTAACACCTAAGCC
10061287 CAAACCTAA-ACC-AAGCC
1 CAAACCTAACACCTAAGCC
10061304 CAAA
1 CAAA
10061308 TGGCCCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.45, C:0.40, G:0.05, T:0.10
Consensus pattern (19 bp):
CAAACCTAACACCTAAGCC
Found at i:10061856 original size:16 final size:14
Alignment explanation
Indices: 10061823--10061852 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10061813 GGGCTATTCC
10061823 TATT-ATATATATT
1 TATTAATATATATT
10061836 TATTAATATATATT
1 TATTAATATATATT
10061850 TAT
1 TAT
10061853 ATTATCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:10062885 original size:29 final size:30
Alignment explanation
Indices: 10062825--10063264 Score: 314
Period size: 29 Copynumber: 15.0 Consensus size: 30
10062815 CTCAAGAGGT
*
10062825 CCTCGAACTTTCCAAAAA-T-CATGTTTTAAC
1 CCTCAAACTTTCCAAAAATTACAT-TTTT-AC
*
10062855 CCTCAAACTTTCC-AAAATTATATTTTTAC
1 CCTCAAACTTTCCAAAAATTACATTTTTAC
*
10062884 CC-CTAAAC-TTCTCAAAAATTACATTTTCAC
1 CCTC-AAACTTTC-CAAAAATTACATTTTTAC
* * *
10062914 CCTTAAA-TTTCTCCAAAATTACA-TTTTGC
1 CCTCAAACTTTC-CAAAAATTACATTTTTAC
* *
10062943 CCTTAAAC-TTCCAAAAATCACATTTTTTAC
1 CCTCAAACTTTCCAAAAATTACA-TTTTTAC
* *
10062973 TCAT-AAAC-TTCCAAAAATCACATTTTTAC
1 -CCTCAAACTTTCCAAAAATTACATTTTTAC
* * *
10063002 CC-CATAAC-TTCTTAAAAATTACATTCTCAC
1 CCTCA-AACTTTC-CAAAAATTACATTTTTAC
* *
10063032 CCTCAAA-TTTCTCTAAAATTACATTTTTGC
1 CCTCAAACTTTC-CAAAAATTACATTTTTAC
* *
10063062 CC-CTAAAC-TTCCAAAAATCATATTTTTAC
1 CCTC-AAACTTTCCAAAAATTACATTTTTAC
*
10063091 CC-CTAAAC-TTCCAAAAATCACATTTTTAC
1 CCTC-AAACTTTCCAAAAATTACATTTTTAC
*
10063120 CC-CTAAA-TTTCTAAAAATTACATTTTTAC
1 CCTC-AAACTTTCCAAAAATTACATTTTTAC
* * *
10063149 CCTTAAAC-ATCCAAAAATCACATTTTTAC
1 CCTCAAACTTTCCAAAAATTACATTTTTAC
* * *
10063178 CCCCGAAC-ATCCAAAAATTACCATTTTTAC
1 CCTCAAACTTTCCAAAAATTA-CATTTTTAC
** * *
10063208 CCTCAAA-TTTCCAAAAAACACATTTTCAA
1 CCTCAAACTTTCCAAAAATTACATTTTTAC
* *
10063237 CCTCAAATTTTCCAAAAATT-CAATTTTA
1 CCTCAAACTTTCCAAAAATTACATTTTTA
10063265 ATCCCTAATT
Statistics
Matches: 338, Mismatches: 48, Indels: 49
0.78 0.11 0.11
Matches are distributed among these distances:
28 15 0.04
29 168 0.50
30 149 0.44
31 6 0.02
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.35
Consensus pattern (30 bp):
CCTCAAACTTTCCAAAAATTACATTTTTAC
Found at i:10063040 original size:118 final size:117
Alignment explanation
Indices: 10062834--10063233 Score: 434
Period size: 118 Copynumber: 3.4 Consensus size: 117
10062824 TCCTCGAACT
** * * * *
10062834 TTCCAAAAATCATGTTTTAACCC-TCAAACTTTCC-AAAATTATATTTTTACCCCTAAACTTCTC
1 TTCCAAAAATCACATTTTTACCCAT-AAAC-TTCCAAAAATCACATTTTTACCCCT-AACTTCTT
* * *
10062897 AAAAATTACATTTTCACCCTTAAATTTCTCCAAAATTACA-TTTTGCCCTTAAAC
63 AAAAATTACATTCTCACCCTCAAATTTCTCCAAAATTACATTTTTGCCCCTAAAC
*
10062951 TTCCAAAAATCACATTTTTTACTCATAAACTTCCAAAAATCACATTTTTACCCCATAACTTCTTA
1 TTCCAAAAATCACA-TTTTTACCCATAAACTTCCAAAAATCACATTTTTACCCC-TAACTTCTTA
*
10063016 AAAATTACATTCTCACCCTCAAATTTCTCTAAAATTACATTTTTGCCCCTAAAC
64 AAAATTACATTCTCACCCTCAAATTTCTCCAAAATTACATTTTTGCCCCTAAAC
* * *
10063070 TTCCAAAAATCATATTTTTACCCCTAAACTTCCAAAAATCACATTTTTACCCCTAAATT-TCTAA
1 TTCCAAAAATCACATTTTTACCCATAAACTTCCAAAAATCACATTTTTACCCCTAACTTCT-TAA
* * * ** * * * **
10063134 AAATTACATTTTTACCCTTAAACATC-CAAAAATCACATTTTTACCCCCGAAC
65 AAATTACATTCTCACCCTCAAATTTCTCCAAAATTACATTTTTGCCCCTAAAC
* * * *
10063186 ATCCAAAAATTACCATTTTTACCC-TCAAATTTCCAAAAAACACATTTT
1 TTCCAAAAATCA-CATTTTTACCCAT-AAACTTCCAAAAATCACATTTT
10063234 CAACCTCAAA
Statistics
Matches: 245, Mismatches: 30, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
116 33 0.13
117 75 0.31
118 109 0.44
119 28 0.11
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.35
Consensus pattern (117 bp):
TTCCAAAAATCACATTTTTACCCATAAACTTCCAAAAATCACATTTTTACCCCTAACTTCTTAAA
AATTACATTCTCACCCTCAAATTTCTCCAAAATTACATTTTTGCCCCTAAAC
Found at i:10063274 original size:29 final size:29
Alignment explanation
Indices: 10063242--10063301 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
10063232 TTCAACCTCA
10063242 AATTTTCCAAAAATTCAATTTTAATCCCT
1 AATTTTCCAAAAATTCAATTTTAATCCCT
* * * *
10063271 AATTTTCTAAAATTTCACTTTTGATCCCT
1 AATTTTCCAAAAATTCAATTTTAATCCCT
10063300 AA
1 AA
10063302 ATTCCTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AATTTTCCAAAAATTCAATTTTAATCCCT
Found at i:10065170 original size:21 final size:21
Alignment explanation
Indices: 10065140--10065186 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10065130 TGACAGAAGC
* *
10065140 AAAAATAAAATAAAAACAATG
1 AAAAACAAAACAAAAACAATG
*
10065161 AAAAACAAAACAAAAATAATG
1 AAAAACAAAACAAAAACAATG
10065182 AAAAA
1 AAAAA
10065187 TTCCTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAAACAAAACAAAAACAATG
Found at i:10066208 original size:67 final size:67
Alignment explanation
Indices: 10066100--10066233 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
10066090 TGGAGGAAGA
*
10066100 AAAGACCACTCTTTTGACTTTGCGTACAAAGCTTAATCTCCCTGTAAATCCAACTACTTACACAA
1 AAAGACCACTCTTTTGACTTTGCATACAAAGCTTAATCTCCCTGTAAATCCAACTACTTACACAA
10066165 AT
66 AT
*
10066167 AAAGACCACTCTTTTGACTTTGCATACAAAGCTTAATCTCCCTGTAAATCCAGCTACTTACACAA
1 AAAGACCACTCTTTTGACTTTGCATACAAAGCTTAATCTCCCTGTAAATCCAACTACTTACACAA
10066232 AT
66 AT
10066234 TTATTTCCTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (67 bp):
AAAGACCACTCTTTTGACTTTGCATACAAAGCTTAATCTCCCTGTAAATCCAACTACTTACACAA
AT
Found at i:10073640 original size:16 final size:16
Alignment explanation
Indices: 10073619--10073652 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10073609 AATACCTACA
10073619 TAACATCAAAATTAGC
1 TAACATCAAAATTAGC
10073635 TAACATCAAAATTAGC
1 TAACATCAAAATTAGC
10073651 TA
1 TA
10073653 GATTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (16 bp):
TAACATCAAAATTAGC
Found at i:10074233 original size:82 final size:82
Alignment explanation
Indices: 10074094--10074249 Score: 249
Period size: 82 Copynumber: 1.9 Consensus size: 82
10074084 GTATAAATCT
*
10074094 GTCAATTCATGGCACCCGGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGAT
1 GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGAT
*
10074159 TAAGCAACGACAATTTC
66 TAACCAACGACAATTTC
* * * **
10074176 GTCAATTCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCCGCTCTAGTTGGAT
1 GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGAT
10074241 TAACCAACG
66 TAACCAACG
10074250 GTTTTGCGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (82 bp):
GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGAT
TAACCAACGACAATTTC
Found at i:10074340 original size:68 final size:69
Alignment explanation
Indices: 10074265--10074426 Score: 173
Period size: 79 Copynumber: 2.2 Consensus size: 69
10074255 GCGTCCAGTG
* *
10074265 CTAGTTGGATAAACCGAC-GATCCTGGCACCCAGTGCCTAGCAGATAAACCGCAAAAGTGAGTCC
1 CTAGTTGGATAAACCGACAAATCCTGGCACCCAGTGCCTAGCAGATAAACCGCAAAAGTGAGCCC
10074329 AACT
66 AACT
* * *
10074333 CTAGTTGGATTAACCAACAATGTCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAA
