Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 27 of 182
Found at i:9059760 original size:42 final size:42
Alignment explanation
Indices: 9059701--9059786 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
9059691 CTATGCAAAA
9059701 ACGTCGATTTGACATCTTACAAGAAGCTAAGCCAAGAATTCT
1 ACGTCGATTTGACATCTTACAAGAAGCTAAGCCAAGAATTCT
9059743 ACGTCGATTTGACATCTTACAAGAAGCTAAGCCAAGAATTCT
1 ACGTCGATTTGACATCTTACAAGAAGCTAAGCCAAGAATTCT
9059785 AC
1 AC
9059787 ATTGCTAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (42 bp):
ACGTCGATTTGACATCTTACAAGAAGCTAAGCCAAGAATTCT
Found at i:9064013 original size:25 final size:26
Alignment explanation
Indices: 9063978--9064051 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
9063968 GAAGCTTTGG
9063978 AGAGCCATTAA-CGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
* * * *
9064003 AGAGCCTTTAATCTGGAAGCTCTCGA
1 AGAGCCATTAATCGGGAAGCTCACAA
*
9064029 AGAGCCA-TATATCGGGATGCTCA
1 AGAGCCATTA-ATCGGGAAGCTCA
9064052 TAAGAGTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCACAA
Found at i:9065940 original size:21 final size:22
Alignment explanation
Indices: 9065888--9065940 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9065878 AAATAAAGTC
*
9065888 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
9065909 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
9065931 CATGTATCAT
1 CATGTATCAT
9065941 CATTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:9068698 original size:27 final size:27
Alignment explanation
Indices: 9068667--9068758 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
9068657 CATGATTTTA
*
9068667 CACTTTGGTGCCTCTTATTTTGTTATG
1 CACTTTGGTGCCTCCTATTTTGTTATG
9068694 CACTTTGGTGCCTCCTATTTTGTTATG
1 CACTTTGGTGCCTCCTATTTTGTTATG
*** * *
9068721 CACTTCATTGCCTCCTGTTCTGTTATG
1 CACTTTGGTGCCTCCTATTTTGTTATG
*
9068748 CACATTGGTGC
1 CACTTTGGTGC
9068759 TTGTGTTTCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (27 bp):
CACTTTGGTGCCTCCTATTTTGTTATG
Found at i:9069368 original size:17 final size:18
Alignment explanation
Indices: 9069345--9069394 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
9069335 TAAGGAGATA
9069345 AAAAATAAATAAATAACG
1 AAAAATAAATAAATAACG
* *
9069363 -AAAATACATAAAT-AGG
1 AAAAATAAATAAATAACG
*
9069379 AAAAATAAACAAATAA
1 AAAAATAAATAAATAA
9069395 ATTAAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 23 0.88
18 1 0.04
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAATAACG
Found at i:9070706 original size:21 final size:22
Alignment explanation
Indices: 9070680--9070736 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
9070670 ATATTGGACT
*
9070680 TTGTCTTGAGACATAAAC-CCC
1 TTGTCTTGAGACATAAACTCAC
* * *
9070701 TTGTCTCGAGACACACACTCAC
1 TTGTCTTGAGACATAAACTCAC
9070723 TTGTCTTGAGACAT
1 TTGTCTTGAGACAT
9070737 GATAAATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (22 bp):
TTGTCTTGAGACATAAACTCAC
Found at i:9073653 original size:66 final size:66
Alignment explanation
Indices: 9073526--9073659 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
9073516 ATTTTAAAGC
* * * * * *
9073526 TGTAGCTAGAGTTCGTCATATTTTTTTGTTGCCTCTGCTGCCCTTGTTGTTGCATCTGCTTTAAG
1 TGTAGCTAGAGTTCATCATATTTTTTTGTAGCCTCTGCTGCCCTCGATGCTGCATCAGCTTTAAG
9073591 T
66 T
* * * *
9073592 TGTAGCTGGAGTTCATCATATTTTCTTTG-AGCCTCTGCTTCTCTCGATGCTGCCTCAGCTTTAA
1 TGTAGCTAGAGTTCATCATATTTT-TTTGTAGCCTCTGCTGCCCTCGATGCTGCATCAGCTTTAA
9073656 GT
65 GT
9073658 TG
1 TG
9073660 AGCAATTTGC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (66 bp):
TGTAGCTAGAGTTCATCATATTTTTTTGTAGCCTCTGCTGCCCTCGATGCTGCATCAGCTTTAAG
T
Found at i:9078206 original size:21 final size:20
Alignment explanation
Indices: 9078173--9078239 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
9078163 GTGTTTTGAA
9078173 CACACGGCAGTGTCTGGTGGG
1 CACACGGC-GTGTCTGGTGGG
* ** *
9078194 CACACGGGCGTGTGTTTTGGA
1 CACAC-GGCGTGTCTGGTGGG
* *
9078215 CACACAGCCGTGTTTGGTGGG
1 CACAC-GGCGTGTCTGGTGGG
9078236 CACA
1 CACA
9078240 TGAGAGTGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.37, T:0.22
Consensus pattern (20 bp):
CACACGGCGTGTCTGGTGGG
Found at i:9078219 original size:42 final size:42
Alignment explanation
Indices: 9078160--9078239 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
9078150 CTCACGCGGA
*
9078160 CGTGTGTTTTGAACACACGGCAGTGTCTGGTGGGCACACGGG
1 CGTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACACGGG
* * *
9078202 CGTGTGTTTTGGACACACAGCCGTGTTTGGTGGGCACA
1 CGTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACA
9078240 TGAGAGTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.36, T:0.26
Consensus pattern (42 bp):
CGTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACACGGG
Found at i:9078249 original size:42 final size:42
Alignment explanation
Indices: 9078161--9078249 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
9078151 TCACGCGGAC
* * *
9078161 GTGTGTTTTGAACACACGGCAGTGTCTGGTGGGCACACGGGC
1 GTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACACGAGA
* * * *
9078203 GTGTGTTTTGGACACACAGCCGTGTTTGGTGGGCACATGAGA
1 GTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACACGAGA
9078245 GTGTG
1 GTGTG
9078250 AGTCCCTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (42 bp):
GTGTGTTTTGAACACACAGCAGTGTCTGGTGGGCACACGAGA
Found at i:9083696 original size:21 final size:23
Alignment explanation
Indices: 9083665--9083707 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9083655 ATCCTCCTGG
9083665 CGCCACGCACC-CCCCGTACACA
1 CGCCACGCACCACCCCGTACACA
*
9083687 CGCCA-GCACCACCCTGTACAC
1 CGCCACGCACCACCCCGTACAC
9083708 CTCGAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.23, C:0.56, G:0.14, T:0.07
Consensus pattern (23 bp):
CGCCACGCACCACCCCGTACACA
Found at i:9085872 original size:130 final size:130
Alignment explanation
Indices: 9085639--9086004 Score: 509
Period size: 130 Copynumber: 2.8 Consensus size: 130
9085629 ATTCTTCAAT
*
9085639 ACGAAGATGAAATTTGATGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT
1 ACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT
* * *
9085704 CGCATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCTTAA
66 CGCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATATCTTTTAAAATCCCTAAA
* * *
9085769 ACGAAGATGAGATTTGATGTTTGGCAATTCGCGAAACCGTGCCCTAACGTGTTGGGTTGCAATTT
1 ACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT
* * * * *
9085834 TGCATTTGCTCAAAATAATCGAATATCACTTTAAAATTTCGTTCATGTCTTTTAAAATCCCTAAA
66 CGCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATATCTTTTAAAATCCCTAAA
** * * * * *
9085899 ACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAATTT
1 ACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT
* * * *
9085964 CCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCA
66 CGC-ATTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCA
9086005 CTCGGGTCTT
Statistics
Matches: 206, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
130 205 1.00
131 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
ACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT
CGCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATATCTTTTAAAATCCCTAAA
Found at i:9086064 original size:130 final size:127
Alignment explanation
Indices: 9085656--9086116 Score: 442
Period size: 130 Copynumber: 3.5 Consensus size: 127
9085646 TGAAATTTGA
*
9085656 TGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATA
1 TGTTTGGCAATTCGCGG-ATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATA
* * * * *
9085721 ATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCTT-AAACGAAGATGAGATTTG
65 ATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAT-CCTTAAAACGAAG--GCGATATG
*
9085785 A
127 G
* * *
9085786 TGTTTGGCAATTCGCGAAACCGTGCCCTAACGTGTTGGGTTGCAATTTTGCATTTGCTCAAAATA
1 TGTTTGGCAATTCGCG-GATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATA
* * * *
9085851 ATCGAATATCACTTTAAAATTTCGTTCATGTCTTTTAAAATCCCTAAAACGAAGGCGATATGTG
65 ATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAATCCTTAAAACGAAGGCGATATG-G
* * * * *
9085915 ATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCGA-TTGTTTAAAA
1 -TGTTTGGCAATTCGC-GGATCGTGCCCTAACGTGTTGGGTTGCAATTTCGC-ATTTGCTCAAAA
* * ** * * *
9085979 TAATCAAATATCCCTTCAAAATTTCACTCGGGTCTTCTAAAAATCCTTTAAAATGAAGGCAATAC
63 TAATCGAATATCCCTTCAAAATTTCATTCATGTCTT-TTAAAATCC-TTAAAACGAAGGCGATA-
9086044 TCGG
125 T-GG
* * * * * ** * * * *
9086048 TGTTTGACAATTCG-GGAATCATGCCTTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACA
1 TGTTTGGCAATTCGCGG-ATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATA
9086112 ATCGA
65 ATCGA
9086117 GTATTCATTT
Statistics
Matches: 272, Mismatches: 47, Indels: 23
0.80 0.14 0.07
Matches are distributed among these distances:
128 6 0.02
129 3 0.01
130 185 0.68
131 49 0.18
132 26 0.10
133 2 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (127 bp):
TGTTTGGCAATTCGCGGATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAA
TCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAATCCTTAAAACGAAGGCGATATGG
Found at i:9091150 original size:3 final size:3
Alignment explanation
Indices: 9091142--9091172 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9091132 CGATTAAAAA
*
9091142 ATC ATC ATC ATC ATC ATC ATC ATC AAC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
9091173 AGTACAGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:9097430 original size:12 final size:12
Alignment explanation
Indices: 9097415--9097458 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
9097405 TTTCATTTCA
*
9097415 TCCTCATCTTCC
1 TCCTCCTCTTCC
9097427 TCCTCCTCTTCC
1 TCCTCCTCTTCC
*
9097439 TCCTCCTCCTCC
1 TCCTCCTCTTCC
9097451 TCCTCCTC
1 TCCTCCTC
9097459 CTCTTCTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.02, C:0.59, G:0.00, T:0.39
Consensus pattern (12 bp):
TCCTCCTCTTCC
Found at i:9097432 original size:3 final size:3
Alignment explanation
Indices: 9097424--9097461 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
9097414 ATCCTCATCT
*
9097424 TCC TCC TCC TCT TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
9097462 TTCTTGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (3 bp):
TCC
Found at i:9101024 original size:18 final size:18
Alignment explanation
Indices: 9101001--9101067 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 18
9100991 TTCATAGATA
9101001 AGTAAAACTAAAACTCTT
1 AGTAAAACTAAAACTCTT
* *
9101019 AGTAAAACCTGATATAA-TAGATA
1 AGTAAAA-CT-A-A-AACT--CTT
9101042 AGTAAAACTAAAACTCTT
1 AGTAAAACTAAAACTCTT
9101060 AGTAAAAC
1 AGTAAAAC
9101068 CTGATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
18 16 0.42
19 4 0.11
20 3 0.08
21 3 0.08
22 4 0.11
23 8 0.21
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.25
Consensus pattern (18 bp):
AGTAAAACTAAAACTCTT
Found at i:9101051 original size:41 final size:42
Alignment explanation
Indices: 9100994--9101097 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 42
9100984 TCTTTATTTC
9100994 ATAGATAAGTAAAACTAAAACTCTTAGTAAAACCTG-ATATA
1 ATAGATAAGTAAAACTAAAACTCTTAGTAAAACCTGAATATA
