Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 73
Found at i:11891731 original size:3 final size:3
Alignment explanation
Indices: 11891723--11891796 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
11891713 AAATTAAAGT
** *
11891723 TAA TAA TAA TAA TAA TAAA TGAA GTAAA TAA TAA GGA TTA -AA TAA TAA
1 TAA TAA TAA TAA TAA T-AA T-AA -T-AA TAA TAA TAA TAA TAA TAA TAA
*
11891771 TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
11891797 TGTTGCAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 49 0.83
4 6 0.10
5 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:11892928 original size:3 final size:3
Alignment explanation
Indices: 11892920--11892957 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
11892910 TTCGTCATAC
*
11892920 TAT TAT TA- TAT TAG TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
11892958 ATTAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11895032 original size:166 final size:168
Alignment explanation
Indices: 11894778--11895112 Score: 656
Period size: 166 Copynumber: 2.0 Consensus size: 168
11894768 TAATTAAATT
11894778 TTTCAAGAAAAGACTGTTAGATCAAATCTAAGATCTCGAGATATTTAAATAATTGAACATCCTTA
1 TTTCAAGAAAAGACTGTTAGATCAAATCTAAGATCTCGAGATATTTAAATAATTGAACATCCTTA
11894843 TTCTCATTAAATATTGATAAAATAAATAAATAATTATACTTGCTTGATATATGC-TTTAATTCGC
66 TTCTCATTAAATATTGATAAAATAAATAAATAATTATACTTGCTTGATATATGCTTTTAATTCGC
11894907 -TTCTTTTTGCATGTGTTTTCCATATAGGTTTTCAAAA
131 TTTCTTTTTGCATGTGTTTTCCATATAGGTTTTCAAAA
11894944 TTTCAAGAAAAGACTGTTAGATCAAATCTAAGATCTCGAGATATTTAAATAATTGAACATCCTTA
1 TTTCAAGAAAAGACTGTTAGATCAAATCTAAGATCTCGAGATATTTAAATAATTGAACATCCTTA
11895009 TTCTCATTAAATATTGATAAAATAAATAAATAATTATACTTGCTTGATATATGCTTTTAATTCGC
66 TTCTCATTAAATATTGATAAAATAAATAAATAATTATACTTGCTTGATATATGCTTTTAATTCGC
11895074 TTTCTTTTTGCATGTGTTTTCCATATAGGTTTTCAAAA
131 TTTCTTTTTGCATGTGTTTTCCATATAGGTTTTCAAAA
11895112 T
1 T
11895113 AATAACACTC
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 119 0.71
167 10 0.06
168 38 0.23
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (168 bp):
TTTCAAGAAAAGACTGTTAGATCAAATCTAAGATCTCGAGATATTTAAATAATTGAACATCCTTA
TTCTCATTAAATATTGATAAAATAAATAAATAATTATACTTGCTTGATATATGCTTTTAATTCGC
TTTCTTTTTGCATGTGTTTTCCATATAGGTTTTCAAAA
Found at i:11902922 original size:85 final size:85
Alignment explanation
Indices: 11902774--11902939 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
11902764 ATACAATCAC
* * * * * * *
11902774 GACACACGAATGTGTGTTATCTTTTTTAATGGCGTGTGCTTCAATGTCACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
11902839 TATGCATGTCATAAATTTAT
66 AATGCACGTCATAAATTTAT
* *
11902859 GACACACAAATGTGTGTCATCTTAATTT-ATGACGGGGGCTTCAATGACGCTCAATG-AACGTCA
1 GACACACAAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAATGTAA-GTCA
*
11902922 TAAATGCGCGTCATAAAT
64 TAAATGCACGTCATAAAT
11902940 GTGCGTCATA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 62 0.93
86 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGCACGTCATAAATTTAT
Found at i:11902933 original size:13 final size:13
Alignment explanation
Indices: 11902917--11902991 Score: 105
Period size: 13 Copynumber: 5.8 Consensus size: 13
11902907 GCTCAATGAA
*
11902917 CGTCATAAATGCG
1 CGTCATAAATGTG
11902930 CGTCATAAATGTG
1 CGTCATAAATGTG
11902943 CGTCATAAATGTG
1 CGTCATAAATGTG
*
11902956 CGTTATAAATGTG
1 CGTCATAAATGTG
* * *
11902969 TGTTATAAATGCG
1 CGTCATAAATGTG
11902982 CGTCATAAAT
1 CGTCATAAAT
11902992 TTATGACGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:11903013 original size:28 final size:28
Alignment explanation
Indices: 11902980--11903043 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
11902970 GTTATAAATG
11902980 CGCGTCATAAATTTATGACGCACAGTTA
1 CGCGTCATAAATTTATGACGCACAGTTA
11903008 CGCGTCATAAATTTATGACGCACAGTTA
1 CGCGTCATAAATTTATGACGCACAGTTA
11903036 CGCGTCAT
1 CGCGTCAT
11903044 CTTAAATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (28 bp):
CGCGTCATAAATTTATGACGCACAGTTA
Found at i:11906756 original size:133 final size:133
Alignment explanation
Indices: 11906581--11907333 Score: 933
Period size: 133 Copynumber: 5.7 Consensus size: 133
11906571 AGACAAGAGA
* * * * *
11906581 AACAAGTCTACCTCAATTCAATCCTCCCTGAGTGATAGTGGAATGAATCAACGT-CTCCAAATCT
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAAC-TCCCCCAGATCT
* * * * * *
11906645 GATTTTCCCTAAAGAAGAAGTGAAATAGATCCTCTCTTTCAAGATTTAATATTCCCTAAGCGACA
65 GATTTTCCCTCAAGAAGAAGTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
11906710 GTGG
130 GTGG
* * * * * * *
11906714 AATAAGTTTGCCTCGATTTAATCTTCCCTGAGTGACAGTGGAATGGATCAACTCCCTCAGACCTG
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACTCCCCCAGATCTG
*
11906779 ATTTTCCCTTAAGAA-AATGTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
66 ATTTTCCCTCAAGAAGAA-GTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
11906843 GTGG
130 GTGG
* * * * * *
11906847 AA-AAGTCTGTCTCGATTCAATCTTCCCTGAGTGACAATGGAATGGATCAACTCCCCCATATATG
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACTCCCCCAGATCTG
* * * *
11906911 ATTTTCCCTCAAGAAGAAGTGGAACATAT-CTTTCCTTCAAGATTTGATATTCCCTGAGTGACAG
66 ATTTTCCCTCAAGAAGAAGTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAG
11906975 TGG
131 TGG
*
11906978 AACAAGTCTGCCTCGATTCAATCTTTCCTGAGTG-TAAGTGGAATGAATCAACTCCCCCAGATCT
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGAT-AGTGGAATGAATCAACTCCCCCAGATCT
* * * *
11907042 GATTTTCCCTCAAGAAGAAATAAAACATATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTGAC
65 GATTTTCCCTCAAGAAGAAGTGAAACAAATCCTC-TCTTTCAAGATTTGATATTCCCTGAGTGAC
*
11907107 AATGG
129 AGTGG
* * *
11907112 AACAAGTCTGTCTCGATTCAATCTTCTCTGAGTGATAGTGGAAT-AGATCAACTCCCCCATATCT
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGA-ATCAACTCCCCCAGATCT
* **
11907176 GATATTCCCTCAAGAAGAAGTGGTACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
65 GATTTTCCCTCAAGAAGAAGTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
**
11907241 GCAG
130 GTGG
* * * * * * ***
11907245 AACAAATCTGGCTCGATTCAATCTTCCCTAAATGTTAGTGCAATGAATCAACGATCCCAGATCTG
1 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACTCCCCCAGATCTG
*
11907310 ATTTTCCCTCTAGAAGAAGCTGAA
66 ATTTTCCCTCAAGAAGAAG-TGAA
11907334 CATATCCCTC
Statistics
Matches: 535, Mismatches: 74, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
131 38 0.07
132 160 0.30
133 217 0.41
134 119 0.22
135 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (133 bp):
AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACTCCCCCAGATCTG
ATTTTCCCTCAAGAAGAAGTGAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAG
TGG
Found at i:11910270 original size:24 final size:23
Alignment explanation
Indices: 11910242--11910295 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
11910232 CGTTTTGACA
11910242 TATATATGTTTT-AAAACTATATGC
1 TATATATGTTTTAAAAACTATA--C
11910266 TATATATGTTTTAAAAACTATAC