1 CTAGTTGGA-T-----A-AA---CCGACAAATCCTGGCACCCAGTGCCTAGCAGATAAACCGCAA
10074398 AAGTGAGCCCAACT
56 AAGTGAGCCCAACT
*
10074412 CTAGTTGGATTAACC
1 CTAGTTGGATAAACC
10074427 AACAGTTTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
68 9 0.12
69 3 0.04
72 2 0.03
74 1 0.01
75 2 0.03
78 5 0.06
79 55 0.71
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (69 bp):
CTAGTTGGATAAACCGACAAATCCTGGCACCCAGTGCCTAGCAGATAAACCGCAAAAGTGAGCCC
AACT
Found at i:10074437 original size:181 final size:184
Alignment explanation
Indices: 10074103--10074469 Score: 580
Period size: 181 Copynumber: 2.0 Consensus size: 184
10074093 TGTCAATTCA
* *
10074103 TGGCACCCGGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGATTAAGCAACG
1 TGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGATTAAGC-ACA
* * **
10074168 ACAATTTCGTCAATTCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCCGCTCT
65 ACAATTCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAACTCT
* * * *
10074233 AGTTGGATTAACCAACGGTTTTGCGTCCAGTGCTAGTTGGATAAACCGACGATCC
130 AGTTGGATTAACCAACAGTTTTGCGCCCAGCGCTAGTCGGATAAACCGACGATCC
* *
10074288 TGGCACCCAGTGCCTAGCAGATAAACCGCAA-AAGTGAGTCCAACTCTAGTTGGATTAA-C-CAA
1 TGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGATTAAGCACAA
10074350 CAATGTCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAA-AAGTGAGCCCAACTCT
66 CAAT-TCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAACTCT
10074414 AGTTGGATTAACCAACAGTTTTGCGCCCAGCGCTAGTCGGATAAACCGACGATCC
130 AGTTGGATTAACCAACAGTTTTGCGCCCAGCGCTAGTCGGATAAACCGACGATCC
10074469 T
1 T
10074470 TTAATAATTT
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
181 72 0.43
182 41 0.24
183 1 0.01
184 26 0.15
185 29 0.17
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (184 bp):
TGGCACCCAGTGCCTAGCAGATAAACAGCAATAAGTGAGCCCAACTCTAGTTGGATTAAGCACAA
CAATTCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAACTCTA
GTTGGATTAACCAACAGTTTTGCGCCCAGCGCTAGTCGGATAAACCGACGATCC
Found at i:10084239 original size:6 final size:6
Alignment explanation
Indices: 10084228--10084302 Score: 69
Period size: 6 Copynumber: 12.5 Consensus size: 6
10084218 ATGATTGTTC
* * * * * *
10084228 TATATA TATATA TACATA TATGTA TATGTA TATGTA TATTTA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * *
10084276 TACATA TATATA TGTATA TATGTA TAT
1 TATATA TATATA TATATA TATATA TAT
10084303 GTACATATGT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (6 bp):
TATATA
Found at i:10084241 original size:8 final size:8
Alignment explanation
Indices: 10084228--10084302 Score: 69
Period size: 8 Copynumber: 9.4 Consensus size: 8
10084218 ATGATTGTTC
10084228 TATATATA
1 TATATATA
*
10084236 TATATACA
1 TATATATA
*
10084244 TATATGTA
1 TATATATA
*
10084252 TATGTATA
1 TATATATA
* *
10084260 TGTATATT
1 TATATATA
*
10084268 TATATACA
1 TATATATA
*
10084276 TACATATA
1 TATATATA
*
10084284 TATATGTA
1 TATATATA
*
10084292 TATATGTA
1 TATATATA
10084300 TAT
1 TAT
10084303 GTACATATGT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 52 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (8 bp):
TATATATA
Found at i:10084311 original size:14 final size:14
Alignment explanation
Indices: 10084251--10084313 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
10084241 ACATATATGT
*
10084251 ATATGTATATGTAT
1 ATATGTATATGTAC
* * **
10084265 ATTTATATACATAC
1 ATATGTATATGTAC
* *
10084279 ATATATATATGTAT
1 ATATGTATATGTAC
10084293 ATATGTATATGTAC
1 ATATGTATATGTAC
10084307 ATATGTA
1 ATATGTA
10084314 GAAGGAGCTT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.46
Consensus pattern (14 bp):
ATATGTATATGTAC
Found at i:10087245 original size:183 final size:183
Alignment explanation
Indices: 10086908--10087263 Score: 514
Period size: 183 Copynumber: 1.9 Consensus size: 183
10086898 ATGACAGGTT
* *
10086908 ATATCAAGATCTAGCATTTGTTACGGATCATCGAGTATTATTTGTTTCTATGGAGACTTTGGTGT
1 ATATCAAGATCTAGCATTTGTTACGGATCATCGAGTACTATTTGTCTCTATGGAGACTTTGGTGT
* * * *
10086973 TGTGGAGGGACATAATTGAAAATGTTTAAACATTTAATGACTATAGGCTTTGCACTTTGTTACCT
66 GGTGGAAGGACATAATTGAAAATGTTTAAACATTTAATGACTACAGGCTTTGCACTTTGATACCT
* * * * *
10087038 TGTTGTGATGTATTTTAGGCTCATACGAGCTATCTGGTGTGGTGTAATGAAGG
131 TGGTCTGATGTAGTTTAAGCTCATACGAGCTATCTAGTGTGGTGTAATGAAGG
* *
10087091 ATATCAAGATCTAGCATTTGTTACGGATCGTCGAGTACTCTTTGTCTCTATGGAGACTTTGGTGT
1 ATATCAAGATCTAGCATTTGTTACGGATCATCGAGTACTATTTGTCTCTATGGAGACTTTGGTGT
** * * * * **
10087156 GGTGGAAGGATGTAATTGAAAATGTTTAATCATTTGATGTCTACGGGCTTTGCACTTTGATGTCT
66 GGTGGAAGGACATAATTGAAAATGTTTAAACATTTAATGACTACAGGCTTTGCACTTTGATACCT
*
10087221 TGGTCTGGTGTAGTTTAAGCTCATACGAGCTATCTAGTGTGGT
131 TGGTCTGATGTAGTTTAAGCTCATACGAGCTATCTAGTGTGGT
10087264 TTAGTTCACC
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
183 151 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (183 bp):
ATATCAAGATCTAGCATTTGTTACGGATCATCGAGTACTATTTGTCTCTATGGAGACTTTGGTGT
GGTGGAAGGACATAATTGAAAATGTTTAAACATTTAATGACTACAGGCTTTGCACTTTGATACCT
TGGTCTGATGTAGTTTAAGCTCATACGAGCTATCTAGTGTGGTGTAATGAAGG
Found at i:10091278 original size:37 final size:36
Alignment explanation
Indices: 10091229--10091336 Score: 106
Period size: 37 Copynumber: 3.1 Consensus size: 36
10091219 ATTCTAAAAA
10091229 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
*
10091265 TAATACTTATTTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATTTTAATAGT-TTAATATTAAATTTAAT-T
*
10091302 TAA-AGTGA--TT-ATA--TTAATATTAAATTTAATT
1 TAATA-TTATTTTAATAGTTTAATATTAAATTTAATT
10091333 TAAT
1 TAAT
10091337 GTTTATCTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 8 0.13
33 3 0.05
34 2 0.03
36 16 0.26
37 21 0.34
38 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAAATTTAATT
Found at i:10091302 original size:11 final size:11
Alignment explanation
Indices: 10091229--10091304 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
10091219 ATTCTAAAAA
*
10091229 TAATATTATTT
1 TAATATTAATT
10091240 TAATAGTTTAATAT
1 TAATA--TTAAT-T
10091254 TAA-ATTTAATT
1 TAATA-TTAATT
*
10091265 TAATACTTATTT
1 TAATA-TTAATT
*
10091277 TAATAGT-ATT
1 TAATATTAATT
10091287 T--TATTAATT
1 TAATATTAATT
10091296 TAATATTAA
1 TAATATTAA
10091305 AGTGATTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 16 0.31
12 17 0.33
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:10091312 original size:20 final size:18
Alignment explanation
Indices: 10091230--10091336 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 18
10091220 TTCTAAAAAT
* *
10091230 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
10091249 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
10091266 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
10091285 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
10091304 AAGTGATT-ATATTAATATTA
1 AA-T-ATTAAT-TTAATATTA
10091324 AAT-TTAATTTAAT
1 AATATTAATTTAAT
10091337 GTTTATCTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
17 18 0.26
18 7 0.10
19 22 0.31
20 23 0.33
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:10098151 original size:31 final size:31