9101035 ATAGATAAGTAAAACTAAAACTCTTAGTAAAACCTGATATATA
1 ATAGATAAGTAAAACTAAAACTCTTAGTAAAACCTGA-ATATA
* *
9101078 ATAAATAAATAAAACTAAAA
1 ATAGATAAGTAAAACTAAAA
9101098 ACTCCTATTG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 36 0.61
43 23 0.39
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.26
Consensus pattern (42 bp):
ATAGATAAGTAAAACTAAAACTCTTAGTAAAACCTGAATATA
Found at i:9106993 original size:43 final size:44
Alignment explanation
Indices: 9106946--9107049 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 44
9106936 ATGAATTAAA
* * *
9106946 AATTAAATTAAAATAGAAGTTGTGATAATTATACATT-TAAAAT
1 AATTAAATTAAAATAAAAGTTGTGATAATTACACATTAAAAAAT
9106989 AATTATAATGT--AATAAAAGTTGTGATAATTACACATTAAAAAAT
1 AATTA-AAT-TAAAATAAAAGTTGTGATAATTACACATTAAAAAAT
9107033 AATTAAAATTTAAAATA
1 AATT-AAA-TTAAAATA
9107050 CAATTATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
43 29 0.57
44 15 0.29
45 3 0.06
46 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (44 bp):
AATTAAATTAAAATAAAAGTTGTGATAATTACACATTAAAAAAT
Found at i:9107066 original size:20 final size:21
Alignment explanation
Indices: 9107041--9107089 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
9107031 ATAATTAAAA
*
9107041 TTTAAAATACAAT-TATTAAT
1 TTTAAAATAAAATGTATTAAT
*
9107061 TTTAAAA-AAAATGTGTTAAT
1 TTTAAAATAAAATGTATTAAT
*
9107081 TTAAAAATA
1 TTTAAAATA
9107090 GAGTTATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTAAAATAAAATGTATTAAT
Found at i:9114747 original size:26 final size:28
Alignment explanation
Indices: 9114717--9114777 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9114707 TATATTAATA
* * *
9114717 AAATATATAT-TACT-TAATATTTAAGT
1 AAATATATATATAATATAATAATAAAGT
9114743 AAATATATATATAATATAATAATAAAGT
1 AAATATATATATAATATAATAATAAAGT
9114771 AAATATA
1 AAATATA
9114778 AAATAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 3 0.10
28 17 0.57
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (28 bp):
AAATATATATATAATATAATAATAAAGT
Found at i:9114798 original size:24 final size:25
Alignment explanation
Indices: 9114738--9114799 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
9114728 ACTTAATATT
* *
9114738 TAAGTAAAT-ATATATATAATATAA
1 TAAGTAAATGAAATATAAAATATAA
9114762 TAA-TAAA-GTAAATATAAAATA-AA
1 TAAGTAAATG-AAATATAAAATATAA
9114785 TAAGTAAATGAAATA
1 TAAGTAAATGAAATA
9114800 AATAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 9 0.28
24 22 0.69
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (25 bp):
TAAGTAAATGAAATATAAAATATAA
Found at i:9114960 original size:61 final size:61
Alignment explanation
Indices: 9114895--9115015 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
9114885 GATATATTTA
* * *
9114895 AAGTCATACTAGAATTCTCGACTAAAAAGATAAAAGATAAAGTTGACGAGGAATAGCTCGG
1 AAGTCATACTAGAATTCTCGACTAAAAAGACAAAAGATAAAGTCGACGAGGAATACCTCGG
*
9114956 AAGTCATACTAGAATTCTCGACTAAAAAGGCAAAAGATAAAGTCGACGAGGAATACCTCG
1 AAGTCATACTAGAATTCTCGACTAAAAAGACAAAAGATAAAGTCGACGAGGAATACCTCG
9115016 AAATTTCCAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (61 bp):
AAGTCATACTAGAATTCTCGACTAAAAAGACAAAAGATAAAGTCGACGAGGAATACCTCGG
Found at i:9115376 original size:37 final size:37
Alignment explanation
Indices: 9115334--9115427 Score: 170
Period size: 37 Copynumber: 2.5 Consensus size: 37
9115324 ACTTCGAGTT
*
9115334 GATGAGACACTGGGTGCCAATTTACTTCGGTTTAGCC
1 GATGAGACACTGGGTGCCAATTTACTTCGATTTAGCC
9115371 GATGAGACACTGGGTGCCAATTTACTTCGATTTAGCC
1 GATGAGACACTGGGTGCCAATTTACTTCGATTTAGCC
*
9115408 GATGAGACACTAGGTGCCAA
1 GATGAGACACTGGGTGCCAA
9115428 ACTGGTGTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (37 bp):
GATGAGACACTGGGTGCCAATTTACTTCGATTTAGCC
Found at i:9115664 original size:16 final size:17
Alignment explanation
Indices: 9115613--9115683 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 17
9115603 TTATATACTC
*
9115613 ATGAATTGA-GTATGGT
1 ATGAATTGATGTATTGT
* *
9115629 ATGAAATGATGTATT-C
1 ATGAATTGATGTATTGT
9115645 ATGAATTGA-GTATTGT
1 ATGAATTGATGTATTGT
9115661 ATG-ATTGATGTCATTGT
1 ATGAATTGATGT-ATTGT
*
9115678 ACGAAT
1 ATGAAT
9115684 AAATATGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 10 0.23
16 21 0.48
17 11 0.25
18 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.39
Consensus pattern (17 bp):
ATGAATTGATGTATTGT
Found at i:9118390 original size:25 final size:25
Alignment explanation
Indices: 9118335--9118390 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
9118325 TTTAATATTA
9118335 ATAA-TTTATTATTAAAATTTTAAAT
1 ATAATTTTATTATTAAAA-TTTAAAT
9118360 AT-ATTTTATTATTAAAA-TTAAAT
1 ATAATTTTATTATTAAAATTTAAAT
9118383 CATAATTT
1 -ATAATTT
9118391 ATAAGTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.21
24 3 0.11
25 19 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAATTTTATTATTAAAATTTAAAT
Found at i:9124024 original size:162 final size:163
Alignment explanation
Indices: 9123846--9124165 Score: 561
Period size: 163 Copynumber: 2.0 Consensus size: 163
9123836 GGGAGGTCTT
9123846 TAAATGATAATTAAACCATTGTATAACTTGTTGG-ACAAAAATGGCCTTGATTGGATAAAATTTG
1 TAAATGATAATTAAACCATTGTATAACTTGTTGGAACAAAAATGGCCTTGATTGGATAAAATTTG
* *
9123910 AAAGAATAGTAAAAAGGGCATTTTGGTCATTTAGCGGTAAAATGAATTAAAAGATAAATTTTAAA
66 AAAGAATAGTAAAAAGGGCATTTTGGTCATTTAGCGGAAAAATGAATTAAAAGACAAATTTTAAA
*
9123975 CTCCAAATGTGTCCCTTTCTTCTTGCTATGGTA
131 CCCCAAATGTGTCCCTTTCTTCTTGCTATGGTA
* * * *
9124008 TAAATGATAATTAAACCATTTTATAACTTGTTGGAATAAAAATGGCCTTGGTTGGGTAAAATTTG
1 TAAATGATAATTAAACCATTGTATAACTTGTTGGAACAAAAATGGCCTTGATTGGATAAAATTTG
*
9124073 AAAGAATAGTAAAAAGGGCATTTTGGTCATTTAGGGGAAAAATGAATTAAAAGACAAATTTTAAA
66 AAAGAATAGTAAAAAGGGCATTTTGGTCATTTAGCGGAAAAATGAATTAAAAGACAAATTTTAAA
9124138 CCCCAAATGTGTCCCTTTCTTCTTGCTA
131 CCCCAAATGTGTCCCTTTCTTCTTGCTA
9124166 CAGCAAAATG
Statistics
Matches: 149, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 33 0.22
163 116 0.78
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (163 bp):
TAAATGATAATTAAACCATTGTATAACTTGTTGGAACAAAAATGGCCTTGATTGGATAAAATTTG
AAAGAATAGTAAAAAGGGCATTTTGGTCATTTAGCGGAAAAATGAATTAAAAGACAAATTTTAAA
CCCCAAATGTGTCCCTTTCTTCTTGCTATGGTA
Found at i:9127483 original size:17 final size:15
Alignment explanation
Indices: 9127444--9127484 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
9127434 ATAATTCATA
9127444 AATATATTATTTATT
1 AATATATTATTTATT
*
9127459 AATATATTA-TAATT
1 AATATATTATTTATT
9127473 AATATATTATTT
1 AATATATTATTT
9127485 TTTGGTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATATTATTTATT
Found at i:9127648 original size:32 final size:32
Alignment explanation
Indices: 9127603--9127667 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
9127593 TTTAGATCAA
*
9127603 AAATGAATCTAAACAGA-TGGTTATCTAAATTC
1 AAATGAATCTAAACA-ACTAGTTATCTAAATTC
* * *
9127635 AAATGCATTTAAACAACTATTTATCTAAATTC
1 AAATGAATCTAAACAACTAGTTATCTAAATTC
9127667 A
1 A
9127668 TTATAAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (32 bp):
AAATGAATCTAAACAACTAGTTATCTAAATTC
Found at i:9128150 original size:21 final size:22
Alignment explanation
Indices: 9128124--9128182 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
9128114 GTTTTAAGAA
*
9128124 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
9128145 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
9128167 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
9128183 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:9128213 original size:25 final size:26
Alignment explanation
Indices: 9128153--9128201 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9128143 ATTTGTTTTA
*
9128153 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
9128177 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
9128202 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:9129863 original size:13 final size:13
Alignment explanation
Indices: 9129845--9129869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9129835 TATTAGGATT
9129845 ATTTAATTTTAAG
1 ATTTAATTTTAAG
9129858 ATTTAATTTTAA
1 ATTTAATTTTAA
9129870 TTATCTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTAATTTTAAG
Found at i:9136273 original size:6 final size:6
Alignment explanation
Indices: 9136262--9136289 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9136252 AGGCAACCCA
9136262 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
9136290 ATTTTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:9136290 original size:22 final size:22
Alignment explanation
Indices: 9136265--9136311 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
9136255 CAACCCAATT
9136265 TTTATTTTTAT-TT-TTATTTTTA
1 TTTA-TTTTATCTTATTA-TTTTA
9136287 TTTATTTTATCTTATTATTTTA
1 TTTATTTTATCTTATTATTTTA
9136309 TTT
1 TTT
9136312 TATTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 14 0.61
23 3 0.13
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTTATCTTATTATTTTA
Found at i:9137796 original size:15 final size:15
Alignment explanation
Indices: 9137776--9137805 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9137766 CATTTTATTT
*
9137776 ATATTAGGATAATTA
1 ATATTAAGATAATTA
9137791 ATATTAAGATAATTA
1 ATATTAAGATAATTA
9137806 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:9137833 original size:27 final size:26
Alignment explanation
Indices: 9137772--9137834 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
9137762 ACTCCATTTT
9137772 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * *
9137799 ATAATTATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
9137827 ATTTTATT
1 ATTTTATT
9137835 TTAATTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:9153237 original size:60 final size:60
Alignment explanation
Indices: 9153139--9153253 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
9153129 TGATACTGCG
9153139 AGCTCCCTTAACTGTCCTCTCACTGTACATCTCATGTGTATCCATCTAGTGGGGTCTGGA
1 AGCTCCCTTAACTGTCCTCTCACTGTACATCTCATGTGTATCCATCTAGTGGGGTCTGGA
* * **
9153199 AGCTCCCTTAACTTTCCTCTCATTGTACATCTTGTGTGTATCCATCTAGTGGGGT
1 AGCTCCCTTAACTGTCCTCTCACTGTACATCTCATGTGTATCCATCTAGTGGGGT
9153254 TTAGTCGGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (60 bp):
AGCTCCCTTAACTGTCCTCTCACTGTACATCTCATGTGTATCCATCTAGTGGGGTCTGGA
Found at i:9158014 original size:20 final size:19
Alignment explanation
Indices: 9157963--9158016 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
9157953 GGCCCGTTAG
*
9157963 AAAAAAACC-AGAAATTAA
1 AAAAAAACCAATAAATTAA
**
9157981 AAAAACAAAAAATAAATTAA
1 AAAAA-AACCAATAAATTAA
9158001 AATAAAAACCAATAAA
1 AA-AAAAACCAATAAA
9158017 AGTTCATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 18 0.64
21 3 0.11
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAAAAACCAATAAATTAA
Found at i:9159323 original size:20 final size:19
Alignment explanation
Indices: 9159272--9159325 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
9159262 GGCCCGTTAG
*
9159272 AAAAAAACC-AGAAATTAA
1 AAAAAAACCAATAAATTAA
**
9159290 AAAAACAAAAAATAAATTAA
1 AAAAA-AACCAATAAATTAA
9159310 AATAAAAACCAATAAA
1 AA-AAAAACCAATAAA
9159326 AGTTCATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 18 0.64