1 TATATATGTTTTAAAAACTATAC
11910289 TATATAT
1 TATATAT
11910296 TTCAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
25 9 0.31
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (23 bp):
TATATATGTTTTAAAAACTATAC
Found at i:11910294 original size:25 final size:24
Alignment explanation
Indices: 11910241--11910295 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
11910231 CCGTTTTGAC
11910241 ATATATATGTTTTAAAACTATATG
1 ATATATATGTTTTAAAACTATATG
*
11910265 CTATATATGTTTTAAAAACTATACT-
1 ATATATATGTTTT-AAAACTATA-TG
11910290 ATATAT
1 ATATAT
11910296 TTCAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 14 0.52
26 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (24 bp):
ATATATATGTTTTAAAACTATATG
Found at i:11910313 original size:19 final size:19
Alignment explanation
Indices: 11910265--11910313 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
11910255 AAACTATATG
*
11910265 CTATATATGT-TTTAAAAA
1 CTATATATATATTTAAAAA
*
11910283 CTATACTATATATTTCAAAA
1 CTATA-TATATATTTAAAAA
*
11910303 TTATATATATA
1 CTATATATATA
11910314 CACTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (19 bp):
CTATATATATATTTAAAAA
Found at i:11910369 original size:20 final size:21
Alignment explanation
Indices: 11910344--11910382 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11910334 TTCAAAACTA
11910344 TGTTTT-CAAAACTATATATG
1 TGTTTTCCAAAACTATATATG
11910364 TGTTTTCCAAAACTATATA
1 TGTTTTCCAAAACTATATA
11910383 CTATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (21 bp):
TGTTTTCCAAAACTATATATG
Found at i:11911212 original size:201 final size:199
Alignment explanation
Indices: 11911005--11911571 Score: 577
Period size: 200 Copynumber: 2.8 Consensus size: 199
11910995 TTGAATGGAT
*
11911005 GGTAGTTCATTACTGCTACCATGTAGTCAATGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAAG
1 GGTAGTTCCTTACTGCTACCATGTAGTCAATGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAAG
* * * * *
11911070 CTTTGGTTGATATATAGCTCTAAC-CGACTTAAGCTGTGTTGAAATTTGGGCCGAAAAATAGTTC
66 CTTTGGTTGACATATAGCTCT-TCTCGACTTAAGCTATGTT-AAATTTGGG-CGAGAAGTAGTTC
* * * * *
11911134 CTCATTGTTAAATCGCAACCAATTTGGGTCTTTTTCTCAATTTTAAAACCTAAATTTAAAGTTTG
128 CTCATTGATAAATCACAACCAATTTGGGTCTTCTTCTCAATTTGAAAACATAAATTTAAA-TTTG
* *
11911199 ATCGA-AA
192 AACCAGAA
* * * *
11911206 GGTAGTTCCTTTCTTG-TACCATGTAGTCAATGTGCTCTCTAGTTGATTGGAATCGAACTTTAAA
1 GGTAGTTCCTTAC-TGCTACCATGTAGTCAATGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAA
** * * * * * *
11911270 GCTTTGGTCAACAGATAACTCTTCTCGACTTAAGCTACG-CAAATTTTAGGTCGGGAAGTAGTTC
65 GCTTTGGTTGACATATAGCTCTTCTCGACTTAAGCTATGTTAAA-TTT-GGGCGAGAAGTAGTTC
* * * * ** * * * * *
11911334 CTCGTTGCTAAATCACAACCAATTTAGGTATTCTTCTGGATTTGAAGACATCAGTTTGAATTTTA
128 CTCATTGATAAATCACAACCAATTTGGGTCTTCTTCTCAATTTGAAAACATAAATTTAAATTTGA
11911399 ACCAGAA
193 ACCAGAA
* * * * *
11911406 GATAGTTCCTTACTGCTACCATGCAATCAATGTGCTCTTGAGTTGAGTGTAA-CGGAACTTGAAA
1 GGTAGTTCCTTACTGCTACCATGTAGTCAATGTGCTCTCGAGTTGAGTGGAATC-GAACTTGAAA
* * *
11911470 GCCTTGGTTGACATATAGCTCTTCTTGACTTAAGCTATGTTAGAATTTGGGCTAGGAAGTAGTTC
65 GCTTTGGTTGACATATAGCTCTTCTCGACTTAAGCTATGTTA-AATTTGGGCGA-GAAGTAGTTC
* * * *
11911535 CTCATTAATAAATCATAACCCATTTGGGTCTCCTTCT
128 CTCATTGATAAATCACAACCAATTTGGGTCTTCTTCT
11911572 GGACTTAAAG
Statistics
Matches: 293, Mismatches: 63, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
199 12 0.04
200 147 0.50
201 130 0.44
202 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (199 bp):
GGTAGTTCCTTACTGCTACCATGTAGTCAATGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAAG
CTTTGGTTGACATATAGCTCTTCTCGACTTAAGCTATGTTAAATTTGGGCGAGAAGTAGTTCCTC
ATTGATAAATCACAACCAATTTGGGTCTTCTTCTCAATTTGAAAACATAAATTTAAATTTGAACC
AGAA
Found at i:11911494 original size:200 final size:197
Alignment explanation
Indices: 11910828--11911537 Score: 613
Period size: 201 Copynumber: 3.5 Consensus size: 197
11910818 GCTATCATAC
* * * * * * * ** **
11910828 AGTCAATGTGTTTTTCATTTGAGTCGAACCGAACTTGAAAGCTCTGGCCGACGGATAGCTCTTCT
1 AGTCAATGTGCTCTTGAGTTGAGTGGAATCGAACTTGAAAGCTTTGGTTGACATATAGCTCTTCT
* * * * * *
11910893 CGACTTAAGCTATGTCAAAATTTGTTTTGAGAAATAGTTGCTCGTTGCTAAATTGTAGCCAATTT
66 CGACTTAAGCTATGTC-AAATTTG-GTCGAGAAATAGTTCCTCGTTGCTAAATCGCAACCAATTT
* * * * * * *
11910958 AGGTATTCTTCTTGATTTAAAGACCCCAATTTTAACTTTGAATGGATGGTAGTTCATTACTGCTA
129 AGGTATTCTTCTCGATTTAAAGACCTCAA-TTTAAATTTTAA-CGAAGGTAGTTCCTTACTGCTA
11911023 CCATGT
192 CCATGT
* * *
11911029 AGTCAATGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAAGCTTTGGTTGATATATAGCTCTAAC
1 AGTCAATGTGCTCTTGAGTTGAGTGGAATCGAACTTGAAAGCTTTGGTTGACATATAGCTCT-TC
* * * * * *
11911094 -CGACTTAAGCTGTGTTGAAATTTGGGCCGAAAAATAGTTCCTCATTGTTAAATCGCAACCAATT
65 TCGACTTAAGCTATG-TCAAATTT-GGTCGAGAAATAGTTCCTCGTTGCTAAATCGCAACCAATT
* * * * * * * *
11911158 TGGGTCTTTTTCTCAATTTTAAA-ACCTAAATTTAAAGTTTGATCGAAAGGTAGTTCCTTTCTTG
128 TAGGTATTCTTCTCGA-TTTAAAGACCTCAATTTAAA-TTTTAACG-AAGGTAGTTCCTTAC-TG
11911222 -TACCATGT
189 CTACCATGT
* * ** * *
11911230 AGTCAATGTGCTCTCT-AGTTGATTGGAATCGAACTTTAAAGCTTTGGTCAACAGATAACTCTTC
1 AGTCAATGTGCTCT-TGAGTTGAGTGGAATCGAACTTGAAAGCTTTGGTTGACATATAGCTCTTC
* * * *
11911294 TCGACTTAAGCTACG-CAAATTTTAGGTCGGGAAGTAGTTCCTCGTTGCTAAATCACAACCAATT
65 TCGACTTAAGCTATGTCAAA-TTT-GGTCGAGAAATAGTTCCTCGTTGCTAAATCGCAACCAATT
* * * * * *
11911358 TAGGTATTCTTCTGGATTTGAAGACATCAGTTTGAATTTTAACCAGAAGATAGTTCCTTACTGCT
128 TAGGTATTCTTCTCGATTTAAAGACCTCAATTTAAATTTTAA-C-GAAGGTAGTTCCTTACTGCT
*
11911423 ACCATGC
191 ACCATGT
* * *
11911430 AATCAATGTGCTCTTGAGTTGAGTGTAA-CGGAACTTGAAAGCCTTGGTTGACATATAGCTCTTC
1 AGTCAATGTGCTCTTGAGTTGAGTGGAATC-GAACTTGAAAGCTTTGGTTGACATATAGCTCTTC
* * * * *
11911494 TTGACTTAAGCTATGTTAGAATTTGGGCTAGGAAGTAGTTCCTC
65 TCGACTTAAGCTATGTCA-AATTTGGTCGA-GAAATAGTTCCTC
11911538 ATTAATAAAT
Statistics
Matches: 401, Mismatches: 89, Indels: 38
0.76 0.17 0.07
Matches are distributed among these distances:
199 16 0.04
200 151 0.38
201 221 0.55
202 13 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (197 bp):
AGTCAATGTGCTCTTGAGTTGAGTGGAATCGAACTTGAAAGCTTTGGTTGACATATAGCTCTTCT
CGACTTAAGCTATGTCAAATTTGGTCGAGAAATAGTTCCTCGTTGCTAAATCGCAACCAATTTAG
GTATTCTTCTCGATTTAAAGACCTCAATTTAAATTTTAACGAAGGTAGTTCCTTACTGCTACCAT
GT
Found at i:11935648 original size:20 final size:19
Alignment explanation
Indices: 11935623--11935665 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
11935613 GAAATGATGC
11935623 AAATAATAA-ATAAAAGAAGA
1 AAATAA-AATATAAAA-AAGA
*
11935643 AAATAAAATATAATAAAGA
1 AAATAAAATATAAAAAAGA
11935662 AAAT
1 AAAT
11935666 GATTAGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAATAAAATATAAAAAAGA
Found at i:11936680 original size:12 final size:12
Alignment explanation
Indices: 11936659--11936692 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11936649 TTGGATCCCC
11936659 TTAAAAATAAAA
1 TTAAAAATAAAA
*
11936671 TTAAAGATAAAA
1 TTAAAAATAAAA