Alignment explanation
Indices: 10098090--10098208 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 31
10098080 ATTGTTTGTG
*
10098090 ACCCCCAAACTTT-TAAAAA-TT-ATATTTTA
1 ACCCCCAAATTTTCTAAAAATTTGA-ATTTTA
* *
10098119 ACCCCCGAATTTTCTAAAACTTTGAATTTTA
1 ACCCCCAAATTTTCTAAAAATTTGAATTTTA
* * *
10098150 ACCCCTAAATTTTCTAAAAATTTTAA-TTTG
1 ACCCCCAAATTTTCTAAAAATTTGAATTTTA
* * * *
10098180 ACCCCCACACTTTCCAAAAATTTTAATTT
1 ACCCCCAAATTTTCTAAAAATTTGAATTT
10098209 GACCCCTGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 11 0.15
30 30 0.41
31 32 0.43
32 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (31 bp):
ACCCCCAAATTTTCTAAAAATTTGAATTTTA
Found at i:10098231 original size:30 final size:29
Alignment explanation
Indices: 10098088--10098231 Score: 101
Period size: 30 Copynumber: 4.8 Consensus size: 29
10098078 AAATTGTTTG
* * *
10098088 TGACCCCCAAACTTTT-AAAAATTATATTT
1 TGACCCCTAAA-TTTTCAAAAATTTTAATT
* ** * *
10098117 TAACCCCCGAATTTTCTAAAACTTTGAATTT
1 TGACCCCTAAATTTTC-AAAAATTTTAA-TT
*
10098148 TAACCCCTAAATTTTCTAAAAATTTTAATT
1 TGACCCCTAAATTTTC-AAAAATTTTAATT
* * *
10098178 TGACCCCCACACTTTCCAAAAATTTTAATT
1 TGACCCCTA-AATTTTCAAAAATTTTAATT
* *
10098208 TGACCCCTGAAGTTTTCAGAAATT
1 TGACCCCT-AAATTTTCAAAAATT
10098232 CAAATTTGGC
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.04
29 9 0.10
30 47 0.51
31 32 0.35
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (29 bp):
TGACCCCTAAATTTTCAAAAATTTTAATT
Found at i:10100721 original size:21 final size:20
Alignment explanation
Indices: 10100672--10100723 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
10100662 TGTGCTAGTT
*
10100672 CTACCGATACAAGTATGATTT
1 CTACCGATACAAGTATGA-TA
*
10100693 CTATCGATACAAGTCATGCA-A
1 CTACCGATACAAGT-ATG-ATA
10100714 CTACCGATAC
1 CTACCGATAC
10100724 CAAAAACTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 22 0.85
22 3 0.12
23 1 0.04
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (20 bp):
CTACCGATACAAGTATGATA
Found at i:10106608 original size:21 final size:21
Alignment explanation
Indices: 10106579--10106618 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10106569 TCACTTTAGA
* *
10106579 AATTCTTGATCAATATTTGCT
1 AATTCTTGACCAACATTTGCT
*
10106600 AATTTTTGACCAACATTTG
1 AATTCTTGACCAACATTTG
10106619 TTATCTTGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (21 bp):
AATTCTTGACCAACATTTGCT
Found at i:10107241 original size:50 final size:50
Alignment explanation
Indices: 10107187--10107315 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
10107177 TAAAGGAACG
* * * *
10107187 GATTGAAGCCGCAATGGCAAATCTTATACACCTAAAACTGTAGAGGGGTA
1 GATTGAAGCCGCAATGGCGAATCTTATACAACTAAAACTGTAGAAGGGCA
* * * * * *
10107237 GATTGAAACCGCAATGACGAATCTCATTCAACTAAAGCTGTATAAGGGCA
1 GATTGAAGCCGCAATGGCGAATCTTATACAACTAAAACTGTAGAAGGGCA
*
10107287 GATTGAAGTCGCAA-GGACGAATCTTATAC
1 GATTGAAGCCGCAATGG-CGAATCTTATAC
10107316 TCCTGAAGTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (50 bp):
GATTGAAGCCGCAATGGCGAATCTTATACAACTAAAACTGTAGAAGGGCA
Found at i:10107379 original size:40 final size:39
Alignment explanation
Indices: 10107335--10107457 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 39
10107325 TGAAATGGAG
10107335 TGAAGATATTTCAATCTCTTACCCCGACCATGAGGCAGAT
1 TGAAGATA-TTCAATCTCTTACCCCGACCATGAGGCAGAT
* * ** *
10107375 TGAAGCA-ATCCAATCTTTTACCCTAACCA-GAGGGCATAT
1 TGAAG-ATATTCAATCTCTTACCCCGACCATGA-GGCAGAT
*
10107414 TGAAGACTA-TCAAATCTCTTACCCCGACCATGGGGCAGAT
1 TGAAGA-TATTC-AATCTCTTACCCCGACCATGAGGCAGAT
10107454 TGAA
1 TGAA
10107458 ACAGTCCAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
38 3 0.05
39 29 0.44
40 32 0.48
41 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
TGAAGATATTCAATCTCTTACCCCGACCATGAGGCAGAT
Found at i:10107389 original size:39 final size:39
Alignment explanation
Indices: 10107346--10107477 Score: 149
Period size: 39 Copynumber: 3.4 Consensus size: 39
10107336 GAAGATATTT
10107346 CAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAATC
1 CAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAATC
* ** * *
10107385 CAATCTTTTACCCTAACCA-GAGGGCATATTGAAGACTATC
1 CAATCTCTTACCCCGACCATGA-GGCAGATTGAAG-CAATC
* * * *
10107425 AAATCTCTTACCCCGACCATGGGGCAGATTGAAACAGTC
1 CAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAATC
*
10107464 CAATCTTTTACCCC
1 CAATCTCTTACCCC
10107478 TAAAGCTATA
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
38 2 0.03
39 42 0.57
40 29 0.39
41 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (39 bp):
CAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAATC
Found at i:10107517 original size:19 final size:21
Alignment explanation
Indices: 10107478--10107517 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10107468 CTTTTACCCC
*
10107478 TAAAGCTATAGAGAGGCAAAT
1 TAAAGCTACAGAGAGGCAAAT
10107499 TAAAGCTACAGA-A-GCAAAT
1 TAAAGCTACAGAGAGGCAAAT
10107518 CCTATACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.17
Consensus pattern (21 bp):
TAAAGCTACAGAGAGGCAAAT
Found at i:10109348 original size:30 final size:29
Alignment explanation
Indices: 10109176--10109359 Score: 163
Period size: 30 Copynumber: 6.1 Consensus size: 29
10109166 TTTAAAATTG
* * *
10109176 TTTGACTCCTAAACTTTTTAAAAA-TTATAT
1 TTTGACCCCTAAA-TTTTCAAAAATTTA-AA
*
10109206 TTTGACCCCTAAATTTTCTAAAAATTTGAA
1 TTTGACCCCTAAATTTTC-AAAAATTTAAA
*
10109236 TTTGACCCCTAAATTTTTCAAAAATTCAAA
1 TTTGACCCCTAAA-TTTTCAAAAATTTAAA
* **
10109266 TTTGACCCTTAAATTTTCCAAAAATACAAA
1 TTTGACCCCTAAATTTT-CAAAAATTTAAA
* *** **
10109296 TTTGACCCCTACACTACCCAAAAATTTTGA
1 TTTGACCCCTA-AATTTTCAAAAATTTAAA
*
10109326 TTTGACCCCTGAAGTTTTCAAAAATTTAAA
1 TTTGACCCCT-AAATTTTCAAAAATTTAAA
10109356 TTTG
1 TTTG
10109360 GCCTAATTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
29 8 0.06
30 107 0.86
31 10 0.08
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTGACCCCTAAATTTTCAAAAATTTAAA
Found at i:10109440 original size:27 final size:26
Alignment explanation
Indices: 10109410--10109511 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 26
10109400 TATATGCGTA
10109410 TGTATATTATGTTATTTTATTGTATTT
1 TGTATATTAT-TTATTTTATTGTATTT
* *
10109437 TGTATATGTATTATTTTTTATTATGTGCA-TA
1 TGTATAT-TATT-TATTTTA-T-TGT--ATTT
*
10109468 TGTATATTATTTTATTTTATTATATTT
1 TGTATATTA-TTTATTTTATTGTATTT
10109495 TGTATATGTA-TTATTTT
1 TGTATAT-TATTTATTTT
10109512 TTATTATGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
26 8 0.13
27 16 0.26
28 13 0.21
29 2 0.03
30 11 0.18
31 10 0.16
32 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.65
Consensus pattern (26 bp):
TGTATATTATTTATTTTATTGTATTT
Found at i:10109458 original size:33 final size:32
Alignment explanation
Indices: 10109408--10109522 Score: 106
Period size: 30 Copynumber: 3.8 Consensus size: 32
10109398 TTTATATGCG
*
10109408 TATGTA-TATTATGTTATTTTATTGTATTTTGTA
1 TATGTATTATTAT-TT-TATTATTGTATTTTGTA
* *
10109441 TATGTATTATT-TTTTATTATGTGCA-TATGTA
1 TATGTATTATTATTTTATTAT-TGTATTTTGTA