21 3 0.11
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAAAAACCAATAAATTAA
Found at i:9160787 original size:14 final size:14
Alignment explanation
Indices: 9160768--9160796 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9160758 ATATATATAT
9160768 ATAATTCATGATAA
1 ATAATTCATGATAA
9160782 ATAATTCATGATAA
1 ATAATTCATGATAA
9160796 A
1 A
9160797 GTTAATTTTA
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:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
ATAATTCATGATAA
Found at i:9161033 original size:30 final size:31
Alignment explanation
Indices: 9160999--9161058 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9160989 CATGTTATTT
*
9160999 TATACAT-ATAAT-TTCTTTTAAATCTATTAG
1 TATACATAATAATGTT-TTTAAAATCTATTAG
*
9161029 TATACATAATTATGTTTTTAAAATCTATTA
1 TATACATAATAATGTTTTTAAAATCTATTA
9161059 CATATACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 7 0.27
31 17 0.65
32 2 0.08
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (31 bp):
TATACATAATAATGTTTTTAAAATCTATTAG
Found at i:9164237 original size:356 final size:355
Alignment explanation
Indices: 9163585--9164283 Score: 983
Period size: 356 Copynumber: 2.0 Consensus size: 355
9163575 GCTTTCTTTA
* * * * * *
9163585 CAAGGATAACAAAAGGGTTCCATGGAATTATGATTGTAATGTGATGATCCCAAGATAGGAGAACT
1 CAAGGATAACAAAAGGATTACATGGAATTATGACTGCAACGTGATGATCCCAAGAGAGGAGAACT
* * * * * * * * *
9163650 CGGTTGGCACTTCAAAAGAGGGCCAGCATATTGGTTTCTTCATGCGCAGTGGGTGACGCTATGAC
66 CAGTTAGCACTTCAAAAGAGAGCCAGCATATTGGTTTATTCACGCACAGTGGGAGACACTATAAC
* *
9163715 CCTGCAAGTGTGAGAACTGAGTCCATTAAGGAAAAACCTTGGCAATTGAGCATAAGAAAGAAAAA
131 CCTGCAAGTGTGAGAACTGAGACCATTAAGGAAAAACCTTGGCAATTGAGCACAAGAAAGAAAAA
* * * *
9163780 ACAGCTAGACATGAATCACCCATTAATGAGCTAGTAACTGAGAATGAGGTTGAAGAATTTTTGAA
196 ACAGCTAGACATGAATCACCCATTAATGAGCCAGTAACTGAGAATGAGGCTAAAGAATTCTTGAA
* * *
9163845 GTTCTTGAAGCATAGCGAGTATAGTTTTGTAGAACAACTACATAAACAACTAGCTCATATATAAG
261 GTTCTTAAAGCATAGCGAGTATAGTGTTGTAGAACAACTACACAAACAACTAGCTCATATATAAG
*
9163910 TACTAGCTTTGCTCTTAAACTCAAAGACAC
326 TACTAGCTTTGCTATTAAACTCAAAGACAC
**
9163940 CAAGGATGGCAAAAGGATTACATGGAATTATTG-CTGCAACGTGATGATCCCAAGAGAGGAGAAC
1 CAAGGATAACAAAAGGATTACATGGAATTA-TGACTGCAACGTGATGATCCCAAGAGAGGAGAAC
* * * *
9164004 TCAGTTAGCACTTCAGAAGATAGCCAAG-ATATTGGTTTATTCACGTACAGTGGGAGTCACTATA
65 TCAGTTAGCACTTCAAAAGAGAGCC-AGCATATTGGTTTATTCACGCACAGTGGGAGACACTATA
* *
9164068 ACCTTGCAAGTGTGAGAACTGA-ACCTATTAAGGAAAAAACCCTT-GCAGTTGAGCACAAGAAAG
129 ACCCTGCAAGTGTGAGAACTGAGACC-ATTAAGG-AAAAA-CCTTGGCAATTGAGCACAAGAAAG
* * *
9164131 AAAAAGCAGCTAGACGTGAATCACCTATTAATGAGCCAGTAACTGAGAATGAGGCTAAAGAATTC
191 AAAAAACAGCTAGACATGAATCACCCATTAATGAGCCAGTAACTGAGAATGAGGCTAAAGAATTC
*
9164196 TTGAAGTTCTTAAAGCATAGCGAGTATAGTGTTGTAGAACAACTACACAAACAACTAGCTCGTAT
256 TTGAAGTTCTTAAAGCATAGCGAGTATAGTGTTGTAGAACAACTACACAAACAACTAGCTCATAT
*
9164261 ATCAGTACTAGCTTTGCTATTAA
321 ATAAGTACTAGCTTTGCTATTAA
9164284 GCTTAGAGAT
Statistics
Matches: 301, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
354 2 0.01
355 129 0.43
356 166 0.55
357 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (355 bp):
CAAGGATAACAAAAGGATTACATGGAATTATGACTGCAACGTGATGATCCCAAGAGAGGAGAACT
CAGTTAGCACTTCAAAAGAGAGCCAGCATATTGGTTTATTCACGCACAGTGGGAGACACTATAAC
CCTGCAAGTGTGAGAACTGAGACCATTAAGGAAAAACCTTGGCAATTGAGCACAAGAAAGAAAAA
ACAGCTAGACATGAATCACCCATTAATGAGCCAGTAACTGAGAATGAGGCTAAAGAATTCTTGAA
GTTCTTAAAGCATAGCGAGTATAGTGTTGTAGAACAACTACACAAACAACTAGCTCATATATAAG
TACTAGCTTTGCTATTAAACTCAAAGACAC
Found at i:9169992 original size:44 final size:44
Alignment explanation
Indices: 9169932--9170386 Score: 350
Period size: 44 Copynumber: 10.1 Consensus size: 44
9169922 TTGAATATAG
* * *
9169932 CAAATTTTATCT-CCTGAAGATGCAGTGGAGC-GAAATAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCTA
* * * * * * *
9169975 CAAATCTCATATCCCTGAAGTTGTAGTAGATCGGATTAGAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
*
9170019 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * *
9170063 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTTAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
*
9170107 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
9170151 CAAATCTTATCTCGCTGAAGTTGCAGTGGAGTAGATTGAAA--TGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCT-A
* * * * * * *
9170195 CAAATCATATATCACTGAAGTTGCAATGG-GTTAAATTAAATCTACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGCT---A
* * *
9170242 CAGCGAATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTA
1 CA---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C----TA
* ** *
9170296 CAAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
9170340 CGAATCTCATCTCCTTGAAGTTACAGCGGAGTC-GATTGAAA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATT-AAAGCTA
9170384 CAA
1 CAA
9170387 TTCCTATACC
Statistics
Matches: 333, Mismatches: 55, Indels: 47
0.77 0.13 0.11
Matches are distributed among these distances:
43 16 0.05
44 238 0.71
45 9 0.03
47 3 0.01
48 1 0.00
50 29 0.09
51 32 0.10
53 1 0.00
54 3 0.01
57 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:9170150 original size:132 final size:131
Alignment explanation
Indices: 9169932--9170405 Score: 398
Period size: 132 Copynumber: 3.5 Consensus size: 131
9169922 TTGAATATAG
* * * * *
9169932 CAAATTTTATCTCCTGAAGATGCAGTGGAG-CGAAATAAAGCTACAAATCTCATATCCCTGAAGT
1 CAAATCTTATCTCCTGAAGTTGCAGTGGAGTAG-ATTAAAGCTACAAATCTTATATCCCTGAAGT
* * * *
9169996 TGTAGTAGATCGGATT-AGAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
65 TGCAGTGGAACAGATTGA-AGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
9170060 CAA
129 CAA
* *
9170063 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTTAAGCTACAAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCC-TGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCTTATATCCCTGAAGT
* * * *
9170128 TGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCGCTGAAGTTGCAGTGGAGTAGATTGAAAT
65 TGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAC
*
9170193 GA
130 AA
* * * * * *
9170195 CAAATCATATATCACTGAAGTTGCAATGG-GTTAAATTAAATCTACCACAGCGAATCTTATTTCC
1 CAAATCTTATCTC-CTGAAGTTGCAGTGGAG-TAGATTAAAGCT---ACA---AATCTTATATCC
* * * **
9170259 CTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTATAGTG
58 CTGAAGTTGCAGTGGAACAGATT---G----AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTG
* *
9170324 GAGCAGATTGAAGCTA
116 GAGCAGATTGAAACAA
* * * * * * * * *
9170340 CGAATCTCATCTCCTTGAAGTTACAGCGGAGTCGATTGAAA-CTACAATTCCTATACCCCTAAAG
1 CAAATCTTATCTCC-TGAAGTTGCAGTGGAGTAGATT-AAAGCTACAAATCTTATATCCCTGAAG
9170404 TT
64 TT
9170406 ATAATGGGTT
Statistics
Matches: 275, Mismatches: 47, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
131 14 0.05
132 132 0.48
133 3 0.01
135 3 0.01
138 32 0.12
139 15 0.05
141 1 0.00
142 3 0.01
144 1 0.00
145 67 0.24
146 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
CAAATCTTATCTCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCTTATATCCCTGAAGTT
GCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACA
A
Found at i:9174872 original size:214 final size:214
Alignment explanation
Indices: 9174503--9174928 Score: 834
Period size: 214 Copynumber: 2.0 Consensus size: 214
9174493 TTCATAATCA
*
9174503 CTCTTTCCAATTGTTTGCACATTTATCAAACATACATAAAACATGTTCAATCACATTCCAAACAA
1 CTCTTTCCAACTGTTTGCACATTTATCAAACATACATAAAACATGTTCAATCACATTCCAAACAA
9174568 TGTATTTTAAACAATTCAATTTAATTCAATCCAATATCAACTTTTTGATACTATATGCATAATCA
66 TGTATTTTAAACAATTCAATTTAATTCAATCCAATATCAACTTTTTGATACTATATGCATAATCA
9174633 ATTCAACATTTAACCACTTTAAAATATCAAATTCATATCATGCACAATAATTTTGTTACCTTAGT
131 ATTCAACATTTAACCACTTTAAAATATCAAATTCATATCATGCACAATAATTTTGTTACCTTAGT
9174698 TATCCGAGCTAAATGAACC
196 TATCCGAGCTAAATGAACC
*
9174717 CTCTTTCCAACTGTTTGCACATTTATCAAGCATACATAAAACATGTTCAATCACATTCCAAACAA
1 CTCTTTCCAACTGTTTGCACATTTATCAAACATACATAAAACATGTTCAATCACATTCCAAACAA
9174782 TGTATTTTAAACAATTCAATTTAATTCAATCCAATATCAACTTTTTGATACTATATGCATAATCA
66 TGTATTTTAAACAATTCAATTTAATTCAATCCAATATCAACTTTTTGATACTATATGCATAATCA
9174847 ATTCAACATTTAACCACTTTAAAATATCAAATTCATATCATGCACAATAATTTTGTTACCTTAGT
131 ATTCAACATTTAACCACTTTAAAATATCAAATTCATATCATGCACAATAATTTTGTTACCTTAGT
9174912 TATCCGAGCTAAATGAA
196 TATCCGAGCTAAATGAA
9174929 TATACGAACA
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 210 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (214 bp):
CTCTTTCCAACTGTTTGCACATTTATCAAACATACATAAAACATGTTCAATCACATTCCAAACAA
TGTATTTTAAACAATTCAATTTAATTCAATCCAATATCAACTTTTTGATACTATATGCATAATCA
ATTCAACATTTAACCACTTTAAAATATCAAATTCATATCATGCACAATAATTTTGTTACCTTAGT
TATCCGAGCTAAATGAACC
Found at i:9177117 original size:23 final size:23
Alignment explanation
Indices: 9177091--9177138 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9177081 AAAACTTAAT
9177091 AATAATTGTTGATAAAGTGATAA
1 AATAATTGTTGATAAAGTGATAA
* * * *
9177114 AATATTTGTTTATAAATTTATAA
1 AATAATTGTTGATAAAGTGATAA
9177137 AA
1 AA
9177139 CACCTGCTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (23 bp):
AATAATTGTTGATAAAGTGATAA
Found at i:9177739 original size:20 final size:18
Alignment explanation
Indices: 9177697--9177751 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 18
9177687 TTTATTTGTC
**
9177697 AAAATTAT-AAATTTATT
1 AAAATTATAAAATTTAAA
9177714 AAAATTATCAAAATGTTAAA
1 AAAATTAT-AAAAT-TTAAA
9177734 AAAATTATAAAATTTAAA
1 AAAATTATAAAATTTAAA
9177752 CTATCAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 9 0.27
20 11 0.33
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATTATAAAATTTAAA
Found at i:9177745 original size:8 final size:8
Alignment explanation
Indices: 9177697--9177784 Score: 54
Period size: 8 Copynumber: 10.5 Consensus size: 8
9177687 TTTATTTGTC
9177697 AAAATTAT
1 AAAATTAT
*
9177705 AAATTTATT
1 AAAATTA-T
9177714 AAAATTAT
1 AAAATTAT
*
9177722 CAAAATGTTAAA
1 -AAAA--TT-AT
9177734 AAAATTAT
1 AAAATTAT
9177742 AAAATT-T
1 AAAATTAT
*
9177749 -AAACTAT
1 AAAATTAT
*
9177756 CAAACTTAT
1 -AAAATTAT
*
9177765 AAAATTAG
1 AAAATTAT
*
9177773 AAAATAAT
1 AAAATTAT
9177781 AAAA
1 AAAA
9177785 ATATTTAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
6 4 0.07
7 2 0.03
8 30 0.49
9 18 0.30
11 6 0.10
12 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:9184230 original size:20 final size:21
Alignment explanation
Indices: 9184202--9184255 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
9184192 GAAAGAAAAA
*
9184202 AGAAAAAGAAAAAGA-GAAGG
1 AGAAGAAGAAAAAGAGGAAGG
* *
9184222 AGAAGAAGAAGAAGAGGGAGG
1 AGAAGAAGAAAAAGAGGAAGG
*
9184243 -GAAGAAAAAAAAG
1 AGAAGAAGAAAAAG
9184256 GTAATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
AGAAGAAGAAAAAGAGGAAGG
Found at i:9184881 original size:146 final size:146
Alignment explanation
Indices: 9184688--9185141 Score: 662
Period size: 140 Copynumber: 3.2 Consensus size: 146
9184678 TATATTTTAA
* * * * *
9184688 AAAATCCAAAAATAAAAT---AAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
* *
9184750 TACTAAAATAATACATATGAAACATTATGTACTAAAAT-A-ATAAAAAAATAAAATACGAAAATA
66 AACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATA
*
9184813 GTATATTTTGAAAAAT
131 GTATATTTTAAAAAAT
9184829 AAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAAAATTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAA-AAA-GGCCAAAATCAAAATTTTTTACTAAATTAATATAAA
*
9184894 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAA
64 AAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAA
9184959 TAGTATATTTTAAAAAAT
129 TAGTATATTTTAAAAAAT
* *
9184977 AAAATCCGAAAACAAAAT---AAAAAA-GCCAAAATC-ACATATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAAT-TTTTTACTAAATTAATATAAAA
9185037 AAACTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAAT
65 AAACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAAT
* *
9185100 AATAAATTTTAAAAAAT
130 AGTATATTTTAAAAAAT
*
9185117 AAAATCTGAAAATAAAAATAAAAAA
1 AAAATCCGAAAAT-AAAATAAAAAA
9185142 TGTTTGATTT
Statistics
Matches: 285, Mismatches: 16, Indels: 21
0.89 0.05 0.07
Matches are distributed among these distances:
140 73 0.26
141 25 0.09
142 46 0.16
144 9 0.03
145 6 0.02
146 70 0.25
147 1 0.00
148 55 0.19
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (146 bp):
AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
AACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATA
GTATATTTTAAAAAAT
Found at i:9184937 original size:48 final size:46
Alignment explanation
Indices: 9184877--9185092 Score: 140
Period size: 48 Copynumber: 4.6 Consensus size: 46
9184867 CAAAATTTTT
* *
9184877 TACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATG
1 TACTAAAATAATATAAAAAAA-TAAAATAATACAATTGAAACATT-TG
* * * *
9184925 TACTAAAATAATATAAAAAAATAAAATACA-AAAATAG-TATATTT-
1 TACTAAAATAATATAAAAAAATAAAATA-ATACAATTGAAACATTTG
* * ** * * * * *
9184969 TA-AAAAATAAAATCCGAAAACAAAATAAAA-AAGCCAAAATCACATATTTT
1 TACTAAAATAATAT----AAA-AAAATAAAATAATAC-AATTGAAACATTTG
*
9185019 TACTAAATTAATATAAAAAAACTAAAATAATAC-A-TGAAACATTATG
1 TACTAAAATAATATAAAAAAA-TAAAATAATACAATTGAAACATT-TG
9185065 TACTAAAATAATATAAAAAAATAAAATA
1 TACTAAAATAATATAAAAAAATAAAATA
9185093 CAAAAATAAT
Statistics
Matches: 130, Mismatches: 24, Indels: 31
0.70 0.13 0.17
Matches are distributed among these distances:
43 9 0.07
44 2 0.02
45 14 0.11
46 31 0.24
47 23 0.18
48 35 0.27
49 6 0.05
50 2 0.02
51 8 0.06
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (46 bp):
TACTAAAATAATATAAAAAAATAAAATAATACAATTGAAACATTTG
Found at i:9185087 original size:13 final size:13
Alignment explanation
Indices: 9185069--9185103 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9185059 ATTATGTACT
9185069 AAAATAATATAAA
1 AAAATAATATAAA
* *
9185082 AAAATAAAATACA
1 AAAATAATATAAA
9185095 AAAATAATA
1 AAAATAATA
9185104 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:9185678 original size:146 final size:142
Alignment explanation
Indices: 9185485--9186363 Score: 1077
Period size: 146 Copynumber: 6.2 Consensus size: 142
9185475 TATATTTTAA
* * * * *
9185485 AAAATCCAAAAATAAAAT---AAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
*
9185547 TACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGT
66 AACTAAAATAATAC--ATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGT
*
9185612 ATATTTTGAAAAAT
129 ATATTTTAAAAAAT
9185626 AAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAAAATTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAA-AAA-GGCCAAAATCAAAATTTTTTACTAAATTAATATAAA
*
9185691 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAA
64 AAAACTAAAATAATACA--TGAAACATTATGTACTAAAAT-A-ATAAAAAAATAAAATACGAAAA
9185756 TAGTATATTTTAAAAAAT
125 TAGTATATTTTAAAAAAT
* *
9185774 AAAATCCGAAAACAAAAT---AAAAAA-GCCAAAATC-ACATATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAAT-TTTTTACTAAATTAATATAAAA
* *
9185834 AAACTAAAATAATACATGAAACATTATGTACTAAAATAAT--ATAAA-AAAA-ACGAAAATAATA
65 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGTA
*
9185895 TATCTTAAAAAAT
130 TATTTTAAAAAAT
* * * *
9185908 AAAATCCGAAAAT-AAA-AATAAAAAGGGCCAAAATCAGAGTTTTTT--TAAATTAATAT-AAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
* *
9185968 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAAT
66 AACTAAAATAATACATGAAACATTATGTACTAAAAT-A-ATAAAAAAATAAAATACGAAAATAGT
*
9186033 AAATTTTAAAAAAT
129 ATATTTTAAAAAAT
* * * * * *
9186047 AAAATCTGAAAAT-AAA-AATAAAAAATGCCAAAATCAGAGTTTTTTTCTAAATTAATAT-AAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
* *
9186109 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACCAAAAGA
66 AACTAAAATAATACA--TGAAACATTATGTACTAAAATAATA-AAAA-AATAAAATACGAAAATA
*
9186174 GCATATTTTAAAAAAT
127 GTATATTTTAAAAAAT
* * * * * *
9186190 AAAATCTGAAAACAAAATAAATAAAACGGCCAAAATCACAGA-TTTTTACTAAATTAGTATAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCA-AAATTTTTTACTAAATTAATATAAAA
* *
9186254 AAACTAAAATAATACATGAAACATTATTTACTAAAATAATATAAAAAATAAAATATGAAAATAGT
65 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGT
9186319 ATATTTT-AAAAA-
129 ATATTTTAAAAAAT
* * *
9186331 AAAATCCAAAAATAAAA-AATAAAAAGGGCCAAA
1 AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAA
9186364 TCAGAGTTAA
Statistics
Matches: 655, Mismatches: 52, Indels: 63
0.85 0.07 0.08
Matches are distributed among these distances:
133 43 0.07
134 46 0.07
135 11 0.02
136 18 0.03
137 5 0.01
138 6 0.01
139 65 0.10
140 34 0.05
141 67 0.10
142 57 0.09
143 83 0.13
144 39 0.06
145 38 0.06
146 87 0.13
147 1 0.00
148 55 0.08
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.26
Consensus pattern (142 bp):
AAAATCCGAAAATAAAATAAAAAAAAAGGCCAAAATCAAAATTTTTTACTAAATTAATATAAAAA
AACTAAAATAATACATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGTAT
ATTTTAAAAAAT
Found at i:9185734 original size:48 final size:47
Alignment explanation
Indices: 9185674--9185894 Score: 143
Period size: 47 Copynumber: 4.7 Consensus size: 47
9185664 CAAAATTTTT
* *
9185674 TACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATG
1 TACTAAAATAATATAAAAAAACTAAAATAATACAATTGAAACATT-TG
* * * *
9185722 TACTAAAATAATATAAAAAAA-TAAAATACA-AAAATAG-TATATTT-
1 TACTAAAATAATATAAAAAAACTAAAATA-ATACAATTGAAACATTTG
* * * ** * * * * *
9185766 TA-AAAAATAAAATCCGAAAACAAAATAAAA-AAGCCAAAATCACATATTTT
1 TACTAAAATAATAT---AAAA-AAACTAAAATAATAC-AATTGAAACATTTG
*
9185816 TACTAAATTAATATAAAAAAACTAAAATAATAC-A-TGAAACATTATG
1 TACTAAAATAATATAAAAAAACTAAAATAATACAATTGAAACATT-TG
*
9185862 TACTAAAATAATATAAAAAAAACGAAAATAATA
1 TACTAAAATAATAT-AAAAAAACTAAAATAATA
9185895 TATCTTAAAA
Statistics
Matches: 133, Mismatches: 26, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
43 9 0.07
44 2 0.02
45 7 0.05
46 24 0.18
47 40 0.30
48 35 0.26
49 6 0.05
50 2 0.02
51 8 0.06
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (47 bp):
TACTAAAATAATATAAAAAAACTAAAATAATACAATTGAAACATTTG
Found at i:9185806 original size:797 final size:791
Alignment explanation
Indices: 9184347--9185931 Score: 3080
Period size: 797 Copynumber: 2.0 Consensus size: 791
9184337 GTTGATTGAT
9184347 TTTGATTTAATTTTTAAATTTAATTTTTTGTAAGGTATATTTTGGATAAAAAGAAATATTAAGGT
1 TTTGATTTAATTTTTAAATTTAATTTTTTGTAAGGTATATTTTGGATAAAAAGAAATATTAAGGT
9184412 ATGTTTGTATTTTTTCTATTTTTTATATATATTCATAATTTATTTTTAATTTTTATTGAAGTAAA
66 ATGTTTGTATTTTTTCTATTTTTTATATATATTCATAATTTATTTTTAATTTTTATTGAAGTAAA
9184477 AAATCCTATCTATGTTATGTACAAAAAATATTTTATTATTATTTTATTTAATTTATTTGGTAAGT
131 AAATCCTATCTATGTTATGTACAAAAAATATTTTATTATTATTTTATTTAATTTATTTGGTAAGT
9184542 GTGTTTTAGGTTAATTAGATATATTTTTTATTAATTTTATTTGGCATGTTATATTTTGATTGTTT
196 GTGTTTTAGGTTAATTAGATATATTTTTTATTAATTTTATTTGGCATGTTATATTTTGATTGTTT
9184607 TTATTTTATTTTTTATGTGATGAGTTTTTTTACAAAAATAGTATAAAAATATTAAAAGAATAGCT
261 TTATTTTATTTTTTATGTGATGAGTTTTTTTACAAAAATAGTATAAAAATATTAAAAGAATAGCT
9184672 TAATAGTATATTTTAAAAAATCCAAAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAA
326 TAATAGTATATTTTAAAAAATCCAAAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAA
9184737 ATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAA
391 ATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAA
9184802 ATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT
456 ATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT
9184867 CAAAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAA
521 CAAAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAA
9184932 ATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAA
586 ATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAA
9184997 AAAAGCCAAAATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATT
651 AAAAGCCAAAATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATT
* *
9185062 ATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAATAAATTTTAAAAAATAAAATCTGAA
716 ATGTACTAAAATAATAT----AAA-AAAA-ACAAAAATAATAAATCTTAAAAAATAAAATCCGAA
9185127 AATAAAAATAAAAAATG
775 AATAAAAATAAAAAATG
9185144 TTTGATTTAATTTTTAAATTTAATTTTTTGTAAGGTATATTTTGGATAAAAAGAAATATTAAGGT
1 TTTGATTTAATTTTTAAATTTAATTTTTTGTAAGGTATATTTTGGATAAAAAGAAATATTAAGGT
9185209 ATGTTTGTATTTTTTCTATTTTTTATATATATTCATAATTTATTTTTAATTTTTATTGAAGTAAA
66 ATGTTTGTATTTTTTCTATTTTTTATATATATTCATAATTTATTTTTAATTTTTATTGAAGTAAA
9185274 AAATCCTATCTATGTTATGTACAAAAAATATTTTATTATTATTTTATTTAATTTATTTGGTAAGT
131 AAATCCTATCTATGTTATGTACAAAAAATATTTTATTATTATTTTATTTAATTTATTTGGTAAGT
9185339 GTGTTTTAGGTTAATTAGATATATTTTTTATTAATTTTATTTGGCATGTTATATTTTGATTGTTT
196 GTGTTTTAGGTTAATTAGATATATTTTTTATTAATTTTATTTGGCATGTTATATTTTGATTGTTT
9185404 TTATTTTATTTTTTATGTGATGAGTTTTTTTACAAAAATAGTATAAAAATATTAAAAGAATAGCT
261 TTATTTTATTTTTTATGTGATGAGTTTTTTTACAAAAATAGTATAAAAATATTAAAAGAATAGCT
9185469 TAATAGTATATTTTAAAAAATCCAAAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAA
326 TAATAGTATATTTTAAAAAATCCAAAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAA
9185534 ATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAA
391 ATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAA
9185599 ATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT
456 ATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT
9185664 CAAAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAA
521 CAAAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAA
9185729 ATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAA
586 ATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAA
9185794 AAAAGCCAAAATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATT
651 AAAAGCCAAAATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATT
* *
9185859 ATGTACTAAAATAATATAAAAAAAACGAAAATAATATATCTTAAAAAATAAAATCCGAAAATAAA
716 ATGTACTAAAATAATATAAAAAAAACAAAAATAATAAATCTTAAAAAATAAAATCCGAAAATAAA
9185924 AATAAAAA
781 AATAAAAA
9185932 GGGCCAAAAT
Statistics
Matches: 784, Mismatches: 4, Indels: 6
0.99 0.01 0.01
Matches are distributed among these distances:
791 45 0.06
792 4 0.01
793 3 0.00
797 732 0.93
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (791 bp):
TTTGATTTAATTTTTAAATTTAATTTTTTGTAAGGTATATTTTGGATAAAAAGAAATATTAAGGT
ATGTTTGTATTTTTTCTATTTTTTATATATATTCATAATTTATTTTTAATTTTTATTGAAGTAAA
AAATCCTATCTATGTTATGTACAAAAAATATTTTATTATTATTTTATTTAATTTATTTGGTAAGT
GTGTTTTAGGTTAATTAGATATATTTTTTATTAATTTTATTTGGCATGTTATATTTTGATTGTTT
TTATTTTATTTTTTATGTGATGAGTTTTTTTACAAAAATAGTATAAAAATATTAAAAGAATAGCT