*
11936683 TTAATAATAA
1 TTAAAAATAA
11936693 TAAATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
TTAAAAATAAAA
Found at i:11936686 original size:24 final size:24
Alignment explanation
Indices: 11936659--11936720 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
11936649 TTGGATCCCC
*
11936659 TTAAAAATAA-AATTAAAGATAAAA
1 TTAAAAATAATAAATAAAG-TAAAA
*
11936683 TTAATAATAATAAATAAAGTAAATA
1 TTAAAAATAATAAATAAAGTAAA-A
* *
11936708 ATAATAATAATAA
1 TTAAAAATAATAA
11936721 TGATGATGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (24 bp):
TTAAAAATAATAAATAAAGTAAAA
Found at i:11936716 original size:9 final size:10
Alignment explanation
Indices: 11936685--11936721 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
11936675 AGATAAAATT
11936685 AATAATAATA
1 AATAATAATA
*
11936695 AATAA-AGTA
1 AATAATAATA
11936704 AATAATAAT-
1 AATAATAATA
11936713 AATAATAAT
1 AATAATAAT
11936722 GATGATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:11938077 original size:38 final size:36
Alignment explanation
Indices: 11938034--11938153 Score: 109
Period size: 38 Copynumber: 3.2 Consensus size: 36
11938024 ACTATATACC
*
11938034 ATATATGTTTTCATAATTATACTATATATTTCAAAACT
1 ATATATATTTT-ATAATTATA-TATATATTTCAAAACT
* *
11938072 ATATATATACATTATATATTATAAATATA-TTCAAAACT
1 ATATATAT--TTTATA-ATTATATATATATTTCAAAACT
** * *
11938110 ATATATATGATAT-ATTTTATATATGTTTTCAAAACT
1 ATATATATTTTATAATTATATATAT-ATTTCAAAACT
11938146 ATATATAT
1 ATATATAT
11938154 GTTTTCCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 9 0.13
36 20 0.29
38 24 0.35
39 8 0.12
40 8 0.12
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (36 bp):
ATATATATTTTATAATTATATATATATTTCAAAACT
Found at i:11938124 original size:36 final size:37
Alignment explanation
Indices: 11938057--11938154 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
11938047 TAATTATACT
*
11938057 ATATATTTCAAAACTATATATATACATTATATATTATAA
1 ATATA-TTCAAAACTATATATAT-GATTATATATTATAA
* *
11938096 ATATATTCAAAACTATATATATGA-TATATTTTATAT
1 ATATATTCAAAACTATATATATGATTATATATTATAA
* *
11938132 ATGTTTTCAAAACTATATATATG
1 ATATATTCAAAACTATATATATG
11938155 TTTTCCAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
36 31 0.57
37 1 0.02
38 17 0.31
39 5 0.09
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (37 bp):
ATATATTCAAAACTATATATATGATTATATATTATAA
Found at i:11938150 original size:20 final size:21
Alignment explanation
Indices: 11938127--11938171 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
11938117 TGATATATTT
11938127 TATATATGTTTT-CAAAACTA
1 TATATATGTTTTCCAAAACTA
11938147 TATATATGTTTTCCAAAACTA
1 TATATATGTTTTCCAAAACTA
11938168 TATA
1 TATA
11938172 CTATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (21 bp):
TATATATGTTTTCCAAAACTA
Found at i:11939732 original size:15 final size:15
Alignment explanation
Indices: 11939712--11939915 Score: 212
Period size: 15 Copynumber: 13.0 Consensus size: 15
11939702 TAATAAGGTT
11939712 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
11939727 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
11939742 ATTTATTTTAAAACA
1 ATTTATTTTAAAATA
* *
11939757 ATTTATTATAAAACA
1 ATTTATTTTAAAATA
*
11939772 ATTTATTTTAAAACA
1 ATTTATTTTAAAATA
*
11939787 ATTTATTTTAAAACA
1 ATTTATTTTAAAATA
*
11939802 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
11939817 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
11939832 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
11939851 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
11939869 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* *
11939883 ATTTATTATTATGGATTA
1 ATTTATT-TTA--AAATA
11939901 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
11939916 TGGATTGATT
Statistics
Matches: 162, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.07
15 117 0.72
16 4 0.02
17 5 0.03
18 11 0.07
19 1 0.01
20 2 0.01
21 4 0.02
22 6 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:11939883 original size:14 final size:14
Alignment explanation
Indices: 11939854--11939912 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
11939844 ATATGGATTG
11939854 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
11939869 ATTTATTTTAAATA
1 ATTTATTTTAAATA
*
11939883 ATTTATTATTATGGATTA
1 ATTTATT-TTA---AATA
11939901 ATTTATTTTAAA
1 ATTTATTTTAAA
11939913 ATATGGATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 13 0.34
15 12 0.32
17 3 0.08
18 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:11939903 original size:32 final size:31
Alignment explanation
Indices: 11939867--11939966 Score: 101
Period size: 32 Copynumber: 3.5 Consensus size: 31
11939857 TATTTTAAAA
11939867 TAATTTATTTTAAATAATTTATTATTATGGAT
1 TAATTTATTTTAAATAATTTATTA-TATGGAT
11939899 TAATTTA-TTT---TAA---A--ATATGGAT
1 TAATTTATTTTAAATAATTTATTATATGGAT
*
11939921 TGATTTATTTTAAATAATTTATTAGTATGGAT
1 TAATTTATTTTAAATAATTTATTA-TATGGAT
*
11939953 TTATTTATTTTAAA
1 TAATTTATTTTAAA
11939967 ATATGGATTG
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
22 13 0.23
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 27 0.48
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (31 bp):
TAATTTATTTTAAATAATTTATTATATGGAT
Found at i:11939908 original size:22 final size:22
Alignment explanation
Indices: 11939892--11939934 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11939882 AATTTATTAT
11939892 TATGGATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
*
11939914 TATGGATTGATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
11939935 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:11939919 original size:69 final size:67
Alignment explanation
Indices: 11939787--11939944 Score: 221
Period size: 69 Copynumber: 2.3 Consensus size: 67
11939777 TTTTAAAACA
*
11939787 ATTTATTTTAAAACAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
11939852 TG
66 TG
* * * * *
11939854 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTATTATGGATTAATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT-TTA--AAATAAATTATTATAAAATATG
11939918 GATTG
63 GATTG
11939923 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
11939945 GTATGGATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
66 13 0.16
67 24 0.30
68 12 0.15
69 32 0.40
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:11939930 original size:54 final size:54
Alignment explanation
Indices: 11939869--11939983 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
11939859 TTTTAAAATA
*
11939869 ATTTATTTTAAATAATTTATTATTATGGATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
*
11939923 ATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
11939977 ATTTATT
1 ATTTATT
11939984 ATTGTAGTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
Found at i:11940039 original size:32 final size:32
Alignment explanation
Indices: 11939993--11940405 Score: 211