10109472 TAT-TATT-TTATTTTATTA---TATTTTGTA
1 TATGTATTATTATTTTATTATTGTATTTTGTA
10109499 TATGTATTATT-TTTTATTA-TGTAT
1 TATGTATTATTATTTTATTATTGTAT
10109523 ACTTGTAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
26 1 0.01
27 8 0.12
28 12 0.17
29 4 0.06
30 15 0.22
31 13 0.19
32 5 0.07
33 7 0.10
34 4 0.06
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (32 bp):
TATGTATTATTATTTTATTATTGTATTTTGTA
Found at i:10109470 original size:58 final size:58
Alignment explanation
Indices: 10109395--10109520 Score: 209
Period size: 58 Copynumber: 2.2 Consensus size: 58
10109385 ATTTAATTCC
* * *
10109395 TTTT-TTATATGCGTATGTATATTATGTTATTTTATTGTATTTTGTATATGTATTATT
1 TTTTATTATGTGCATATGTATATTATGTTATTTTATTATATTTTGTATATGTATTATT
*
10109452 TTTTATTATGTGCATATGTATATTATTTTATTTTATTATATTTTGTATATGTATTATT
1 TTTTATTATGTGCATATGTATATTATGTTATTTTATTATATTTTGTATATGTATTATT
10109510 TTTTATTATGT
1 TTTTATTATGT
10109521 ATACTTGTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 4 0.06
58 60 0.94
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (58 bp):
TTTTATTATGTGCATATGTATATTATGTTATTTTATTATATTTTGTATATGTATTATT
Found at i:10109472 original size:31 final size:28
Alignment explanation
Indices: 10109395--10109520 Score: 100
Period size: 28 Copynumber: 4.5 Consensus size: 28
10109385 ATTTAATTCC
*
10109395 TTTTTTA-TATGCGTATGTATAT-TATGT-
1 TTTTTTATTATG-TTATGTATATGTAT-TA
* * * *
10109422 TATTTTATTGTATTTTGTATATGTATTA
1 TTTTTTATTATGTTATGTATATGTATTA
10109450 TTTTTTATTATGTGCATATGTATAT-TATT-
1 TTTTTTATTATGT---TATGTATATGTATTA
* *
10109479 TTATTTTATTATATTTTGTATATGTATTA
1 TT-TTTTATTATGTTATGTATATGTATTA
10109508 TTTTTTATTATGT
1 TTTTTTATTATGT
10109521 ATACTTGTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
27 23 0.29
28 29 0.37
29 4 0.05
30 14 0.18
31 8 0.10
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (28 bp):
TTTTTTATTATGTTATGTATATGTATTA
Found at i:10109512 original size:27 final size:28
Alignment explanation
Indices: 10109424--10109518 Score: 113
Period size: 28 Copynumber: 3.3 Consensus size: 28
10109414 TATTATGTTA
*
10109424 TTTTATTGTATTTTGTATATGTATTATT
1 TTTTATTATATTTTGTATATGTATTATT
* *
10109452 TTTTATTATGTGCATATGTATAT-TATT-TT
1 TTTTATTATAT---TTTGTATATGTATTATT
10109481 ATTTTATTATATTTTGTATATGTATTATT
1 -TTTTATTATATTTTGTATATGTATTATT
10109510 TTTTATTAT
1 TTTTATTAT
10109519 GTATACTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
27 8 0.14
28 22 0.39
29 4 0.07
30 14 0.25
31 8 0.14
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.66
Consensus pattern (28 bp):
TTTTATTATATTTTGTATATGTATTATT
Found at i:10109529 original size:31 final size:30
Alignment explanation
Indices: 10109430--10109529 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
10109420 GTTATTTTAT
*
10109430 TGTATTTTGTATATGTATTATTTTTTATTA
1 TGTATATTGTATATGTATTATTTTTTATTA
10109460 TGTGCATA-TGTATAT-TATT-TTATTTTATTA
1 TGT--ATATTGTATATGTATTATT-TTTTATTA
*
10109490 --TATTTTGTATATGTATTATTTTTTATTA
1 TGTATATTGTATATGTATTATTTTTTATTA
10109518 TGTATACTTGTA
1 TGTATA-TTGTA
10109530 AATCATGTGC
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
26 2 0.03
27 7 0.12
28 13 0.22
29 4 0.07
30 18 0.31
31 12 0.21
32 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (30 bp):
TGTATATTGTATATGTATTATTTTTTATTA
Found at i:10111055 original size:18 final size:17
Alignment explanation
Indices: 10111025--10111065 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10111015 TTTAATCTTT
*
10111025 TAAAATTA-TAAAAATA
1 TAAAATTATTAAAAAAA
10111041 T-AAATTATTAAAAAAA
1 TAAAATTATTAAAAAAA
10111057 TAAAATTAT
1 TAAAATTAT
10111066 ATTTTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 9 0.41
17 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTATTAAAAAAA
Found at i:10115107 original size:2 final size:2
Alignment explanation
Indices: 10115100--10115133 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10115090 TTTGGGATAA
10115100 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10115134 TATCTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10134695 original size:22 final size:22
Alignment explanation
Indices: 10134660--10134701 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10134650 ATAGATGAAT
10134660 ATTTGAATTATGAGTAATTTAA
1 ATTTGAATTATGAGTAATTTAA
* *
10134682 ATTTGGATTCTGAGTAATTT
1 ATTTGAATTATGAGTAATTT
10134702 GGGCAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
ATTTGAATTATGAGTAATTTAA
Found at i:10137096 original size:20 final size:20
Alignment explanation
Indices: 10137067--10137122 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10137057 AGTTCAAAAA
*
10137067 CGATTCAAACATTTTTAAAT
1 CGATTGAAACATTTTTAAAT
* *
10137087 CGATTGAAACCTTTTCAAAT
1 CGATTGAAACATTTTTAAAT
*
10137107 CGATTGAAATATTTTT
1 CGATTGAAACATTTTT
10137123 TTTATTGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (20 bp):
CGATTGAAACATTTTTAAAT
Found at i:10138767 original size:31 final size:31
Alignment explanation
Indices: 10138727--10138789 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
10138717 ATTAATGGTG
*
10138727 AGTGCTTAAAATAATAAAAATATATAATAAC
1 AGTGATTAAAATAATAAAAATATATAATAAC
* *
10138758 AGTGATTAAAATGATAAAAATATATACTAAC
1 AGTGATTAAAATAATAAAAATATATAATAAC
10138789 A
1 A
10138790 TTGCCTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (31 bp):
AGTGATTAAAATAATAAAAATATATAATAAC
Found at i:10139345 original size:17 final size:19
Alignment explanation
Indices: 10139312--10139352 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
10139302 TCTTATAAGC
*
10139312 ATTTTAATATGTATTTTTT
1 ATTTTAATATGTATTTTTA
10139331 ATTTT-ATAT-TATTTTTA
1 ATTTTAATATGTATTTTTA
10139348 ATTTT
1 ATTTT
10139353 TTAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 4 0.19
19 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTAATATGTATTTTTA
Found at i:10139353 original size:18 final size:19
Alignment explanation
Indices: 10139312--10139353 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
10139302 TCTTATAAGC
* *
10139312 ATTTTAATATGTATTTTTT
1 ATTTTTATATGTATTTTTA
10139331 A-TTTTATAT-TATTTTTA
1 ATTTTTATATGTATTTTTA
10139348 ATTTTT
1 ATTTTT
10139354 TAATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 11 0.55
19 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTATATGTATTTTTA
Found at i:10140623 original size:14 final size:15
Alignment explanation
Indices: 10140597--10140636 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
10140587 ATGGGGTGAG
10140597 AATAAATTTTAATTA
1 AATAAATTTTAATTA
10140612 AATAAA-TTTAATTA
1 AATAAATTTTAATTA
*
10140626 ATTAAAATTTT
1 AAT-AAATTTT
10140637 TAAACCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 10 0.45
15 9 0.41
16 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTTTAATTA
Found at i:10146884 original size:16 final size:16
Alignment explanation
Indices: 10146860--10146911 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
10146850 AAAAATTATA
10146860 TTTTCATCCTTCTAAT
1 TTTTCATCCTTCTAAT
*
10146876 TTTTTATCCTT-TCAAT
1 TTTTCATCCTTCT-AAT