TAATAGTATATTTTAAAAAATCCAAAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAA
ATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAA
ATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT
CAAAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAA
ATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAA
AAAAGCCAAAATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATT
ATGTACTAAAATAATATAAAAAAAACAAAAATAATAAATCTTAAAAAATAAAATCCGAAAATAAA
AATAAAAAATG
Found at i:9186017 original size:13 final size:13
Alignment explanation
Indices: 9185999--9186033 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9185989 ATTATGTACT
9185999 AAAATAATATAAA
1 AAAATAATATAAA
* *
9186012 AAAATAAAATACA
1 AAAATAATATAAA
9186025 AAAATAATA
1 AAAATAATA
9186034 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:9186148 original size:416 final size:422
Alignment explanation
Indices: 9185483--9186371 Score: 1345
Period size: 416 Copynumber: 2.1 Consensus size: 422
9185473 AGTATATTTT
* *
9185483 AAAAAATCCAAAAAT-AAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATA
1 AAAAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTA-TAAATTAATATAAATA
* * *
9185547 TACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGT
65 AACTAAAATAATACA-ATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACAAAAATAAT
* *
9185612 ATATTTTGAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAAAATTTTTTAC
129 AAATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAT--A--GCCAAAATCAAAATTTTTTAC
9185677 TAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
190 TAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
* *
9185742 ATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAAT-AA-AAAA-GCCAAA
255 ATAAAATACAAAAAGAGCATATTTTAAAAAATAAAATCCGAAAACAAAATAAATAAAACGCCAAA
*
9185804 ATCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAA
320 ATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAA
9185869 ATAATAT-AAA-AAAA-ACGAAAATAATATATCTTAAAA
385 ATAATATAAAATAAAATACGAAAATAATATAT-TTAAAA
*
9185905 AATAAAATCCGAAAATAAAAATAAAAAGGGCCAAAATCAGAGTTTTTT-TAAATTAATATAAA-A
1 AA-AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTATAAATTAATATAAATA
9185968 AACTAAAATAATAC-ATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAA
65 AACTAAAATAATACAATGAAACATTATGTACTAAAAT-A-ATAAAAAAATAAAATACAAAAATAA
* * * *
9186032 TAAATTTTAAAAAATAAAATCTGAAAATAAAAATAAAAAAT-GCCAAAATCAGAGTTTTTTTCTA
128 TAAATTTTAAAAAATAAAATCCGAAAAT-AAAATAAAAAATAGCCAAAATCAAAATTTTTTACTA
*
9186096 AATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAAT
192 AATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
* *
9186160 AAAATACCAAAAGAGCATATTTTAAAAAATAAAATCTGAAAACAAAATAAATAAAACGGCCAAAA
257 AAAATACAAAAAGAGCATATTTTAAAAAATAAAATCCGAAAACAAAATAAATAAAAC-GCCAAAA
* *
9186225 TCACAGATTTTTACTAAATTAGTATAAAAAAACTAAAATAATACATGAAACATTATTTACTAAAA
321 TCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAA
* * *
9186290 TAATATAAAAAATAAAATATGAAAATAGTATATTTTAAA
386 TAATAT--AAAATAAAATACGAAAATAATATATTTAAAA
9186329 AAAAAATCCAAAAATAAAAAATAAAAAGGGCC-AAATCAGAGTT
1 AAAAAATCCAAAAAT-AAAAATAAAAAGGGCCAAAATCAGAGTT
9186372 AAAATAGTAT
Statistics
Matches: 428, Mismatches: 24, Indels: 29
0.89 0.05 0.06
Matches are distributed among these distances:
416 98 0.23
417 31 0.07
418 4 0.01
419 22 0.05
420 76 0.18
421 62 0.14
422 28 0.07
423 38 0.09
424 56 0.13
425 13 0.03
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.26
Consensus pattern (422 bp):
AAAAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTATAAATTAATATAAATAA
ACTAAAATAATACAATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACAAAAATAATAA
ATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAATAGCCAAAATCAAAATTTTTTACTAAATT
AATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAA
TACAAAAAGAGCATATTTTAAAAAATAAAATCCGAAAACAAAATAAATAAAACGCCAAAATCACA
GATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATA
TAAAATAAAATACGAAAATAATATATTTAAAA
Found at i:9186377 original size:86 final size:87
Alignment explanation
Indices: 9186285--9186458 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 87
9186275 CATTATTTAC
*
9186285 TAAAATAATATAAAAA-A-TAAAA-TAT-G-AAAATAGTATATTTTAAAAAAAAATCCAAAAATA
1 TAAAATAATATAAAAATATTAAAAGAATAGCAAAATAGTATATTTT---AAAAAATCCAAAAAT-
*
9186345 AAAAATAAAAAGGGCC-AAATCAGAGT
62 -AAAATAAAAAAGGCCAAAATCAGAGT
* **
9186371 TAAAATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAAAAAATCCAAAAATAAAA
1 TAAAATAATATAAAAATATTAAAAGAATAGCAAAATAGTATATTTTAAAAAATCCAAAAATAAAA
*
9186436 TAAAAAAGGCCAAAATTAGAGT
66 TAAAAAAGGCCAAAATCAGAGT
9186458 T
1 T
9186459 TTTTACTAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
86 29 0.38
87 11 0.14
88 20 0.26
89 2 0.03
90 1 0.01
91 13 0.17
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.25
Consensus pattern (87 bp):
TAAAATAATATAAAAATATTAAAAGAATAGCAAAATAGTATATTTTAAAAAATCCAAAAATAAAA
TAAAAAAGGCCAAAATCAGAGT
Found at i:9186517 original size:372 final size:374
Alignment explanation
Indices: 9186055--9186731 Score: 1078
Period size: 371 Copynumber: 1.8 Consensus size: 374
9186045 ATAAAATCTG
* *
9186055 AAAATAAAAATAAAAAATGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAACTAAAATAA
1 AAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACTAAAATAA
* * *
9186120 TACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACCAAAAGAGCATATTTTAA
66 TACATATGAAACATTATGTACTAAAATAATATAAAA-AACAAAATACCAAAAGAGCATATATTAA
* * *
9186185 AAAATAAAATCTGAAAACAAAAT-AAATA-AAACGGCCAAAATCACAGATTTTTACTAAATTAGT
130 AAAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACAGATTTTTACTAAATTAAT
*
9186248 ATAAAAAAACTAAAATAATACA-TGAAACATTATTTACTAAAATAATATAAAAAATAAAATATGA
195 AT-AAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGA
9186312 AAATAGTATATTTTAAAAA-AAAATCCAAAAATAAAA-AATAAAAAGGGCCAAATCAGAGTTAAA
259 AAATAGTATATTTTAAAAAGAAAATCCAAAAATAAAATAA-AAAAAGGGCCAAATCAGAGTTAAA
9186375 ATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAAAAAATCCA
323 ATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAAAAAATCCA
* *
9186427 AAAAT-AAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATATACTAAAATA
1 AAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA-AAACTAAAATA
* * *
9186491 ATACATATGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTAA
65 ATACATATGAAACATTATGTACTAAAATAATATAAAAAACAAAATACCAAAAGAGCATATATTAA
* * * *
9186556 AAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAAT
130 AAAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACAGATTTTTACTAAATTAAT
* *
9186621 ATAAAAAACTAAAATAATACATTTGGAATATTATGTACTAAAATAATATAAAAAATAAAATATGA
195 ATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGA
9186686 AAATAGTATATTTTAAAAAGTAAAATCCAAAAATAAAATAAAAAAA
259 AAATAGTATATTTTAAAAAG-AAAATCCAAAAATAAAATAAAAAAA
9186732 CAAACGGTCA
Statistics
Matches: 277, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
371 88 0.32
372 74 0.27
373 33 0.12
374 58 0.21
376 22 0.08
377 2 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (374 bp):
AAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACTAAAATAA
TACATATGAAACATTATGTACTAAAATAATATAAAAAACAAAATACCAAAAGAGCATATATTAAA
AAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACAGATTTTTACTAAATTAATA
TAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAA
ATAGTATATTTTAAAAAGAAAATCCAAAAATAAAATAAAAAAAGGGCCAAATCAGAGTTAAAATA
GTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAAAAAATCCA
Found at i:9186585 original size:25 final size:25
Alignment explanation
Indices: 9186514--9186588 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
9186504 ATTATGTACT
* *
9186514 AAAATAATATAAAAAACAAAATACG
1 AAAATAAAATAAAAAATAAAATACG
*
9186539 AAAATAGTATATATTAAAAAATAAAATCCG
1 AAAATA--A-A-A-TAAAAAATAAAATACG
9186569 AAAATAAAATAAAAAATAAA
1 AAAATAAAATAAAAAATAAA
9186589 CGGCCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 17 0.40
26 1 0.02
27 2 0.05
28 1 0.02
29 1 0.02
30 20 0.48
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (25 bp):
AAAATAAAATAAAAAATAAAATACG
Found at i:9186656 original size:518 final size:511
Alignment explanation
Indices: 9185908--9186891 Score: 1421
Period size: 518 Copynumber: 1.9 Consensus size: 511
9185898 CTTAAAAAAT
* *
9185908 AAAATCCGAAAATAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTTAAATTAATATAAAAAACTA
1 AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTAAATTAATATAAAAAACTA
* *
9185973 AAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAATAAATT
66 AAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAATAAATA
*
9186038 TTAAAAAATAAAATCTGAAAATAAAAATAAAAAATGCCAAAATCAGAGTTTTTTTCTAAATTAAT
131 TTAAAAAATAAAATCCGAAAATAAAAATAAAAAATGCCAAAATCAGAGTTTTTTTCTAAATTAAT
9186103 ATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACC
196 ATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACC
** *
9186168 AAAAGAGCATATTTTAAAAAATAAAATCTGAAAACAAAAT-AAATA-AAACGGCCAAAATCACAG
260 AAAAGAGCATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAACAAACGGCCAAAATCACAG
* * *
9186231 ATTTTTACTAAATTAGTATAAAAAA-ACTAAAATAATACA-TGAAACATTATTTACTAAAATAAT
325 ATTTTTACTAAATTAATATAAAAAATACAAAAATAATACATTGAAACATTATGTACTAAAATAAT
* * * *
9186294 ATAAAAAATAAAATATGAAAATAGTATATTTTAAAAA-AAAATCCAAAAATAAAAAATAAAAAGG
390 ATAAAAAACAAAATACG--AATA-TAT-CTTAAAAAATAAAATCCAAAAAT-AAAAATAAAAAGG
9186358 GCC-AAATCAGAGTTAAAATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAA
450 GCCAAAATCAGAGTTAAAATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAA
* *
9186419 AAAATCCAAAAAT-AAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATATA
1 AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTT--TAAATTAATATAAA-AAA
* *
9186483 CTAAAATAATACATATGAAACATTATGTACTAAAATAATAT-AAAAAACAAAATACGAAAATAGT
63 CTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAAT
*
9186547 ATATATTAAAAAATAAAATCCGAAAAT-AAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTA
126 AAATATTAAAAAATAAAATCCGAAAATAAAAATAAAAAAT-----GCCAAAATCAGAGTTTTTT-
* *
9186611 T-TAAATTAATATAAAAAACTAAAATAATACATTTGGAATATTATGTACTAAAATAATATAAAAA
185 TCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
** * * * * *
9186675 ATAAAATATGAAAATAGTATATTTTAAAAAGTAAAATCCAAAAATAAAATAAAAAAACAAACGGT
250 ATAAAATACCAAAAGAGCATATTTTAAAAAATAAAATCCAAAAACAAAAT-AAAAAACAAACGGC
** * *
9186740 CAAAATCGGAGTTTTTTATTAAATTAATATAAAAAATACAAAAATAATACATTTGAAACATTATG
314 CAAAATCACAGATTTTTACTAAATTAATATAAAAAATACAAAAATAATACA-TTGAAACATTATG
*
9186805 TACTAAAATAATATAAAAAACAAAATACGAATATATCTTAAAAAATAAAATCCGAAAATAAAAAT
378 TACTAAAATAATATAAAAAACAAAATACGAATATATCTTAAAAAATAAAATCCAAAAATAAAAAT
9186870 AAAAAGGGCCAAAATCAGAGTT
443 AAAAAGGGCCAAAATCAGAGTT
9186892 TTTTTAAATA
Statistics
Matches: 420, Mismatches: 34, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
510 29 0.07
511 12 0.03
512 14 0.03
513 26 0.06
514 44 0.10
515 27 0.06
517 43 0.10
518 79 0.19
519 28 0.07
520 63 0.15
521 17 0.04
523 38 0.09
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.27
Consensus pattern (511 bp):
AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTAAATTAATATAAAAAACTA
AAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAATAAATA
TTAAAAAATAAAATCCGAAAATAAAAATAAAAAATGCCAAAATCAGAGTTTTTTTCTAAATTAAT
ATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACCA
AAAGAGCATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAACAAACGGCCAAAATCACAGA
TTTTTACTAAATTAATATAAAAAATACAAAAATAATACATTGAAACATTATGTACTAAAATAATA
TAAAAAACAAAATACGAATATATCTTAAAAAATAAAATCCAAAAATAAAAATAAAAAGGGCCAAA
ATCAGAGTTAAAATAGTATAAAAATATTAAAAGAATAGCTTAATAGTATATTTTAA
Found at i:9186681 original size:146 final size:145
Alignment explanation
Indices: 9186427--9186895 Score: 657
Period size: 146 Copynumber: 3.2 Consensus size: 145
9186417 AAAAAATCCA
* * * *
9186427 AAAATAAAATAAAAAAGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAATATACTAAAATAA
1 AAAATAAAA-AAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAA-AAACTAAAATAA
*
9186492 TACATATGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTAAA
64 TACATTTGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTAAA
9186557 AAATAAAATCCGAAAAT
129 AAATAAAATCCGAAAAT
9186574 AAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
1 AAAATAAAAAA-AAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
* * * * *
9186639 ACATTTGGAATATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAA
65 ACATTTGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTAAAA
* *
9186704 AGTAAAATCCAAAAAT
130 AATAAAATCCGAAAAT
* * *
9186720 AAAATAAAAAAACAAACGGTCAAAATCGGAGTTTTTTATTAAATTAATATAAAAAATACAAAAAT
1 AAAAT-AAAAAA-AAACGGCCAAAATCAGAGTTTTTTATTAAATTAATAT-AAAAA-ACTAAAAT
*
9186785 AATACATTTGAAACATTATGTACTAAAATAATATAAAAAACAAAATACG---A-A-TATATCTTA
62 AATACATTTGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTA
9186845 AAAAATAAAATCCGAAAAT
127 AAAAATAAAATCCGAAAAT
* *
9186864 --AA-AAATAAAAAGGGCCAAAATCAGAGTTTTTT
1 AAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTT
9186896 TAAATAACTA
Statistics
Matches: 291, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
139 21 0.07
140 5 0.02
142 2 0.01
144 25 0.09
145 1 0.00
146 93 0.32
147 87 0.30
148 5 0.02
149 52 0.18
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.28
Consensus pattern (145 bp):
AAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAATA
CATTTGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAGTATATATTAAAAA
ATAAAATCCGAAAAT
Found at i:9188256 original size:75 final size:75
Alignment explanation
Indices: 9188101--9188249 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 75
9188091 TACTATTCTA
*
9188101 ACGATACTATATTTATTTGAAATTTGTTTTCGTAGATAGAGTATTTATTCGGTATCGGGAGGTCG
1 ACGATACTATATTTATTTGAAATTTGTTTTCGTAGATAGAGTATTTATCCGGTATCGGGAGGTCG
9188166 TACACTGTAC
66 TACACTGTAC
*
9188176 ACGATACTATATTTATTTGAAATTTGTTTTCGTAGATGGAGTATTTATCCGGGTATCGGGAGGTC
1 ACGATACTATATTTATTTGAAATTTGTTTTCGTAGATAGAGTATTTATCC-GGTATCGGGAGGTC
9188241 GTACACTGT
65 GTACACTGT
9188250 CCCGATATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 48 0.68
76 23 0.32
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.40
Consensus pattern (75 bp):
ACGATACTATATTTATTTGAAATTTGTTTTCGTAGATAGAGTATTTATCCGGTATCGGGAGGTCG
TACACTGTAC
Found at i:9193349 original size:78 final size:78
Alignment explanation
Indices: 9193253--9193409 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
9193243 TAACACTAAA
*
9193253 CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
1 CAAAATATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
9193318 ACAAAAAAATTAC
66 ACAAAAAAATTAC
9193331 CAAAATATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
1 CAAAATATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
*
9193396 ACAAATAAATTAC
66 ACAAAAAAATTAC
9193409 C
1 C
9193410 TTTTCTTTTC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (78 bp):
CAAAATATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
ACAAAAAAATTAC
Found at i:9193437 original size:22 final size:22
Alignment explanation
Indices: 9193411--9193452 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9193401 TAAATTACCT
9193411 TTTCTTTTCTTTCT-TCTTCTCC
1 TTTC-TTTCTTTCTATCTTCTCC
9193433 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCTATCTTCT
9193453 TCTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTATCTTCTCC
Found at i:9197034 original size:43 final size:43
Alignment explanation
Indices: 9196972--9197059 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
9196962 AAATCTCAAC
* *
9196972 TTTAAAATTAACCTGAACGACAACGTTTCCTAACTTTGACTAA
1 TTTAAAATTAACCTAAACGACAACGTTTCCTAACTTAGACTAA
*
9197015 TTTAAAATTAACCTAAACGACAACGTTTCGTAACTTAGACTAA
1 TTTAAAATTAACCTAAACGACAACGTTTCCTAACTTAGACTAA
9197058 TT
1 TT
9197060 GACTTGGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (43 bp):
TTTAAAATTAACCTAAACGACAACGTTTCCTAACTTAGACTAA
Found at i:9197368 original size:16 final size:17
Alignment explanation
Indices: 9197337--9197370 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9197327 TCTCCACCCA
*
9197337 CCTCAACTCTCCTCCTC
1 CCTCAAATCTCCTCCTC
9197354 CCTCAAATC-CCTCCTC
1 CCTCAAATCTCCTCCTC
9197370 C
1 C
9197371 TTTCCCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.59, G:0.00, T:0.26
Consensus pattern (17 bp):
CCTCAAATCTCCTCCTC
Found at i:9201149 original size:88 final size:88
Alignment explanation
Indices: 9201000--9201176 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
9200990 GGGTATCATA
*
9201000 GAAAATGATGTTAGGTAAGCTGCGTGGTCTTTTTCTTTTTTCGGCATTTCATAGATCTTTCTTCC
1 GAAAATGATGTTAGGTAAGCTGCGTGGTCCTTTTCTTTTTTCGGCATTTCATAGATCTTTCTTCC
9201065 AGTGTAAGAAGTAATTCACCTAT
66 AGTGTAAGAAGTAATTCACCTAT
9201088 GAAAATGATGTTAGGTAAGCTGCGTGGTCCTTTTCTTTTTTCGGCATTTCATAGATCTTTCTTCC
1 GAAAATGATGTTAGGTAAGCTGCGTGGTCCTTTTCTTTTTTCGGCATTTCATAGATCTTTCTTCC
9201153 AGTGTAAGAAGTAATTCACCTAT
66 AGTGTAAGAAGTAATTCACCTAT
9201176 G
1 G
9201177 TTACAGAGCT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (88 bp):
GAAAATGATGTTAGGTAAGCTGCGTGGTCCTTTTCTTTTTTCGGCATTTCATAGATCTTTCTTCC
AGTGTAAGAAGTAATTCACCTAT
Found at i:9201858 original size:35 final size:35
Alignment explanation
Indices: 9201812--9201893 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
9201802 GTATAAAAGT
* *
9201812 TATTTGAACCATTAAAACTTTTTAAGAAATCAGGG
1 TATTTAAACCATTAAAACTTTTTAAGAAATCAAGG
* *
9201847 TATTTAAACCATTGAAACTTTTTAAGAAATCAAGT
1 TATTTAAACCATTAAAACTTTTTAAGAAATCAAGG
9201882 TATTTAAACCAT
1 TATTTAAACCAT
9201894 GAGAATATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (35 bp):
TATTTAAACCATTAAAACTTTTTAAGAAATCAAGG
Found at i:9202030 original size:5 final size:5
Alignment explanation
Indices: 9202022--9202047 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9202012 ATAAATTTAA
9202022 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
9202048 CTTTTATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:9222049 original size:37 final size:40
Alignment explanation
Indices: 9221977--9222050 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
9221967 TCCTTCCCCT
9221977 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
1 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
** *
9222017 TTCTTTTTTTTTTCTCTT-TTT-CTCTTTC-CCCTCT
1 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCT
9222051 GACTACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 6 0.19
38 6 0.19
39 3 0.10
40 16 0.52
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (40 bp):
TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
Found at i:9229736 original size:6 final size:6
Alignment explanation
Indices: 9229725--9229755 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9229715 AAGCAGAGTG
9229725 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
9229756 CCACTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.16
Consensus pattern (6 bp):
GGCTCA
Found at i:9235213 original size:2 final size:2
Alignment explanation
Indices: 9235208--9235244 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9235198 ATATATATAT
9235208 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9235245 AGCATGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9238337 original size:7 final size:7
Alignment explanation
Indices: 9238325--9238358 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
9238315 GAATATTACT
9238325 GCAAAAG
1 GCAAAAG
9238332 GCAAAAG
1 GCAAAAG
9238339 GCAAAAG
1 GCAAAAG
9238346 GCAAAAG
1 GCAAAAG
9238353 GCAAAA
1 GCAAAA
9238359 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.15, G:0.26, T:0.00
Consensus pattern (7 bp):
GCAAAAG
Found at i:9238365 original size:21 final size:21
Alignment explanation
Indices: 9238325--9238365 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9238315 GAATATTACT
***
9238325 GCAAAAGGCAAAAGGCAAAAG
1 GCAAAAGGCAAAAAAAAAAAG
9238346 GCAAAAGGCAAAAAAAAAAA
1 GCAAAAGGCAAAAAAAAAAA
9238366 AAAAAAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.12, G:0.22, T:0.00
Consensus pattern (21 bp):
GCAAAAGGCAAAAAAAAAAAG
Found at i:9245847 original size:64 final size:64
Alignment explanation
Indices: 9245746--9245967 Score: 390
Period size: 64 Copynumber: 3.5 Consensus size: 64
9245736 TGAGCTTATA
9245746 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
9245810 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
* * * * *
9245874 TAATTTATATTACAAAATTTATATTACAAAGTTTGCTCCAATTAGATTAATGTTGTAATATTTT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
*
9245938 TAATTTATATTACAAAATTTATATTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
9245968 ACTAAGTTTG
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 153 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
Found at i:9245894 original size:14 final size:14
Alignment explanation
Indices: 9245875--9245903 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9245865 TAATGTATTT
9245875 AATTTATATTACAA
1 AATTTATATTACAA
9245889 AATTTATATTACAA
1 AATTTATATTACAA
9245903 A
1 A
9245904 GTTTGCTCCA
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:9245958 original size:14 final size:14
Alignment explanation
Indices: 9245939--9245968 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9245929 TAATATTTTT
9245939 AATTTATATTACAA
1 AATTTATATTACAA
9245953 AATTTATATTACAA
1 AATTTATATTACAA
9245967 AA
1 AA
9245969 CTAAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:9247234 original size:14 final size:14
Alignment explanation
Indices: 9247214--9247248 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9247204 CAAATTACAT
9247214 ATTAGAATAGGATC
1 ATTAGAATAGGATC
* *
9247228 GTTAGAATAGTATC
1 ATTAGAATAGGATC
9247242 ATTAGAA
1 ATTAGAA
9247249 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (14 bp):
ATTAGAATAGGATC
Found at i:9247934 original size:21 final size:17
Alignment explanation
Indices: 9247875--9247924 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
9247865 TATAAACATG
* *
9247875 TATTTAATTATTAATAGA
1 TATTT-ATTATTAAAAAA
9247893 TATTTATTATTAAAAAA
1 TATTTATTATTAAAAAA
9247910 TATTTATTAATTAAA
1 TATTTATT-ATTAAA