Period size: 32 Copynumber: 12.7 Consensus size: 32
11939983 TATTGTAGTT
*
11939993 GTATTGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940025 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940051 G--T--ATTGATTTATTTTAAATAATTAATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
11940079 GAATGGATTTATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940102 -TATGGATTGATTTTTTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
11940133 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940165 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* * * *
11940202 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTA-TGGA-TTG-AT--TTA------TTTTAAATAATTTATTA
11940245 GTATGGATTGATTTATTTTAAAATATGGATTTATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* ** * * * * * *
11940282 -TTTTAAATAATTTATTAGTATGGATTGATTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATT-TATT--A
* *
11940320 ATATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940352 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
11940384 GTATCGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
11940406 ATATGAATTG
Statistics
Matches: 293, Mismatches: 40, Indels: 96
0.68 0.09 0.22
Matches are distributed among these distances:
22 24 0.08
23 6 0.02
24 3 0.01
25 1 0.00
26 5 0.02
27 2 0.01
28 6 0.02
29 1 0.00
30 3 0.01
31 6 0.02
32 130 0.44
33 10 0.03
34 3 0.01
35 5 0.02
36 26 0.09
37 10 0.03
38 6 0.02
39 17 0.06
40 4 0.01
41 3 0.01
42 4 0.01
43 5 0.02
44 4 0.01
47 5 0.02
48 4 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:11940093 original size:54 final size:54
Alignment explanation
Indices: 11939998--11940517 Score: 552
Period size: 54 Copynumber: 9.5 Consensus size: 54
11939988 TAGTTGTATT
*
11939998 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * * *
11940052 TATTGATTTATTTTAAATAATTAATTAGAATGGATTTATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* *
11940106 GATTGATTTTTTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATG
* ** * ** * * * ***
11940160 TATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATG
1 GATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATG
11940218 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* *
11940272 GATTTATTTATTTTAAATAATTTATTAGTATGGATTGA-TTATTTTAAAATATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
11940325 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA--
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * * ** * * * * ***
11940376 -ATTTATTTGTATCGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATG
1 GATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATG
11940437 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
11940491 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTTAAATAATTTATTA
11940518 TTGTAGTTGT
Statistics
Matches: 379, Mismatches: 64, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
50 16 0.04
52 2 0.01
53 60 0.16
54 203 0.54
55 16 0.04
56 13 0.03
57 14 0.04
58 34 0.09
59 3 0.01
60 2 0.01
62 16 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:11940109 original size:22 final size:22
Alignment explanation
Indices: 11940081--11940122 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11940071 ATTAATTAGA
*
11940081 ATGGATTTATTTATTTTAAAAT
1 ATGGATTGATTTATTTTAAAAT
*
11940103 ATGGATTGATTTTTTTTAAA
1 ATGGATTGATTTATTTTAAA
11940123 TAATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (22 bp):
ATGGATTGATTTATTTTAAAAT
Found at i:11940250 original size:80 final size:82
Alignment explanation
Indices: 11940048--11940319 Score: 363
Period size: 86 Copynumber: 3.3 Consensus size: 82
11940038 TATTTTAAAA
* * * *
11940048 TATGTATTGATTTATTTTAAATAATTAATTAGAATGGATTTATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA-
* *
11940113 TTTTTTTAAATAATTTATTAG
65 -TTTATT-AAT-ATGTATTAG
11940134 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
11940199 TTATT-AT-TGTAGTT-G
66 TTATTAATATGTA-TTAG
*
11940214 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
11940279 TTATTTTAAATAATTTATTAG
66 TTA--TT-AAT-ATGTATTAG
11940300 TATGGATTGA-TTATTTTAAA
1 TATGGATTGATTTATTTTAAA
11940320 ATATAGATTG
Statistics
Matches: 170, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
80 71 0.42
81 2 0.01
82 4 0.02
84 7 0.04
85 12 0.07
86 74 0.44
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTAATATGTATTAG
Found at i:11940271 original size:22 final size:22
Alignment explanation
Indices: 11940246--11940288 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11940236 AATTTATTAG
11940246 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
11940268 TATGGATTTATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
11940289 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:11940436 original size:219 final size:220
Alignment explanation
Indices: 11939914--11940517 Score: 1084
Period size: 219 Copynumber: 2.8 Consensus size: 220
11939904 TATTTTAAAA
*
11939914 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
11939979 TTATTATTGTAGTTGTATTGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* * * *
11940044 AAAATATGTATTGATTTATTTTAAATAATTAATTAGAATGGATTTATTTATTTTAAAATATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATATAGAT
*
11940109 TGATTTTTTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
11940134 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
11940199 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* *
11940264 AAAATATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGA-TTATTTTAAAATATAGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATATAGAT
11940328 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
* * *
11940353 TATGGATTGATTTATTTTAAATAATTTATTTGTATCGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
11940418 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
11940483 AAAATATGGATTGATTTATTTTAAATAATTTATTA
131 AAAATATGGATTGATTTATTTTAAATAATTTATTA
11940518 TTGTAGTTGT
Statistics
Matches: 370, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
219 202 0.55
220 168 0.45
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (220 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATATAGAT
TGATTTATTTTAAATAATTTATTAG
Found at i:11940460 original size:80 final size:82
Alignment explanation
Indices: 11940268--11940502 Score: 336
Period size: 80 Copynumber: 2.9 Consensus size: 82
11940258 TATTTTAAAA
*
11940268 TATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGA-TTATTTTAAAATAT-AGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA-ATTGA
*
11940331 TTTATTTTAAATAATTTATTAG
65 TTTA--TT-AAT-ATGTATTAG
* *
11940353 TATGGATTGATTTATTTTAAATAATTTATTTGTATCGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
11940418 TTATT-AT-TGTAGTT-G
66 TTATTAATATGTA-TTAG
*
11940433 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