* *
10146892 TTTCCATCCTTCTTAT
1 TTTTCATCCTTCTAAT
10146908 TTTT
1 TTTT
10146912 TCCACTCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTCATCCTTCTAAT
Found at i:10151254 original size:19 final size:18
Alignment explanation
Indices: 10151235--10151294 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
10151225 GATCCAATAT
10151235 TGCTCATACGAGCCAGTA
1 TGCTCATACGAGCCAGTA
*
10151253 TTGCTCTTAC-ATGCCAGTA
1 -TGCTCATACGA-GCCAGTA
* *
10151272 TGCTTAAACGAG-CAGTA
1 TGCTCATACGAGCCAGTA
10151289 TGCTCA
1 TGCTCA
10151295 AAATAAGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 16 0.47
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (18 bp):
TGCTCATACGAGCCAGTA
Found at i:10152688 original size:14 final size:14
Alignment explanation
Indices: 10152669--10152699 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10152659 TTTTACTTTA
10152669 TTTTATTTTTATCC
1 TTTTATTTTTATCC
*
10152683 TTTTATTTTTATGC
1 TTTTATTTTTATCC
10152697 TTT
1 TTT
10152700 CAAACAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTATCC
Found at i:10156757 original size:27 final size:27
Alignment explanation
Indices: 10156727--10156797 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
10156717 GACACACGGG
10156727 ATAAGATTGCTCACACGAGATGTGAAA
1 ATAAGATTGCTCACACGAGATGTGAAA
* *
10156754 ATAA-A-TGCTCACATGAGCTGTGAAA
1 ATAAGATTGCTCACACGAGATGTGAAA
* *
10156779 AT-GGGTCTGCTCACACGAG
1 ATAAGAT-TGCTCACACGAG
10156798 CTATCGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 20 0.56
26 1 0.03
27 15 0.42
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (27 bp):
ATAAGATTGCTCACACGAGATGTGAAA
Found at i:10158174 original size:67 final size:68
Alignment explanation
Indices: 10158065--10158205 Score: 216
Period size: 67 Copynumber: 2.1 Consensus size: 68
10158055 AGTTTAGCTG
* * *
10158065 AGCTCCTGACAAAGTCCGACTTGCGTAGTAGATGGATGAAAAAC-TTATTCCTTCA-TTGGCCCA
1 AGCTCCTGACAAAGTCCAACTTGCATAATAGATGGATGAAAAACTTTATTCCTTCACTT-GCCCA
10158128 TCAC
65 TCAC
10158132 AGCTCCTGACAAAGTCCAACTTGCATAATAGATGGGAT-AAAAACTTTATTCCTTCACTTGCCCA
1 AGCTCCTGACAAAGTCCAACTTGCATAATAGAT-GGATGAAAAACTTTATTCCTTCACTTGCCCA
10158196 TCAC
65 TCAC
10158200 AGCTCC
1 AGCTCC
10158206 GACCGTGAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
67 36 0.53
68 30 0.44
69 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (68 bp):
AGCTCCTGACAAAGTCCAACTTGCATAATAGATGGATGAAAAACTTTATTCCTTCACTTGCCCAT
CAC
Found at i:10159610 original size:21 final size:18
Alignment explanation
Indices: 10159584--10159636 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
10159574 TTCTAAAGGA
10159584 TCTTCAACAGAGTTGAATTCC
1 TCTTCAA-AGA-TT-AATTCC
*
10159605 TCTTCAATGATTAATTCC
1 TCTTCAAAGATTAATTCC
*
10159623 TCTTCAATGATTAA
1 TCTTCAAAGATTAA
10159637 CTCTTCTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 20 0.65
19 2 0.06
20 2 0.06
21 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (18 bp):
TCTTCAAAGATTAATTCC
Found at i:10159622 original size:18 final size:18
Alignment explanation
Indices: 10159599--10159636 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10159589 AACAGAGTTG
10159599 AATTCCTCTTCAATGATT
1 AATTCCTCTTCAATGATT
10159617 AATTCCTCTTCAATGATT
1 AATTCCTCTTCAATGATT
10159635 AA
1 AA
10159637 CTCTTCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (18 bp):
AATTCCTCTTCAATGATT
Found at i:10159642 original size:15 final size:16
Alignment explanation
Indices: 10159604--10159642 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
10159594 AGTTGAATTC
10159604 CTCTTCAATGATTAATT
1 CTCTTCAATGATTAA-T
10159621 CCTCTTCAATGATTAA-
1 -CTCTTCAATGATTAAT
10159637 CTCTTC
1 CTCTTC
10159643 TAACTTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
18 15 0.71
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (16 bp):
CTCTTCAATGATTAAT
Found at i:10166313 original size:33 final size:33
Alignment explanation
Indices: 10166270--10166346 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
10166260 TTTTCCTATT
*
10166270 TTGCTCTTTATTTTTACAAACTCCACCTTGATG
1 TTGCTATTTATTTTTACAAACTCCACCTTGATG
10166303 TTGCTATTTATTTTTACAAACTCCACCTTGATG
1 TTGCTATTTATTTTTACAAACTCCACCTTGATG
10166336 TTGCTATTTAT
1 TTGCTATTTAT
10166347 CCTTAATACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (33 bp):
TTGCTATTTATTTTTACAAACTCCACCTTGATG
Found at i:10176204 original size:18 final size:17
Alignment explanation
Indices: 10176174--10176207 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10176164 TATTGCTTTC
10176174 TTTGTTTTAGTTTTTAA
1 TTTGTTTTAGTTTTTAA
*
10176191 TTTGATTTTGGTTTTTA
1 TTTG-TTTTAGTTTTTA
10176208 TTTTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (17 bp):
TTTGTTTTAGTTTTTAA
Found at i:10179894 original size:57 final size:58
Alignment explanation
Indices: 10179805--10179947 Score: 234
Period size: 57 Copynumber: 2.4 Consensus size: 58
10179795 TCGGCCATTA
* *
10179805 ATAAAAAAATATTTTTTCTTGGTGTCGCCCATGCCATGGTCGACACCACCTTTGTCAG
1 ATAAAAAAATATTTTTTCTTGGTGTCACCCATGCCATGGTCGACACCACCTTTATCAG
*
10179863 ATAAAAAAATATTTTTT-TTGGTGTCACCCATGCCATGGTCGACACCACCTTTATCTG
1 ATAAAAAAATATTTTTTCTTGGTGTCACCCATGCCATGGTCGACACCACCTTTATCAG
10179920 ATAAAAAAATATATTTTTTCTTGGTGTC
1 AT-AAAAAA-ATATTTTTTCTTGGTGTC
10179948 GTCCATACTA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
57 39 0.49
58 23 0.29
59 9 0.11
60 8 0.10
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (58 bp):
ATAAAAAAATATTTTTTCTTGGTGTCACCCATGCCATGGTCGACACCACCTTTATCAG
Found at i:10180691 original size:18 final size:17
Alignment explanation
Indices: 10180670--10180725 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
10180660 ATTAAATTTA
10180670 AAATATAAACGAAATTAC
1 AAAT-TAAACGAAATTAC
*
10180688 AAATT--A--AATTTA-
1 AAATTAAACGAAATTAC
10180700 AAATATAAACGAAATTAC
1 AAAT-TAAACGAAATTAC
10180718 AAATTAAA
1 AAATTAAA
10180726 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
15 2 0.07
17 10 0.33
18 8 0.27
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (17 bp):
AAATTAAACGAAATTAC
Found at i:10180738 original size:30 final size:30
Alignment explanation
Indices: 10180622--10180743 Score: 163
Period size: 30 Copynumber: 4.1 Consensus size: 30
10180612 AAAAAGTAAT
* * * * **
10180622 AATTAGAAATGAAATTTAGAATAAAAATAA
1 AATTACAAATTAAATTTAAAATATAAACGA
*
10180652 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
10180682 AATTACAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
* *
10180712 AATTACAAATTAAATTTAAAAAATAAATGA
1 AATTACAAATTAAATTTAAAATATAAACGA
10180742 AA
1 AA
10180744 AAATCAAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (30 bp):
AATTACAAATTAAATTTAAAATATAAACGA
Found at i:10181183 original size:12 final size:12
Alignment explanation
Indices: 10181162--10181195 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10181152 ATATTGGGGA
10181162 TCGGGCTGGTGC
1 TCGGGCTGGTGC
*
10181174 TCGGGTTGGTGC
1 TCGGGCTGGTGC
10181186 TCGGGCTGGT
1 TCGGGCTGGT
10181196 CCGCAGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.50, T:0.29