9247925 TAATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTTATTATTAAAAAA
Found at i:9247935 original size:31 final size:30
Alignment explanation
Indices: 9247882--9247957 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
9247872 ATGTATTTAA
* *
9247882 TTATTAATAGATATTTATTATTAAAAAATAT
1 TTATTAATAAATAATTATTATTAAAAAAT-T
* *
9247913 TTATTAATTAAATAATTA-TATTATAAGATT
1 TTATTAA-TAAATAATTATTATTAAAAAATT
9247943 TTATGTAATAAATAA
1 TTAT-TAATAAATAA
9247958 ATTAAAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 12 0.31
31 19 0.49
32 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TTATTAATAAATAATTATTATTAAAAAATT
Found at i:9248074 original size:11 final size:12
Alignment explanation
Indices: 9248044--9248077 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9248034 GTATGTTTAC
9248044 TTATTATATAAG
1 TTATTATATAAG
9248056 TATATTAT-TAAG
1 T-TATTATATAAG
9248068 TTATTATATA
1 TTATTATATA
9248078 TATATATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:9248177 original size:18 final size:19
Alignment explanation
Indices: 9248142--9248182 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9248132 AATAGCAAAC
*
9248142 GGGAAAAGAATGAAGAAAA
1 GGGAAAAGAATAAAGAAAA
9248161 GGGAAAAGAA-AAAGAAAA
1 GGGAAAAGAATAAAGAAAA
9248179 GGGA
1 GGGA
9248183 GAATTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (19 bp):
GGGAAAAGAATAAAGAAAA
Found at i:9251811 original size:119 final size:119
Alignment explanation
Indices: 9251679--9251915 Score: 361
Period size: 119 Copynumber: 2.0 Consensus size: 119
9251669 AAAATAAAAA
* * *
9251679 TTTTATATTAAAATATTAAAAATAATATGCCAATAAAAAATATAAAATAAAGAACATAACATAAA
1 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAA-ATAAAACAAA-AACATAACATAAA
* *
9251744 CGATACATAATAAATA-TAA-ATATTATTATTATTTTGAAATGATAATAAGTAAAT
64 CGATACATAATAAATAGGAATATATTATTATTATTTTAAAATGATAATAAGTAAAT
* *
9251798 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATATAACAAAAACATAACATAAATG
1 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATAAAACAAAAACATAACATAAACG
* *
9251863 ATACATAATAAATAGGAATATGTTATTATTGTTTTAAAATGATAATAAGTAAA
66 ATACATAATAAATAGGAATATATTATTATTATTTTAAAATGATAATAAGTAAA
9251916 CATTTTTGGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
117 28 0.26
118 10 0.09
119 69 0.64
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (119 bp):
TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATAAAACAAAAACATAACATAAACG
ATACATAATAAATAGGAATATATTATTATTATTTTAAAATGATAATAAGTAAAT
Found at i:9252779 original size:27 final size:27
Alignment explanation
Indices: 9252738--9252800 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
9252728 TGCCAAAATG
* *
9252738 GTGCCGCCT-CTGCCAGCTCCTCCACCA
1 GTGCCGCCTGC-GCCAACTCCGCCACCA
* *
9252765 GTGCTGCCTGCGCCAACTCCGCCACGA
1 GTGCCGCCTGCGCCAACTCCGCCACCA
9252792 GTGCCGCCT
1 GTGCCGCCT
9252801 CTCCCCTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.11, C:0.48, G:0.24, T:0.17
Consensus pattern (27 bp):
GTGCCGCCTGCGCCAACTCCGCCACCA
Found at i:9264444 original size:18 final size:18
Alignment explanation
Indices: 9264421--9264703 Score: 160
Period size: 18 Copynumber: 15.3 Consensus size: 18
9264411 GAATAATTAT
* *
9264421 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
9264439 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
9264457 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* * *
9264475 TTATTCGGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
9264493 TTGATCGGCTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
9264519 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
9264537 -TATTCAGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
9264554 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* * *
9264572 TTCATTCAGTGATAATCAG
1 TT-ATTCAGTAACAATCAA
**
9264591 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
9264609 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
9264627 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
9264646 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
9264663 TTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* *
9264681 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
9264699 TTATT
1 TTATT
9264704 TTATACCTTA
Statistics
Matches: 202, Mismatches: 47, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
17 19 0.09
18 152 0.75
19 16 0.08
20 1 0.00
24 1 0.00
25 2 0.01
26 11 0.05
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:9264463 original size:36 final size:36
Alignment explanation
Indices: 9264421--9264703 Score: 187
Period size: 36 Copynumber: 7.6 Consensus size: 36
9264411 GAATAATTAT
* *
9264421 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
9264457 TTATTCAATAATAACCAGTTATTCGGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
9264493 TTGATCGGCTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
9264537 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* * **
9264572 TTCATTCAGTGATAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
9264609 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
9264646 -TATCCAGTAACAGTCAATTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
9264681 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
9264704 TTATACCTTA
Statistics
Matches: 187, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 133 0.71
37 18 0.10
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:9264480 original size:54 final size:54
Alignment explanation
Indices: 9264408--9264703 Score: 197
Period size: 54 Copynumber: 5.4 Consensus size: 54
9264398 TCATTAACAC
* * *
9264408 TCAG-AATAATTATTTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
* * * * * * *
9264461 TCAATAATAACCAGTTATTCGGTATCGATCAATTGATCGGCTATCCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTATTCAGTA---A-C-A--G-TCAGTTATTCAGTAACAATCAATTAT
* * * * *
9264523 TCAGTAA-AATCAGATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCAT
1 TCAGTAATAATCAGTTATTCAGTAAC-AGTCAGTTATTCAGTAACAATCAATT-AT
* * * * * *
9264577 TCAGTGATAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAATAATCAGTTATTCAGTAACAG-TCAGTTATTCAGTAACAATCAATTAT
* * * * * * *
9264631 TCAGTAACAGTCTA-ATATCCAGTAACAGTCAATTATCCGGTAACAATCAATTAT
1 TCAGTAATAATC-AGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
9264685 TCAGTAATAATCAGTTATT
1 TCAGTAATAATCAGTTATT
9264704 TTATACCTTA
Statistics
Matches: 181, Mismatches: 46, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
53 7 0.04
54 107 0.59
55 20 0.11
57 3 0.02
58 2 0.01
59 1 0.01
61 14 0.08
62 27 0.15
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (54 bp):
TCAGTAATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
Found at i:9264636 original size:72 final size:71
Alignment explanation
Indices: 9264502--9264703 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
9264492 ATTGATCGGC
* * *
9264502 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
9264566 CAGTC-AT
64 CAGTCTAA
* * * * *
9264573 TCATTCAGTGATAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
9264638 CAGTCTAA
64 CAGTCTAA
* * * *
9264646 TATCCAGTAACAGTCAATTATCCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
9264704 TTATACCTTA
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:9264926 original size:45 final size:45
Alignment explanation
Indices: 9264860--9265046 Score: 275
Period size: 45 Copynumber: 4.2 Consensus size: 45
9264850 ACAAATCCGG
* ** * *
9264860 AACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACGGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
9264905 AACAATAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
** *
9264950 AACAGTAACAATATTCAACACACACAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
9264995 AGCAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
9265040 AGCAGTA
1 AACAGTA
9265047 GCGGTAACAA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 128 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
Found at i:9264985 original size:90 final size:90
Alignment explanation
Indices: 9264860--9265046 Score: 311
Period size: 90 Copynumber: 2.1 Consensus size: 90
9264850 ACAAATCCGG
* * *
9264860 AACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACGGTAACAATAACAATATTTGACA
1 AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
9264925 CACAAAGTGCCGAATCGGTAACAGT
66 CACAAAGTGCCGAATCGGTAACAGT
* * *
9264950 AACAGTAACAATATTCAACACACACAGTGCCGAATCGGTAACAGTAGCAGTAACAATATTTGACA
1 AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
9265015 CACAAAGTGCCGAATCGGTAACAGT
66 CACAAAGTGCCGAATCGGTAACAGT
*
9265040 AGCAGTA
1 AACAGTA
9265047 GCGGTAACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (90 bp):
AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
CACAAAGTGCCGAATCGGTAACAGT
Found at i:9265466 original size:5 final size:5
Alignment explanation
Indices: 9265455--9265501 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
9265445 AATTAATCAT
* *
9265455 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
9265502 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:9265880 original size:21 final size:21
Alignment explanation
Indices: 9265855--9265915 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9265845 TTCAATTTCA
9265855 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
9265876 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
9265897 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
9265916 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:9267142 original size:26 final size:26
Alignment explanation
Indices: 9267108--9267162 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
9267098 CTTTCCCCTA
*
9267108 TTTCGTCTCCTTCTCTGTTTCTTTTTC
1 TTTCGTCTCCTTCTCT-TTTCTTTTAC
* *
9267135 TTTC-TCTCTTTCTCTTTTGTTTTAC
1 TTTCGTCTCCTTCTCTTTTCTTTTAC
9267160 TTT
1 TTT
9267163 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 10 0.40
27 4 0.16
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTCGTCTCCTTCTCTTTTCTTTTAC
Found at i:9267181 original size:9 final size:9
Alignment explanation
Indices: 9267162--9267205 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
9267152 TGTTTTACTT
9267162 TATAT-ATA
1 TATATAATA
9267170 TATATAATA
1 TATATAATA
9267179 TATATAATA
1 TATATAATA
*
9267188 -ACAATAATA
1 TA-TATAATA
9267197 TATATAATA
1 TATATAATA
9267206 ACAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TATATAATA
Found at i:9267196 original size:18 final size:18
Alignment explanation
Indices: 9267173--9267214 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
9267163 ATATATATAT
9267173 ATAATATATATAATAACA
1 ATAATATATATAATAACA
9267191 ATAATATATATAATAACA
1 ATAATATATATAATAACA
9267209 ATAATA
1 ATAATA
9267215 ATAATGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATATATAATAACA
Found at i:9268711 original size:20 final size:18
Alignment explanation
Indices: 9268652--9268719 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 18
9268642 AGAGTTATAA
*
9268652 AAAATT-ATAAAA-AATT
1 AAAATTAATAAAATCATT
* *
9268668 AAAATTTATAAAATTATT
1 AAAATTAATAAAATCATT
9268686 AGAAATTAATTAAAATCATAT