11940498 TTATT
66 TTATT
11940503 TTAAATAATT
Statistics
Matches: 140, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
80 71 0.51
81 2 0.01
82 2 0.01
84 2 0.01
85 39 0.28
86 23 0.16
87 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTAATATGTATTAG
Found at i:11940490 original size:22 final size:22
Alignment explanation
Indices: 11940465--11940507 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11940455 AATTTATTAG
11940465 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
11940487 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
11940508 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:11940566 original size:31 final size:31
Alignment explanation
Indices: 11940531--11940590 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
11940521 TAGTTGTATG
* * *
11940531 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAATATTGCAAAACTAA
11940562 AATTATTTAAATCTCAATATTGCAAAACT
1 AATTATTTAAATCTCAATATTGCAAAACT
11940591 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAATATTGCAAAACTAA
Found at i:11945007 original size:21 final size:21
Alignment explanation
Indices: 11944977--11945023 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11944967 AGCTGAGAGT
* * *
11944977 GATGATGATGATGACGATAAC
1 GATGACGATGAAGACGACAAC
11944998 GATGACGATGAAGACGACAAC
1 GATGACGATGAAGACGACAAC
11945019 GATGA
1 GATGA
11945024 TGAGAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (21 bp):
GATGACGATGAAGACGACAAC
Found at i:11948368 original size:8 final size:8
Alignment explanation
Indices: 11948343--11948417 Score: 59
Period size: 8 Copynumber: 9.9 Consensus size: 8
11948333 TAGGAGCCAT
*
11948343 TTTGAGAA
1 TTTGAGAG
11948351 TTTGAGAG
1 TTTGAGAG
*
11948359 TTTGATAG
1 TTTGAGAG
*
11948367 TTTCAGAG
1 TTTGAGAG
11948375 TTTGAGAG
1 TTTGAGAG
11948383 -TT---AG
1 TTTGAGAG
*
11948387 TTTTAGAG
1 TTTGAGAG
*
11948395 TTTGAAAG
1 TTTGAGAG
*
11948403 TTTAAGAG
1 TTTGAGAG
*
11948411 ATTGAGA
1 TTTGAGA
11948418 ATCGGGGATT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 2 0.04
8 46 0.88
ACGTcount: A:0.31, C:0.01, G:0.28, T:0.40
Consensus pattern (8 bp):
TTTGAGAG
Found at i:11948389 original size:20 final size:20
Alignment explanation
Indices: 11948364--11948404 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11948354 GAGAGTTTGA
*
11948364 TAGTTTCAGAGTTTGAGAGT
1 TAGTTTCAGAGTTTGAAAGT
*
11948384 TAGTTTTAGAGTTTGAAAGT
1 TAGTTTCAGAGTTTGAAAGT
11948404 T
1 T
11948405 TAAGAGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (20 bp):
TAGTTTCAGAGTTTGAAAGT
Found at i:11948864 original size:30 final size:31
Alignment explanation
Indices: 11948805--11948866 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
11948795 AGAGAAGGCG
*
11948805 CAAACGCGTCTTAGGGAAAGGCGCGGTGCAC
1 CAAACGCGCCTTAGGGAAAGGCGCGGTGCAC
* *
11948836 CAAACGCGCCTTAGGG-GAGGCGCTGTGCAC
1 CAAACGCGCCTTAGGGAAAGGCGCGGTGCAC
11948866 C
1 C
11948867 CAACATTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.23, C:0.29, G:0.35, T:0.13
Consensus pattern (31 bp):
CAAACGCGCCTTAGGGAAAGGCGCGGTGCAC
Found at i:11949023 original size:31 final size:31
Alignment explanation
Indices: 11948988--11949051 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11948978 TTTATGCATA
11948988 TTATTGCATCACATTTAACATTACATAATCT
1 TTATTGCATCACATTTAACATTACATAATCT
11949019 TTATTGCATCACATTTAACATTACATAATCT
1 TTATTGCATCACATTTAACATTACATAATCT
11949050 TT
1 TT
11949052 TTCTCACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (31 bp):
TTATTGCATCACATTTAACATTACATAATCT
Found at i:11952733 original size:30 final size:30
Alignment explanation
Indices: 11952667--11952735 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
11952657 TATAGAGACC
* *
11952667 AAAAGGATTGGAGTAAAATGAGATTACTAG
1 AAAAGGGTTGGAGTAAAACGAGATTACTAG
* *
11952697 AAAAGGGTTGGAGTAAGACGAGATTATTAG
1 AAAAGGGTTGGAGTAAAACGAGATTACTAG
11952727 AAAAGGGTT
1 AAAAGGGTT
11952736 TAGGGTTTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.23
Consensus pattern (30 bp):
AAAAGGGTTGGAGTAAAACGAGATTACTAG
Found at i:11953772 original size:12 final size:12
Alignment explanation
Indices: 11953755--11953784 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11953745 AACAGTAATT
*
11953755 TATCTCCAGCAC
1 TATCTCCACCAC
11953767 TATCTCCACCAC
1 TATCTCCACCAC
11953779 TATCTC
1 TATCTC
11953785 AACATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.03, T:0.30
Consensus pattern (12 bp):
TATCTCCACCAC
Found at i:11956164 original size:35 final size:35
Alignment explanation
Indices: 11956091--11956165 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
11956081 CATCACTAAC
**
11956091 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
11956126 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
11956161 AGTAA
1 AGTAA
11956166 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:11956303 original size:23 final size:23
Alignment explanation
Indices: 11956243--11956317 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
11956233 CATAATTCAA
*
11956243 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
11956267 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
11956291 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
11956314 GTCA
1 GTCA
11956318 GGATCATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:11956323 original size:23 final size:23
Alignment explanation
Indices: 11956247--11956332 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
11956237 ATTCAAGTCA
*
11956247 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
11956270 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
11956294 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
11956317 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
11956333 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:11956350 original size:47 final size:47
Alignment explanation
Indices: 11956226--11956339 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
11956216 TATATCAAAA
* * * * *
11956226 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAGAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
11956274 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
* *
11956320 ATCATAACAGAATTCAAGTC
1 ATCAGAACAGAATCCAAGTC
11956340 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 17 0.31
47 21 0.38
48 17 0.31
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:11957246 original size:18 final size:18
Alignment explanation
Indices: 11957220--11957255 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11957210 TCGAAATGAC
11957220 TGAAGTAAATGATAAGAT
1 TGAAGTAAATGATAAGAT
* *
11957238 TGAATTAAATTATAAGAT
1 TGAAGTAAATGATAAGAT
11957256 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
TGAAGTAAATGATAAGAT
Found at i:11958449 original size:22 final size:21
Alignment explanation