Consensus pattern (12 bp):
TCGGGCTGGTGC
Found at i:10181801 original size:25 final size:25
Alignment explanation
Indices: 10181771--10181820 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10181761 TTTGTAAAAA
10181771 AATATTTCGAAAATGTAAAAAATAT
1 AATATTTCGAAAATGTAAAAAATAT
* **
10181796 AATATTTCTAATTTGTAAAAAATAT
1 AATATTTCGAAAATGTAAAAAATAT
10181821 TCCGAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
AATATTTCGAAAATGTAAAAAATAT
Found at i:10181928 original size:69 final size:68
Alignment explanation
Indices: 10181771--10181929 Score: 230
Period size: 68 Copynumber: 2.3 Consensus size: 68
10181761 TTTGTAAAAA
* * * *
10181771 AATATTTCGAAAATGTAAAAAATATAATATTTCTAATTTGTAAAAAATATTCCGAAAATTTATTT
1 AATATTTCGAAAATGTAAAAAATATAAGATTTATAATTTGTAAAAAATATTACGAAAATATATTT
10181836 TTT
66 TTT
* * *
10181839 AATATTTTGAAAATGTAAAAAGTATAAGATTTATGATTTGTAAAAAAATATTACGAAAATATA-T
1 AATATTTCGAAAATGTAAAAAATATAAGATTTATAATTTGT-AAAAAATATTACGAAAATATATT
10181903 TTTT
65 TTTT
*
10181907 AATATTTCGAAAATATAAAAAAT
1 AATATTTCGAAAATGTAAAAAAT
10181930 TATGTAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 61 0.76
69 19 0.24
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (68 bp):
AATATTTCGAAAATGTAAAAAATATAAGATTTATAATTTGTAAAAAATATTACGAAAATATATTT
TTT
Found at i:10183335 original size:29 final size:30
Alignment explanation
Indices: 10183303--10183359 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10183293 TTGGCCATGG
10183303 CATGACCGACACC-AAATTTTTTTTAATGT
1 CATGACCGACACCAAAATTTTTTTTAATGT
* *
10183332 CATGGCTGACACCAAAATTTTTTTTAAT
1 CATGACCGACACCAAAATTTTTTTTAAT
10183360 CTGATAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (30 bp):
CATGACCGACACCAAAATTTTTTTTAATGT
Found at i:10183412 original size:36 final size:34
Alignment explanation
Indices: 10183341--10183412 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
10183331 TCATGGCTGA
* *
10183341 CACCAAAATTTTTTTTAATCTGATAGATGGTTGT
1 CACCAAAATTTTTTTTAATCTGATAAATGGATGT
* *
10183375 CACCAAAATGTTTTTTTTATCTGATAAAGTTGATGT
1 CACCAAAAT-TTTTTTTAATCTGATAAA-TGGATGT
10183411 CA
1 CA
10183413 GCCATTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 9 0.28
35 16 0.50
36 7 0.22
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
CACCAAAATTTTTTTTAATCTGATAAATGGATGT
Found at i:10199931 original size:14 final size:14
Alignment explanation
Indices: 10199912--10199940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10199902 GATTGTGTAA
10199912 ACTTGCACATTTTC
1 ACTTGCACATTTTC
10199926 ACTTGCACATTTTC
1 ACTTGCACATTTTC
10199940 A
1 A
10199941 TTGTTCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (14 bp):
ACTTGCACATTTTC
Found at i:10200831 original size:58 final size:56
Alignment explanation
Indices: 10200721--10200854 Score: 153
Period size: 58 Copynumber: 2.4 Consensus size: 56
10200711 CTACAAAGGC
** * ** * *
10200721 TTCCATTT-CAGAGATTTACACAAACATTTCTTAAATAGAGTTCGTCAGAAAGGTGT
1 TTCC-TTTACAGAGATTGCCACAAACATTTCTTAAACAGAGTTCACCAAAAAGGCGT
*
10200777 TTCCTTTACAGAGATTGCCACAAAGCCATTTCTTAAACAGGGTTCACCAAAAAGGCGT
1 TTCCTTTACAGAGATTGCCACAAA--CATTTCTTAAACAGAGTTCACCAAAAAGGCGT
*
10200835 TTCCTTTACAAAGATTGCCA
1 TTCCTTTACAGAGATTGCCA
10200855 TAAAAGCACT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 3 0.05
56 18 0.27
58 45 0.68
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (56 bp):
TTCCTTTACAGAGATTGCCACAAACATTTCTTAAACAGAGTTCACCAAAAAGGCGT
Found at i:10207709 original size:102 final size:102
Alignment explanation
Indices: 10207542--10207728 Score: 295
Period size: 102 Copynumber: 1.8 Consensus size: 102
10207532 AAATATATAA
*
10207542 ATAGAGAATAAATTATATCAAGATGATTCTAAAATATATAGTTTTTAGGTATCAATAATAAAATG
1 ATAGAGAATAAATTATATCAAGATGATTCTAAAATATATAGTTTTTAGGTACCAATAATAAAATG
*
10207607 TCATATCATCAATTTTTAAAAATGTAAAAATCTTATT
66 TCACATCATCAATTTTTAAAAATGTAAAAATCTTATT
* * * *
10207644 ATAGGGAATAACTTATATTAAGATGATTTTAAAATATATAGTTTTTAGGTACCAATAA-AATAAT
1 ATAGAGAATAAATTATATCAAGATGATTCTAAAATATATAGTTTTTAGGTACCAATAATAA-AAT
*
10207708 GTTACATCATCAATTTTTAAA
65 GTCACATCATCAATTTTTAAA
10207729 GACATAAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 2 0.03
102 75 0.97
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.39
Consensus pattern (102 bp):
ATAGAGAATAAATTATATCAAGATGATTCTAAAATATATAGTTTTTAGGTACCAATAATAAAATG
TCACATCATCAATTTTTAAAAATGTAAAAATCTTATT
Found at i:10212128 original size:26 final size:28
Alignment explanation
Indices: 10212080--10212147 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
10212070 ATACGGGGCC
* *
10212080 ATTCCTTCAGAGTTTCGCCATACATATT
1 ATTCCTTAAGAGTTTCGCCATACATACT
10212108 ATT-CTTAAGAGTTT-GCCATACATACT
1 ATTCCTTAAGAGTTTCGCCATACATACT
*
10212134 ATTCCTTTAGAGTT
1 ATTCCTTAAGAGTT
10212148 CACCATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.39
27 19 0.53
28 3 0.08
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (28 bp):
ATTCCTTAAGAGTTTCGCCATACATACT
Found at i:10222252 original size:6 final size:6
Alignment explanation
Indices: 10222237--10222274 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
10222227 TAAAGGTAGG
*
10222237 CCTGCA CCTGCG CCTGCA CCTGCA CCTGCA CCTGCA CC
1 CCTGCA CCTGCA CCTGCA CCTGCA CCTGCA CCTGCA CC
10222275 AATCCATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.13, C:0.53, G:0.18, T:0.16
Consensus pattern (6 bp):
CCTGCA
Found at i:10223176 original size:11 final size:10
Alignment explanation
Indices: 10223154--10223205 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
10223144 CAATCACTTG
10223154 AAAAAG-AAA
1 AAAAAGAAAA
*
10223163 AAAATG-AAA
1 AAAAAGAAAA
10223172 AAAAAGAAGAA
1 AAAAAGAA-AA
10223183 AGAAAAGAAAA
1 A-AAAAGAAAA
10223194 AGAAAAGAAAA
1 A-AAAAGAAAA
10223205 A
1 A
10223206 TAAATTGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 13 0.34
10 1 0.03
11 17 0.45
12 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:10223191 original size:5 final size:5
Alignment explanation
Indices: 10223155--10223204 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
10223145 AATCACTTGA
*
10223155 AAAAG AAAA- AAATG AAAA- AAAAG AAGAAAG AAAAG AAAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -A-AAAG AAAAG -AAAAG AAAAG
10223201 AAAA
1 AAAA
10223205 ATAAATTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 7 0.18
5 20 0.53
6 7 0.18
7 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:10225771 original size:25 final size:25
Alignment explanation
Indices: 10225741--10225793 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10225731 TTCTCAAATT
*
10225741 TTTACCATGGGCAAAATCCTCAAAA
1 TTTACCAAGGGCAAAATCCTCAAAA
* **
10225766 TTTACCAAGGGTAAAATTGTCAAAA
1 TTTACCAAGGGCAAAATCCTCAAAA
10225791 TTT
1 TTT
10225794 TGTTGGGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (25 bp):
TTTACCAAGGGCAAAATCCTCAAAA
Found at i:10233532 original size:12 final size:12
Alignment explanation
Indices: 10233502--10233533 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10233492 AAATTAAAAT