1 A-AAATTAA-TAAAATCAT-T
*
9268707 AAAATTTATAAAA
1 AAAATTAATAAAA
9268720 AATTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 4 0.09
19 11 0.26
20 14 0.33
21 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTAATAAAATCATT
Found at i:9268754 original size:26 final size:25
Alignment explanation
Indices: 9268712--9268760 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9268702 CATATAAAAT
* *
9268712 TTATAAAAAATTATTATTTTATATC
1 TTATAAAAAATAATTATATTATATC
*
9268737 TTATATAAAATAACTTATATTATA
1 TTATAAAAAATAA-TTATATTATA
9268761 ATATCAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATAAAAAATAATTATATTATATC
Found at i:9271909 original size:16 final size:17
Alignment explanation
Indices: 9271871--9271911 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9271861 AATAATCATA
9271871 TATAATTAAAATAATACT
1 TATAA-TAAAATAATACT
*
9271889 TATAATAAAATAAT-TT
1 TATAATAAAATAATACT
9271905 TATAATA
1 TATAATA
9271912 TATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATAAAATAATACT
Found at i:9271951 original size:17 final size:17
Alignment explanation
Indices: 9271908--9271954 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
9271898 ATAATTTTAT
*
9271908 AATATATAAAATAAAAGTA
1 AATA-ATAAAAT-AAAGCA
*
9271927 AA-ATTAAAATAAAGCA
1 AATAATAAAATAAAGCA
9271943 AATAATAAAATA
1 AATAATAAAATA
9271955 TATATATAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 7 0.29
17 14 0.58
18 1 0.04
19 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (17 bp):
AATAATAAAATAAAGCA
Found at i:9280602 original size:19 final size:20
Alignment explanation
Indices: 9280563--9280602 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9280553 AAAAATCTAA
*
9280563 TTTAATATTTTTATAGGTTT
1 TTTAATATTTTTATAAGTTT
9280583 TTTAA-ATTTTTATAA-TTT
1 TTTAATATTTTTATAAGTTT
9280601 TT
1 TT
9280603 AGAGAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAATATTTTTATAAGTTT
Found at i:9282449 original size:3 final size:3
Alignment explanation
Indices: 9282441--9282467 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9282431 CAAATAAAAA
9282441 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
9282468 ATTATTATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:9283237 original size:21 final size:20
Alignment explanation
Indices: 9283207--9283246 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9283197 AAATATATTT
*
9283207 TTAATTTAAAATTTTAAAAC
1 TTAATTTAAAAATTTAAAAC
9283227 TTAATTTTAAAAATTTAAAA
1 TTAA-TTTAAAAATTTAAAA
9283247 ACATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATTTAAAAATTTAAAAC
Found at i:9292423 original size:15 final size:15
Alignment explanation
Indices: 9292389--9292424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9292379 TGTTTGATCA
*
9292389 ATTGAAAAATTAATT
1 ATTGAAAAATTAAGT
*
9292404 GTTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
9292419 ATTGAA
1 ATTGAA
9292425 TTTATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:9295481 original size:13 final size:13
Alignment explanation
Indices: 9295448--9295472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9295438 TAATTAAATA
9295448 AAATAAAAGAAAC
1 AAATAAAAGAAAC
9295461 AAATAAAAGAAA
1 AAATAAAAGAAA
9295473 GAATGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAATAAAAGAAAC
Found at i:9318306 original size:3 final size:3
Alignment explanation
Indices: 9318298--9318337 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9318288 TGGTTTAACC
9318298 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9318338 TTGAATTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9320108 original size:40 final size:40
Alignment explanation
Indices: 9320030--9320180 Score: 177
Period size: 40 Copynumber: 3.8 Consensus size: 40
9320020 TTTAGTGGCT
* *
9320030 TTAGCGGCGCTTTTT-AAAAATGCTGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
*
9320069 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
* * * *
9320109 TTAGCGGCGTTTTTTTAAAAACGCCGCTATATG-TAC-ACCT-
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTA-AAGAT-CGA-GTA
9320149 TTAGCGGCGCTTTTTGAAAAACGCCGC-AAAGA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGA
9320181 ATTTTGCAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 16 0.17
40 74 0.77
41 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
Found at i:9320639 original size:22 final size:22
Alignment explanation
Indices: 9320609--9320673 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
9320599 TTAATGGCTA
*
9320609 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
9320632 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
* *
9320654 GGGACAGGGGTTAAGGGTTA
1 GGGATAGGGGTTAAGCGTTA
9320674 GAGGTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.48, T:0.25
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:9320758 original size:15 final size:14
Alignment explanation
Indices: 9320743--9320791 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
9320733 GTGATGGGGT
*
9320743 TTAAGGTTTAGGGG
1 TTAAGGTTTAAGGG
9320757 TT-AGGTGTTAAGGG
1 TTAAGGT-TTAAGGG
*
9320771 TTTATGGTTTAAGGG
1 -TTAAGGTTTAAGGG
9320786 TTAAGG
1 TTAAGG
9320792 GATATGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 9 0.31
16 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
TTAAGGTTTAAGGG
Found at i:9320779 original size:29 final size:28
Alignment explanation
Indices: 9320739--9320859 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 28
9320729 TTATGTGATG
*
9320739 GGGTTTAAGGTTTAGGGGTTAGGTGTTAA
1 GGGTTTATGGTTTAGGGGTTAGG-GTTAA
* * *
9320768 GGGTTTATGGTTTAAGGGTTAAGGGATAT
1 GGGTTTATGGTTTAGGGGTT-AGGGTTAA
* *
9320797 GGG-TTATGAGTTTAGGGTTTAGGATTTAA
1 GGGTTTATG-GTTTAGGGGTTAGG-GTTAA
* *
9320826 -GATTTAGTGG--TAGGGGTTAGAGGTTTA
1 GGGTTTA-TGGTTTAGGGGTTAG-GGTTAA
9320853 GGGTTTA
1 GGGTTTA
9320860 GATTAATCAA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
27 12 0.17
28 15 0.21
29 39 0.55
30 5 0.07
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (28 bp):
GGGTTTATGGTTTAGGGGTTAGGGTTAA
Found at i:9320791 original size:43 final size:43
Alignment explanation
Indices: 9320751--9320860 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 43
9320741 GTTTAAGGTT
*
9320751 TAGGGGTTAGGTGTTAAGGGTTTATGG-TTTAAGGGTTAAGGGA
1 TAGGGGTTAGGAGTTAAGGGTTTA-GGATTTAAGGGTTAAGGGA
* * * * *
9320794 TATGGGTTATGAGTTTAGGGTTTAGGATTTAA-GATTTAGTGG-
1 TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAG-GGA
*
9320836 TAGGGGTTA-GAGGTTTAGGGTTTAG
1 TAGGGGTTAGGA-GTTAAGGGTTTAG
9320861 ATTAATCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 28 0.49
43 27 0.47
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (43 bp):
TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAGGGA
Found at i:9321297 original size:18 final size:18
Alignment explanation
Indices: 9321274--9321317 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9321264 CCCAAAATAG
* *
9321274 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
9321292 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
9321310 ATTTCCCC
1 ATTTCCCC
9321318 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:9325131 original size:21 final size:21
Alignment explanation
Indices: 9325105--9325162 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
9325095 TGATTAGTAT
9325105 ACGACACATAAAGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
* * * * *
9325126 ACGACAC--GAGGTGCTTGAT
1 ACGACACATAAAGTGCCTAAA
9325145 ACGACACATAAAGTGCCT
1 ACGACACATAAAGTGCCT
9325163 GATCGATAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:9325165 original size:21 final size:21
Alignment explanation
Indices: 9325103--9325165 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
9325093 CTTGATTAGT
*
9325103 ATACGACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTG
* * * *
9325124 AAACGACAC--GAGGTGCTTG
1 ATACGACACATAAAGTGCCTG
9325143 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
9325164 AT
1 AT
9325166 CGATAAAGCC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:9325560 original size:15 final size:15
Alignment explanation
Indices: 9325535--9325592 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
9325525 TCATATATAT
9325535 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
9325551 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
9325566 AATAATTTCAATCAA
1 TATAAATTCAATCAA
9325581 TATAAATTCAAT
1 TATAAATTCAAT
9325593 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:9326877 original size:5 final size:5
Alignment explanation
Indices: 9326869--9326913 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
9326859 GTTTATATAC
9326869 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
9326914 TAAAACATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:9327096 original size:20 final size:21
Alignment explanation
Indices: 9327051--9327096 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
9327041 TTTTAATCTA
*
9327051 TAATTCAACTTTAATTAAGCT
1 TAATTCAACTTTAATTAAACT
*
9327072 AAATTC-AC-TTAATTAAACT
1 TAATTCAACTTTAATTAAACT
9327091 CTAATT
1 -TAATT
9327097 AACCACTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATTCAACTTTAATTAAACT
Found at i:9327995 original size:15 final size:15
Alignment explanation
Indices: 9327975--9328008 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9327965 TAATTTGATG
*
9327975 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
9327990 TTTGGATGTACCATT
1 TTTGGATGTACCATT
9328005 TTTG
1 TTTG
9328009 TTCATCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:9332161 original size:90 final size:89
Alignment explanation
Indices: 9332002--9332249 Score: 250
Period size: 90 Copynumber: 2.8 Consensus size: 89
9331992 AGTTTCTTGT
* * * * *
9332002 TCTTAATTAGTTCATAGCCTAGAGTTTTGGTGGTCCTACTAAG-TGGACTTGATGAATTCACCGA
1 TCTTAATGAGTTCATATCCTA-AGGTTTGGTGGTTCTACTAAGATGGACTTGATGAACTCACCGA
* * * *
9332066 TTTTATAGGATGAACTACTAGATGC
65 ATTTATAGGATGAACCACTAAATAC
* * * *
9332091 TCTTAATGAGTTCATATCCTAAGGTTTGGATGGTTATATTGAGATGGACTTGATGAAC-CTACTG
1 TCTTAATGAGTTCATATCCTAAGGTTTGG-TGGTTCTACTAAGATGGACTTGATGAACTC-ACCG
* *
9332155 AATTTATAGGATGAGCCACTAAATAT
64 AATTTATAGGATGAACCACTAAATAC
* * * * *
9332181 TCTTAATGAATTCATATCC-CAGGCTTTGGGTGGTTCTAGTAAGACGGACTTGATGAATTCACCG
1 TCTTAATGAGTTCATATCCTAAGG-TTT-GGTGGTTCTACTAAGATGGACTTGATGAACTCACCG
9332245 AATTT
64 AATTT
9332250 TTAAACTGGG
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 7 0.05
89 32 0.25
90 88 0.68
91 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (89 bp):
TCTTAATGAGTTCATATCCTAAGGTTTGGTGGTTCTACTAAGATGGACTTGATGAACTCACCGAA
TTTATAGGATGAACCACTAAATAC
Found at i:9334038 original size:10 final size:10
Alignment explanation
Indices: 9333994--9334052 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
9333984 AATTTTAGCT
9333994 TTTATCTTTA
1 TTTATCTTTA
* *
9334004 TTTGTCCTTA
1 TTTATCTTTA
*
9334014 TTTATCTATA
1 TTTATCTTTA
*
9334024 ATTATCTTTA
1 TTTATCTTTA
9334034 TTTAT-TTGTA
1 TTTATCTT-TA
9334044 TTTATCTTT
1 TTTATCTTT
9334053 TAGAAATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Done.