Indices: 11958416--11958456 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11958406 GGATTCTGAT
*
11958416 TCTGATATTGACATGGATTGA
1 TCTGATAATGACATGGATTGA
*
11958437 TCTGATACATGACCTGGATT
1 TCTGATA-ATGACATGGATT
11958457 CTGATATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (21 bp):
TCTGATAATGACATGGATTGA
Found at i:11958596 original size:34 final size:34
Alignment explanation
Indices: 11958557--11958621 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
11958547 ATTACTTGGA
11958557 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
11958591 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
11958622 GTTAGTGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.08, C:0.29, G:0.31, T:0.32
Consensus pattern (34 bp):
GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
Found at i:11959764 original size:16 final size:18
Alignment explanation
Indices: 11959740--11959777 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
11959730 ATAAAATGCA
*
11959740 TTTATAAATA-ATAT-TT
1 TTTAAAAATATATATGTT
11959756 TTTAAAAATATATATGTT
1 TTTAAAAATATATATGTT
11959774 TTTA
1 TTTA
11959778 TAATTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTAAAAATATATATGTT
Found at i:11965053 original size:12 final size:12
Alignment explanation
Indices: 11965036--11965072 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
11965026 GCTAGACTTG
11965036 GCTCGTGGTCGT
1 GCTCGTGGTCGT
*
11965048 GCTCGTGCTCGT
1 GCTCGTGGTCGT
11965060 GCTCGTGGTCGT
1 GCTCGTGGTCGT
11965072 G
1 G
11965073 GTAATACGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.41, T:0.32
Consensus pattern (12 bp):
GCTCGTGGTCGT
Found at i:11965074 original size:6 final size:6
Alignment explanation
Indices: 11965036--11965072 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
11965026 GCTAGACTTG
* *
11965036 GCTCGT GGTCGT GCTCGT GCTCGT GCTCGT GGTCGT G
1 GCTCGT GCTCGT GCTCGT GCTCGT GCTCGT GCTCGT G
11965073 GTAATACGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.27, G:0.41, T:0.32
Consensus pattern (6 bp):
GCTCGT
Found at i:11975559 original size:18 final size:18
Alignment explanation
Indices: 11975536--11975572 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11975526 GCTCGACTTG
11975536 GCTCGTGGTCGTGCTCGT
1 GCTCGTGGTCGTGCTCGT
*
11975554 GCTCGTGGTCGTGGTCGT
1 GCTCGTGGTCGTGCTCGT
11975572 G
1 G
11975573 GTAATACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.43, T:0.32
Consensus pattern (18 bp):
GCTCGTGGTCGTGCTCGT
Found at i:11975573 original size:6 final size:6
Alignment explanation
Indices: 11975538--11975574 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
11975528 TCGACTTGGC
* *
11975538 TCGTGG TCGTGC TCGTGC TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
11975575 AATACGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.22, G:0.43, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:11977643 original size:18 final size:18
Alignment explanation
Indices: 11977620--11977656 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11977610 GCTCGACTTG
*
11977620 GCTCGTGGTTGTGCTCGT
1 GCTCGTGGTCGTGCTCGT
*
11977638 GCTCGTGGTCGTGGTCGT
1 GCTCGTGGTCGTGCTCGT
11977656 G
1 G
11977657 GTAATACGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.43, T:0.35
Consensus pattern (18 bp):
GCTCGTGGTCGTGCTCGT
Found at i:11990361 original size:6 final size:6
Alignment explanation
Indices: 11990339--11990375 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
11990329 TCGACTCAGC
* *
11990339 TCGTGG TTGTTG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
11990376 AATACGTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.14, G:0.46, T:0.41
Consensus pattern (6 bp):
TCGTGG
Found at i:11994446 original size:6 final size:6
Alignment explanation
Indices: 11994439--11994481 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
11994429 ATTCTAGTGC
* *
11994439 TCGTGC TCGAGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
11994482 AATACGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.02, C:0.19, G:0.47, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:11994801 original size:22 final size:23
Alignment explanation
Indices: 11994749--11994801 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
11994739 TCAGGAGTTA
** *
11994749 CAGGAGTTATTTGATTTAATTAT
1 CAGGAGTTACATGATATAATTAT
*
11994772 -AGGGGTTACATGATATAATT-T
1 CAGGAGTTACATGATATAATTAT
11994793 CAGGAGTTA
1 CAGGAGTTA
11994802 TAACAGCTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (23 bp):
CAGGAGTTACATGATATAATTAT
Found at i:12001976 original size:22 final size:22
Alignment explanation
Indices: 12001946--12001998 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
12001936 TCAGGAGTTA
* *
12001946 CAGGAGTTACTTGATTTAATTC
1 CAGGAGTTACATGATATAATTC
* *
12001968 CAGGGGTTACATGATATAATTT
1 CAGGAGTTACATGATATAATTC
12001990 CAGGAGTTA
1 CAGGAGTTA
12001999 TAACAGCTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTC
Found at i:12007809 original size:22 final size:22
Alignment explanation
Indices: 12007784--12007838 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
12007774 TCAAGAGTTA
*
12007784 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATTTGATATAATTC
* ** *
12007806 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATTTGATATAATTC
12007828 CAGGAGTTATT
1 CAGGAGTTATT
12007839 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (22 bp):
CAGGAGTTATTTGATATAATTC
Found at i:12010651 original size:5 final size:5
Alignment explanation
Indices: 12010641--12010700 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
12010631 TTTGACCGGT
* *
12010641 CCGAC CCGAC CGTTGAC CCGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC
1 CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC
12010690 CCGAC CCGAC C
1 CCGAC CCGAC C
12010701 GTTGACCGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 39 0.83
7 8 0.17
ACGTcount: A:0.18, C:0.53, G:0.22, T:0.07
Consensus pattern (5 bp):
CCGAC
Found at i:12010671 original size:27 final size:27
Alignment explanation
Indices: 12010655--12010707 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
12010645 CCCGACCGTT
12010655 GACCCGACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCCGACCGTTGACCC
12010682 GACCCGACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCCGACCGTTGACC
12010708 GTTGACCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (27 bp):
GACCCGACCCGACCCGACCGTTGACCC
Found at i:12010707 original size:22 final size:22
Alignment explanation
Indices: 12010641--12010695 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
12010631 TTTGACCGGT
12010641 CCGACCCGACCGTTGACCCGAC
1 CCGACCCGACCGTTGACCCGAC
12010663 CCGACCCGACCGTTGACCCGAC
1 CCGACCCGACCGTTGACCCGAC
12010685 CCGACCCGACC
1 CCGACCCGACC
12010696 CGACCGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.53, G:0.22, T:0.07
Consensus pattern (22 bp):