*
10233502 ATAATTCCTATA
1 ATAATTTCTATA
10233514 ATAATTTCTATA
1 ATAATTTCTATA
10233526 ATAATTTC
1 ATAATTTC
10233534 AACTGCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATTTCTATA
Found at i:10235655 original size:91 final size:92
Alignment explanation
Indices: 10235482--10235680 Score: 256
Period size: 91 Copynumber: 2.2 Consensus size: 92
10235472 TAAATACCAT
* * * * * *
10235482 TTTGAGTAATAAAGTGTAGTTTAAGTGCCACTTATAACAAAAAAAAACGTTTAGGTACTAACCTG
1 TTTGGGTAATGAAGTATAGTTTAAGTACCACTTATAACAAAAAAAAACGTCTAGATACTAACCTG
**
10235547 GGAAAAAGGGTATAGTTGAGGTGTCAC
66 GGAAAAAGGGTATAGTTGAGGTAACAC
* * * * *
10235574 TTTGGGTAATGAAGTATAGTTTCAGTACCACTTATGACCAAAAAAAA-GTCTAGATACTAACTTT
1 TTTGGGTAATGAAGTATAGTTTAAGTACCACTTATAACAAAAAAAAACGTCTAGATACTAACCTG
*
10235638 GGAAAAAGGGTGTAGTTGAGGTAACAC
66 GGAAAAAGGGTATAGTTGAGGTAACAC
*
10235665 TTTGGGTAACGAAGTA
1 TTTGGGTAATGAAGTA
10235681 CCAAAAAAAG
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 52 0.57
92 40 0.43
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (92 bp):
TTTGGGTAATGAAGTATAGTTTAAGTACCACTTATAACAAAAAAAAACGTCTAGATACTAACCTG
GGAAAAAGGGTATAGTTGAGGTAACAC
Found at i:10235797 original size:16 final size:16
Alignment explanation
Indices: 10235773--10235825 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10235763 GAGTGGAAAG
10235773 AAATCTGAAAGGATGGA
1 AAAT-TGAAAGGATGGA
*
10235790 AAATTGAAGAGG-TAGA
1 AAATTGAA-AGGATGGA
* *
10235806 AAACTAAAAGGATGGA
1 AAATTGAAAGGATGGA
10235822 AAAT
1 AAAT
10235826 ATTTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 3 0.10
16 19 0.66
17 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.26, T:0.17
Consensus pattern (16 bp):
AAATTGAAAGGATGGA
Found at i:10239613 original size:41 final size:41
Alignment explanation
Indices: 10239568--10239661 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
10239558 CGAGCGTGTT
* * *
10239568 CTTGGCCATGTGTCCGATCGTGTGAGCCACACGGATGAGTG
1 CTTGGCCATGTGTCCGACCGTGTGAGCCACACGAATGAGAG
* * * *
10239609 CTTGGCCTTATGTCTGACCGTGTGAGCCACACGAATGTGAG
1 CTTGGCCATGTGTCCGACCGTGTGAGCCACACGAATGAGAG
*
10239650 CCTGGCCATGTG
1 CTTGGCCATGTG
10239662 GGCGACACAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.17, C:0.26, G:0.32, T:0.26
Consensus pattern (41 bp):
CTTGGCCATGTGTCCGACCGTGTGAGCCACACGAATGAGAG
Found at i:10248898 original size:32 final size:32
Alignment explanation
Indices: 10248862--10248924 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
10248852 GCCATCCATA
* * * *
10248862 CATGTACCTGAAATATATTAATTAGCTAATTG
1 CATGTACCTAAAACACATTAATCAGCTAATTG
10248894 CATGTACCTAAAACACATTAATCAGCTAATT
1 CATGTACCTAAAACACATTAATCAGCTAATT
10248925 AATTTCAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
CATGTACCTAAAACACATTAATCAGCTAATTG
Found at i:10249015 original size:41 final size:41
Alignment explanation
Indices: 10248970--10249070 Score: 152
Period size: 39 Copynumber: 2.5 Consensus size: 41
10248960 TTAATTTGTC
* *
10248970 TCAAACTTAGACACCTTAAAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAACAACTATTAAATATGTA
* *
10249011 TCAAAATAAGACATATT--AAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAACAACTATTAAATATGTA
10249050 TCAAACTAAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
10249071 CCCTATTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 37 0.71
41 15 0.29
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (41 bp):
TCAAACTAAGACACATTAAAAAAACAACTATTAAATATGTA
Found at i:10255610 original size:29 final size:29
Alignment explanation
Indices: 10255577--10255685 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
10255567 CACTAGATTG
*
10255577 AGCTGATTATATGTAAATTATTGTATGCA
1 AGCTGATTATATGTGAATTATTGTATGCA
*
10255606 AGCTGATTATATGTGAATTATTGTATGCG
1 AGCTGATTATATGTGAATTATTGTATGCA
* * * * *
10255635 AGCTAATCATATGGGAACTATTATATGCGA
1 AGCTGATTATATGTGAATTATTGTATGC-A
* *
10255665 A-CTGATTATGTGTGAACTATT
1 AGCTGATTATATGTGAATTATT
10255686 ATCGGTGATT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 66 0.99
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (29 bp):
AGCTGATTATATGTGAATTATTGTATGCA
Found at i:10255681 original size:15 final size:14
Alignment explanation
Indices: 10255611--10255687 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
10255601 ATGCAAGCTG
* *
10255611 ATTATATGTGAATT
1 ATTATATGCGAACT
* *
10255625 ATTGTATGCGAGCT
1 ATTATATGCGAACT
* *
10255639 AATCATATGGGAACT
1 -ATTATATGCGAACT
10255654 ATTATATGCGAACT
1 ATTATATGCGAACT
* *
10255668 GATTATGTGTGAACT
1 -ATTATATGCGAACT
10255683 ATTAT
1 ATTAT
10255688 CGGTGATTTG
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
14 27 0.55
15 22 0.45
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (14 bp):
ATTATATGCGAACT
Found at i:10257685 original size:21 final size:21
Alignment explanation
Indices: 10257661--10257718 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
10257651 CCTGTACTAG
*
10257661 TTCTACCGATACAAGTATGAT
1 TTCTATCGATACAAGTATGAT
10257682 TTCTATCGATACAAGTATGAT
1 TTCTATCGATACAAGTATGAT
10257703 TTCTATCGATACAAGT
1 TTCTATCGATACAAGT
10257719 CATGCAACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (21 bp):
TTCTATCGATACAAGTATGAT
Found at i:10272108 original size:105 final size:105
Alignment explanation
Indices: 10271998--10272200 Score: 370
Period size: 105 Copynumber: 1.9 Consensus size: 105
10271988 AGGGAAAAAA
* *
10271998 AAAACTTACAAACTTTAGTCTTATGTTGCTAATAAAAAAAAGTGTTTTTGGAGTAATTATAAATA
1 AAAACTTACAAACTTTAGTCTTATGTTGCTAATAAAAAAAAGTGTTTTTGAACTAATTATAAATA
* *
10272063 AGTTTTTAGTTTTAATCAAAAGTATAAAAAAAAGAAGAAG
66 AGTTTTTAATTTTAATCAAAAGTAAAAAAAAAAGAAGAAG
10272103 AAAACTTACAAACTTTAGTCTTATGTTGCTAATAAAAAAAAGTGTTTTTGAACTAATTATAAATA
1 AAAACTTACAAACTTTAGTCTTATGTTGCTAATAAAAAAAAGTGTTTTTGAACTAATTATAAATA
10272168 AGTTTTTAATTTTAATCAAAAGTAAAAAAAAAA
66 AGTTTTTAATTTTAATCAAAAGTAAAAAAAAAA
10272201 TCACATCATC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (105 bp):
AAAACTTACAAACTTTAGTCTTATGTTGCTAATAAAAAAAAGTGTTTTTGAACTAATTATAAATA
AGTTTTTAATTTTAATCAAAAGTAAAAAAAAAAGAAGAAG
Found at i:10272617 original size:3 final size:3
Alignment explanation
Indices: 10272609--10272636 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10272599 AAAATATTGA
10272609 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10272637 GATCCTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10274549 original size:3 final size:3
Alignment explanation
Indices: 10274541--10274590 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10274531 TCGAAATTTG
10274541 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10274589 AT
1 AT
10274591 ATAATCTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10274993 original size:2 final size:2
Alignment explanation
Indices: 10274986--10275024 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10274976 GACACCACTA
10274986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10275025 GCTTATAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10281766 original size:12 final size:12