CCGACCCGACCGTTGACCCGAC
Found at i:12011674 original size:32 final size:31
Alignment explanation
Indices: 12011590--12011666 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
12011580 CTAATGTGAC
* *
12011590 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
12011621 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
12011653 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
12011667 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:12011692 original size:63 final size:63
Alignment explanation
Indices: 12011590--12011713 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
12011580 CTAATGTGAC
* ** * *
12011590 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
12011653 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
12011714 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:12015754 original size:5 final size:5
Alignment explanation
Indices: 12015740--12015783 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
12015730 CGCCGTCCGT
* * *
12015740 CTCGT CTCGG CTCGG CACGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
12015784 TGGTCGTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.05, C:0.41, G:0.36, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:12015817 original size:6 final size:6
Alignment explanation
Indices: 12015781--12015883 Score: 107
Period size: 6 Copynumber: 17.2 Consensus size: 6
12015771 TCGGCTCGGC
* * ** * *
12015781 TCGTGG TCGTGA TCGTGC TCGTTT TTGTGG TCATGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
* * * * *
12015829 TCGTTG TCGTGG TCATGG TCTTGT TCGTGG TCGTGG TCATGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
12015877 TCGTGG T
1 TCGTGG T
12015884 AATACGTGTC
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.04, C:0.17, G:0.40, T:0.40
Consensus pattern (6 bp):
TCGTGG
Found at i:12021798 original size:6 final size:6
Alignment explanation
Indices: 12021783--12021825 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
12021773 TCGACTCAGC
* * *
12021783 TCGTGG TCGTGC TCGTGC TTGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
12021826 AATACGTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.19, G:0.44, T:0.37
Consensus pattern (6 bp):
TCGTGG
Found at i:12022129 original size:22 final size:22
Alignment explanation
Indices: 12022100--12022153 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
12022090 CAGGAGTTAT
* *
12022100 AGGAGTTATTTGATTTAATTCC
1 AGGAGTTATATGATATAATTCC
* * *
12022122 AGGGGTTACATGATATAATTTC
1 AGGAGTTATATGATATAATTCC
12022144 AGGAGTTATA
1 AGGAGTTATA
12022154 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (22 bp):
AGGAGTTATATGATATAATTCC
Found at i:12027155 original size:331 final size:332
Alignment explanation
Indices: 12026550--12027197 Score: 878
Period size: 331 Copynumber: 2.0 Consensus size: 332
12026540 GATGGGATGG
* * * *
12026550 AAATAAAATAAGAGATATATACATTTGGGCAAACAACATATTTAGTACCTCAATTATCAGTTTAT
1 AAATAAAATAAGAGATATATAAATTTGGGCAAACAACACATTTAATACCTCAACTATCAGTTTAT
* * * * *
12026615 TTCTTTTTAGTACTTAAATTTTTATTTGTTTAAAAATCATATTTAAGTTTACTTTTTGTTTCGTT
66 TTCGTTTAAGTACTTAAACTTTTATTTGTTTAAAAATCATATTTAAGATTACTTTTTATTTCGTT
* * * * *
12026680 TTGATATCTAGTCATTAAAAATTTAACGAAATTGTTATACATGACACTTTTTTTGGATAAATTGC
131 TTGATAACTAGACATTAAAAATTTAACGAAACTATTATACATGACACTTTTTATGGATAAATTGC
* * * * * *
12026745 GTTATTCATCATTCAAATGTCTTTTCATTTATATTTTGGTCACTGAAGTTTATTTTATCTTGCCT
196 ATTATTCATCACTCAAATATCTTTTCAGTTATATTTTGGACACCGAAGTTTATTTTATCTTGCCT
*
12026810 AAAAAATCTTGTCTCACTTGAGATAATTTTCTTTAAAATATATTTAGTCTCA-TTTAAGATAGTT
261 AAAAAATCTTGTCTCACTTGAGATAATTTTCTTTAAAACATATTTAGTCTCACTTTAAGATAGTT
12026874 TCTTTTA
326 TCTTTTA
* *
12026881 AAATAAAAT-A-ATATATATAAATTT-GGCTAAACTACACATTTAATACCTCAACTATCAGTTTA
1 AAATAAAATAAGAGATATATAAATTTGGGC-AAACAACACATTTAATACCTCAACTATCAGTTTA
*
12026943 TTTCGTTTAAGTACTTAAACTTTTATTTGTTTCAAAATCAT-TCTTAACGATTACTTTTTATGTT
65 TTTCGTTTAAGTACTTAAACTTTTATTTGTTTAAAAATCATAT-TTAA-GATTACTTTTTAT-TT
* * * * * *
12027007 -GTTTTGGTAACTCGACTTTAAAATTTTAACGAAACTATTGTACGTGACACTTTTTCATGGATAA
127 CGTTTTGATAACTAGACATTAAAAATTTAACGAAACTATTATACATGACACTTTTT-ATGGATAA
* * * *
12027071 ATTTCATTATTTATCACTCAACTATCTTTTCAGTTATATTTTGGACACCGAAGTTTATTTTGTCT
191 ATTGCATTATTCATCACTCAAATATCTTTTCAGTTATATTTTGGACACCGAAGTTTATTTTATCT
*
12027136 TGCCTAAAAATAT-TTGTCTCACTTGAGATAATTTTCTTTAAAACATATTTCGTCTCACTTTA
256 TGCCTAAAAA-ATCTTGTCTCACTTGAGATAATTTTCTTTAAAACATATTTAGTCTCACTTTA
12027198 GGTAATTTCT
Statistics
Matches: 275, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
328 4 0.01
329 83 0.30
330 57 0.21
331 125 0.45
332 6 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (332 bp):
AAATAAAATAAGAGATATATAAATTTGGGCAAACAACACATTTAATACCTCAACTATCAGTTTAT
TTCGTTTAAGTACTTAAACTTTTATTTGTTTAAAAATCATATTTAAGATTACTTTTTATTTCGTT
TTGATAACTAGACATTAAAAATTTAACGAAACTATTATACATGACACTTTTTATGGATAAATTGC
ATTATTCATCACTCAAATATCTTTTCAGTTATATTTTGGACACCGAAGTTTATTTTATCTTGCCT
AAAAAATCTTGTCTCACTTGAGATAATTTTCTTTAAAACATATTTAGTCTCACTTTAAGATAGTT
TCTTTTA
Found at i:12027221 original size:75 final size:76
Alignment explanation
Indices: 12027141--12027339 Score: 194
Period size: 75 Copynumber: 2.7 Consensus size: 76
12027131 TGTCTTGCCT
* * *
12027141 AAAAATATTTGTCTCACTTGAGATAATTTTCT-TTAAAACATATTTCGTCTCACTTTAGGTAATT
1 AAAAATATTTGTCTCACTTGAGATAATTTTCTATTAAAACAAATTTCGTCTCACTTGAGATAATT
12027205 TCTCTTGAAAC
66 TCTCTTGAAAC
* * ** * * * *
12027216 AAAAAT-TTCGTCTCACTTGAGGTAGCTTTGTATTAAAATAAATTTTGTCTCACTTGAGATAGTT
1 AAAAATATTTGTCTCACTTGAGATAATTTTCTATTAAAACAAATTTCGTCTCACTTGAGATAATT
*
12027280 TCTTTTGAAAC
66 TCTCTTGAAAC
* * * * *
12027291 AAAAATCA--TATCTCACTTAAGAT-ATTTTCTCTTGAAA-AAATTTTGTCTC
1 AAAAAT-ATTTGTCTCACTTGAGATAATTTTCTATTAAAACAAATTTCGTCTC
12027340 GTTGGAGATT
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
73 12 0.12
74 29 0.29
75 59 0.59
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (76 bp):
AAAAATATTTGTCTCACTTGAGATAATTTTCTATTAAAACAAATTTCGTCTCACTTGAGATAATT
TCTCTTGAAAC
Found at i:12027231 original size:38 final size:37
Alignment explanation
Indices: 12027141--12027330 Score: 154
Period size: 38 Copynumber: 5.1 Consensus size: 37
12027131 TGTCTTGCCT
* *
12027141 AAAAATATTT-GTCTCACTTGAGATAATTT-TCTTTA
1 AAAAAAATTTCGTCTCACTTGAGATAATTTCTCTTGA
* * * *
12027176 AAACATATTTCGTCTCACTTTAGGTAATTTCTCTTGA
1 AAAAAAATTTCGTCTCACTTGAGATAATTTCTCTTGA
* * * *
12027213 AACAAAAATTTCGTCTCACTTGAGGTAGCTTTGTATT-A
1 AA-AAAAATTTCGTCTCACTTGAGATA-ATTTCTCTTGA
* * * *
12027251 AAATAAATTTTGTCTCACTTGAGATAGTTTCTTTTGA
1 AAAAAAATTTCGTCTCACTTGAGATAATTTCTCTTGA
* * * *
12027288 AACAAAAATCAT-ATCTCACTTAAGATATTTTCTCTTGA
1 AA-AAAAAT-TTCGTCTCACTTGAGATAATTTCTCTTGA
12027326 AAAAA
1 AAAAA
12027331 TTTTGTCTCG
Statistics
Matches: 126, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
35 9 0.07
36 23 0.18
37 34 0.27
38 53 0.42