Alignment explanation
Indices: 10281749--10281773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10281739 AAAGAAGCTC
10281749 ATATTTGGTAGA
1 ATATTTGGTAGA
10281761 ATATTTGGTAGA
1 ATATTTGGTAGA
10281773 A
1 A
10281774 CAAAAGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
ATATTTGGTAGA
Found at i:10285068 original size:10 final size:10
Alignment explanation
Indices: 10285053--10285082 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10285043 AGTTTTTAGA
10285053 GGATGGAGTG
1 GGATGGAGTG
10285063 GGATGGAGTG
1 GGATGGAGTG
*
10285073 GGCTGGAGTG
1 GGATGGAGTG
10285083 TTGTCTCGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.60, T:0.20
Consensus pattern (10 bp):
GGATGGAGTG
Found at i:10287869 original size:63 final size:63
Alignment explanation
Indices: 10287764--10287883 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
10287754 TCACAAAATG
* * ** **
10287764 CACCAATTTATTTTACACCAGTACCACAGCATGTGCGTTCATTCCCTACACCAACACAGTCAT
1 CACCAATTTATTTTACACAAGCACCACAGCATGCACAATCATTCCCTACACCAACACAGTCAT
* *
10287827 CACCAATTTATTTTACACAAGCACCACAGC-TCGCACAATCATTCCCTGCACCGACAC
1 CACCAATTTATTTTACACAAGCACCACAGCAT-GCACAATCATTCCCTACACCAACAC
10287884 CTTCTCCAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 47 0.98
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.24
Consensus pattern (63 bp):
CACCAATTTATTTTACACAAGCACCACAGCATGCACAATCATTCCCTACACCAACACAGTCAT
Found at i:10291014 original size:44 final size:46
Alignment explanation
Indices: 10290922--10291014 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
10290912 ATAGAGTTTT
10290922 AATGGAATAGAGATGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAGATGTAATCAGTAATTCAATTGTTTGGTTGAATGG
* *
10290968 AATGGAATAGA-ATTGTAAT-AGT-ATTC-TTGTGTTTGGTTGGATGG
1 AATGGAATAGAGA-TGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
10291012 AAT
1 AAT
10291015 AGATTTGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 4 0.09
46 17 0.40
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGATGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:10295548 original size:439 final size:439
Alignment explanation
Indices: 10294730--10295607 Score: 1756
Period size: 439 Copynumber: 2.0 Consensus size: 439
10294720 ATAATGGTGT
10294730 TACTAATGATGCCATTCATCTTAGATTATTTACATTCTTTCTTACTGACAACTCTTTTTCTTGGT
1 TACTAATGATGCCATTCATCTTAGATTATTTACATTCTTTCTTACTGACAACTCTTTTTCTTGGT
10294795 TAGATGTGCAGGTACCAAGATCTATTACTATATGGGATGAACTCACAGGGAAATTTTTATAAAAA
66 TAGATGTGCAGGTACCAAGATCTATTACTATATGGGATGAACTCACAGGGAAATTTTTATAAAAA
10294860 TTCTTTCCCATTAGTAAGACAGTCTAACTCGGGAGGGAAATTTCCACATTTCGACAATTCGAGGG
131 TTCTTTCCCATTAGTAAGACAGTCTAACTCGGGAGGGAAATTTCCACATTTCGACAATTCGAGGG
10294925 CTAAAGGTTGCATGAGACATGGGAACGATTCAAATCATTGTTAAAAAAGTTCCCACATCATGGTA
196 CTAAAGGTTGCATGAGACATGGGAACGATTCAAATCATTGTTAAAAAAGTTCCCACATCATGGTA
10294990 TGCTAGAGTAGTTGCAGTTATAAACTTTTTATAACGAGTTAGATGCATCAGCCAAATCTAGGTTA
261 TGCTAGAGTAGTTGCAGTTATAAACTTTTTATAACGAGTTAGATGCATCAGCCAAATCTAGGTTA
10295055 AATAATGCGACAGGAGGAGCCCTAATGAACAGAACCTATAACGATGCTTATTAGTTAATTGAAAA
326 AATAATGCGACAGGAGGAGCCCTAATGAACAGAACCTATAACGATGCTTATTAGTTAATTGAAAA
10295120 CATGGTGATGAACTCTTGCCAGTGACCTACTGAAAGTTTCATATATTGG
391 CATGGTGATGAACTCTTGCCAGTGACCTACTGAAAGTTTCATATATTGG
10295169 TACTAATGATGCCATTCATCTTAGATTATTTACATTCTTTCTTACTGACAACTCTTTTTCTTGGT
1 TACTAATGATGCCATTCATCTTAGATTATTTACATTCTTTCTTACTGACAACTCTTTTTCTTGGT
10295234 TAGATGTGCAGGTACCAAGATCTATTACTATATGGGATGAACTCACAGGGAAATTTTTATAAAAA
66 TAGATGTGCAGGTACCAAGATCTATTACTATATGGGATGAACTCACAGGGAAATTTTTATAAAAA
10295299 TTCTTTCCCATTAGTAAGACAGTCTAACTCGGGAGGGAAATTTCCACATTTCGACAATTCGAGGG
131 TTCTTTCCCATTAGTAAGACAGTCTAACTCGGGAGGGAAATTTCCACATTTCGACAATTCGAGGG
10295364 CTAAAGGTTGCATGAGACATGGGAACGATTCAAATCATTGTTAAAAAAGTTCCCACATCATGGTA
196 CTAAAGGTTGCATGAGACATGGGAACGATTCAAATCATTGTTAAAAAAGTTCCCACATCATGGTA
10295429 TGCTAGAGTAGTTGCAGTTATAAACTTTTTATAACGAGTTAGATGCATCAGCCAAATCTAGGTTA
261 TGCTAGAGTAGTTGCAGTTATAAACTTTTTATAACGAGTTAGATGCATCAGCCAAATCTAGGTTA
10295494 AATAATGCGACAGGAGGAGCCCTAATGAACAGAACCTATAACGATGCTTATTAGTTAATTGAAAA
326 AATAATGCGACAGGAGGAGCCCTAATGAACAGAACCTATAACGATGCTTATTAGTTAATTGAAAA
10295559 CATGGTGATGAACTCTTGCCAGTGACCTACTGAAAGTTTCATATATTGG
391 CATGGTGATGAACTCTTGCCAGTGACCTACTGAAAGTTTCATATATTGG
10295608 CAGAAATATG
Statistics
Matches: 439, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
439 439 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (439 bp):
TACTAATGATGCCATTCATCTTAGATTATTTACATTCTTTCTTACTGACAACTCTTTTTCTTGGT
TAGATGTGCAGGTACCAAGATCTATTACTATATGGGATGAACTCACAGGGAAATTTTTATAAAAA
TTCTTTCCCATTAGTAAGACAGTCTAACTCGGGAGGGAAATTTCCACATTTCGACAATTCGAGGG
CTAAAGGTTGCATGAGACATGGGAACGATTCAAATCATTGTTAAAAAAGTTCCCACATCATGGTA
TGCTAGAGTAGTTGCAGTTATAAACTTTTTATAACGAGTTAGATGCATCAGCCAAATCTAGGTTA
AATAATGCGACAGGAGGAGCCCTAATGAACAGAACCTATAACGATGCTTATTAGTTAATTGAAAA
CATGGTGATGAACTCTTGCCAGTGACCTACTGAAAGTTTCATATATTGG
Found at i:10296818 original size:27 final size:29
Alignment explanation
Indices: 10296778--10296833 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
10296768 ATGAAAAATC
10296778 CAAAAGAAAGAAAAAAAATGAGT-AGAAA
1 CAAAAGAAAGAAAAAAAATGAGTAAGAAA
**
10296806 CAAAAGAAA-AAAATTAATGAGTAAGAAA
1 CAAAAGAAAGAAAAAAAATGAGTAAGAAA
10296834 ATATATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.70, C:0.04, G:0.16, T:0.11
Consensus pattern (29 bp):
CAAAAGAAAGAAAAAAAATGAGTAAGAAA
Found at i:10301078 original size:3 final size:3
Alignment explanation
Indices: 10301070--10301095 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10301060 ACTCTTACTT
10301070 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
10301096 TTAGCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:10301962 original size:6 final size:6
Alignment explanation
Indices: 10301951--10301985 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
10301941 CAAAAGGAAA
10301951 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
10301986 AGAGAGGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:10302863 original size:27 final size:28
Alignment explanation
Indices: 10302833--10302886 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
10302823 GTTTTAAACG
*
10302833 TTAATT-AAATTAATTTTTTTAAAAAAA
1 TTAATTAAAATAAATTTTTTTAAAAAAA
*
10302860 TTAATTAAAATAAATTTTTTTTAAAAA
1 TTAATTAAAATAAATTTTTTTAAAAAA
10302887 TTATTTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAATTAAAATAAATTTTTTTAAAAAAA
Found at i:10302887 original size:27 final size:26
Alignment explanation
Indices: 10302824--10302889 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
10302814 TTTTTTAAAG
** *
10302824 TTTTAAACGTTAATTAAATTAATTTT
1 TTTTAAAAATTAATTAAATAAATTTT
*
10302850 TTTAAAAAAATTAATTAAAATAAATTTT
1 TTT-TAAAAATTAATT-AAATAAATTTT
10302878 TTTTAAAAATTA
1 TTTTAAAAATTA
10302890 TTTCGATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.09
27 17 0.52
28 13 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTAAAAATTAATTAAATAAATTTT
Done.