39 7 0.06
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (37 bp):
AAAAAAATTTCGTCTCACTTGAGATAATTTCTCTTGA
Found at i:12027268 original size:37 final size:35
Alignment explanation
Indices: 12027141--12027284 Score: 128
Period size: 37 Copynumber: 4.0 Consensus size: 35
12027131 TGTCTTGCCT
* *
12027141 AAAAATATTT-GTCTCACTTGAGATAATTTTCTTTA
1 AAAAAAATTTCGTCTCACTTGAGGTAA-TTTCTTTA
* * *
12027176 AAACATATTTCGTCTCACTTTAGGTAATTTCTCTTGA
1 AAAAAAATTTCGTCTCACTTGAGGTAATTTCT-TT-A
* *
12027213 AACAAAAATTTCGTCTCACTTGAGGTAGCTTTGTATTA
1 AA-AAAAATTTCGTCTCACTTGAGGTA-ATTTCT-TTA
* * * *
12027251 AAATAAATTTTGTCTCACTTGAGATAGTTTCTTT
1 AAAAAAATTTCGTCTCACTTGAGGTAATTTCTTT
12027285 TGAAACAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
35 16 0.18
36 20 0.22
37 24 0.27
38 24 0.27
39 6 0.07
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (35 bp):
AAAAAAATTTCGTCTCACTTGAGGTAATTTCTTTA
Found at i:12028060 original size:159 final size:156
Alignment explanation
Indices: 12027824--12028107 Score: 365
Period size: 159 Copynumber: 1.8 Consensus size: 156
12027814 CTACAACGAG
* * * * * *
12027824 GAGCTATTTCCATTCAACTTAACCCGTAGAGGGTTTACAGTTTCTTGAGTTAAATTTTAAATTCA
1 GAGCTATTTCCATCCAACTTAACCCGCAGAAGGTTTACAATTTCTTGAGTAAAATTTCAAATTCA
* * ** *
12027889 CAACGAAATATATTAGACTCGAAGAGCATTC-AAGTTTGACTTAACTCGCAATGGAGGAGTTGTC
66 CAACGAAATATATTAGACTCGAAGAACA-TCAAAATCAGACTTAACTCACAATGGAGGAGTTGTC
12027953 TGCAACATATCTTAAATCAATAACAAA
130 TGCAACATATCTTAAATCAATAACAAA
* * *
12027980 GAGCTATTTTCCATCCAACTTAACCTGCAGAAGGTTTGCAAATTTCTTTGGGTAAAATTTCAAAT
1 GAGCTA-TTTCCATCCAACTTAACCCGCAGAAGGTTTAC-AATTTC-TTGAGTAAAATTTCAAAT
* *
12028045 TCA-AGATGAATTATATTAGACTCGAAGAACATCAAAATCAGACTTAACTCACAATGGAGGAGT
63 TCACA-ACGAAATATATTAGACTCGAAGAACATCAAAATCAGACTTAACTCACAATGGAGGAGT
12028108 CACAAAAAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
156 6 0.06
157 27 0.25
158 8 0.07
159 66 0.62
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (156 bp):
GAGCTATTTCCATCCAACTTAACCCGCAGAAGGTTTACAATTTCTTGAGTAAAATTTCAAATTCA
CAACGAAATATATTAGACTCGAAGAACATCAAAATCAGACTTAACTCACAATGGAGGAGTTGTCT
GCAACATATCTTAAATCAATAACAAA
Found at i:12028121 original size:35 final size:35
Alignment explanation
Indices: 12028078--12028178 Score: 184
Period size: 35 Copynumber: 2.9 Consensus size: 35
12028068 GAAGAACATC
*
12028078 AAAATCAGACTTAACTCACAATGGAGGAGTCACAA
1 AAAATCAGACTTAACTCACAATAGAGGAGTCACAA
12028113 AAAATCAGACTTAACTCACAATAGAGGAGTCACAA
1 AAAATCAGACTTAACTCACAATAGAGGAGTCACAA
*
12028148 AAAATCAAACTTAACTCACAATAGAGGAGTC
1 AAAATCAGACTTAACTCACAATAGAGGAGTC
12028179 TATCTCAACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.18
Consensus pattern (35 bp):
AAAATCAGACTTAACTCACAATAGAGGAGTCACAA
Found at i:12028282 original size:35 final size:35
Alignment explanation
Indices: 12028236--12028315 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
12028226 TGAGCACAAC
*
12028236 TTGGCATCCTCTAGAGAGAATGGACAAGATCATTA
1 TTGGCATCCTCTAGAGAAAATGGACAAGATCATTA
* *
12028271 TTGGCATCCTCTAGAGAAAATGGATAATATCATTA
1 TTGGCATCCTCTAGAGAAAATGGACAAGATCATTA
*
12028306 TTGGCGTCCT
1 TTGGCATCCT
12028316 TAGTGGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (35 bp):
TTGGCATCCTCTAGAGAAAATGGACAAGATCATTA
Found at i:12028712 original size:24 final size:24
Alignment explanation
Indices: 12028674--12028723 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
12028664 AAGTTTAAAG
** * *
12028674 AAATTTTAAGGTTATTTTTAATTC
1 AAATTTTAAAATTATATTCAATTC
12028698 AAATTTTAAAATTATATTCAATTC
1 AAATTTTAAAATTATATTCAATTC
12028722 AA
1 AA
12028724 CGATTCGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTTTAAAATTATATTCAATTC
Found at i:12035695 original size:20 final size:21
Alignment explanation
Indices: 12035637--12035695 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
12035627 TATTTATATG
*
12035637 GTACCGATATTGTTCTCCATCA
1 GTACCGATATTGTTCTTCA-CA
* *
12035659 GTATCGATGTTGTTCTTCA-A
1 GTACCGATATTGTTCTTCACA
*
12035679 GTACCGATACTGTTCTT
1 GTACCGATATTGTTCTT
12035696 ATAGTATCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 15 0.48
22 16 0.52
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
GTACCGATATTGTTCTTCACA
Found at i:12035701 original size:20 final size:20
Alignment explanation
Indices: 12035637--12035701 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
12035627 TATTTATATG
*
12035637 GTACCGATATTGTTCTCCATCA
1 GTACCGATATTGTTCT-TAT-A
* *
12035659 GTATCGATGTTGTTCTTCA-A
1 GTACCGATATTGTTCTT-ATA
*
12035679 GTACCGATACTGTTCTTATA
1 GTACCGATATTGTTCTTATA
12035699 GTA
1 GTA
12035702 TCGTTAGGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 19 0.54
22 15 0.43
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (20 bp):
GTACCGATATTGTTCTTATA
Found at i:12043648 original size:5 final size:5
Alignment explanation
Indices: 12043638--12043667 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
12043628 TAAATAAATG
12043638 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
12043668 ATTCAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:12044461 original size:13 final size:13
Alignment explanation
Indices: 12044443--12044472 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12044433 AGTGGTCAAC
12044443 GGTCAACGGGTCG
1 GGTCAACGGGTCG
12044456 GGTCAACGGGTCG
1 GGTCAACGGGTCG
12044469 GGTC
1 GGTC
12044473 GGGTCGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:12044988 original size:13 final size:13
Alignment explanation
Indices: 12044970--12045030 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 13
12044960 TCGGTCAACT
12044970 GTCAACGGGTCGG
1 GTCAACGGGTCGG
12044983 GTCAACGAGGTTGGATCGG
1 GTCAAC---G--GG-TCGG
*
12045002 GTCAACGGGTTGG
1 GTCAACGGGTCGG
12045015 GTCAACGGGTCGG
1 GTCAACGGGTCGG
12045028 GTC
1 GTC
12045031 GGTCGGGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 24 0.60
14 2 0.05
16 2 0.05
18 2 0.05
19 10 0.25
ACGTcount: A:0.16, C:0.20, G:0.44, T:0.20
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:12045014 original size:18 final size:19
Alignment explanation
Indices: 12044979--12045014 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12044969 TGTCAACGGG
12044979 TCGGGTCAACGAGGTTGGA
1 TCGGGTCAACGAGGTTGGA
12044998 TCGGGTCAACG-GGTTGG
1 TCGGGTCAACGAGGTTGG
12045015 GTCAACGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.22
Consensus pattern (19 bp):
TCGGGTCAACGAGGTTGGA
Found at i:12048260 original size:3 final size:3
Alignment explanation
Indices: 12048244--12048370 Score: 53
Period size: 3 Copynumber: 40.3 Consensus size: 3
12048234 ATAGTCTTAT
* * * * *
12048244 TTA TTA TTTG TTA TTA TT- TTA CTA CTTA CTA TATA TTA CTA TTG TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA
** * *
12048291 TTTA TTA TTA TTA CAAA GTA TTTA TT- TTA TTA TCA -TA TATA TTA TTA
1 -TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
12048338 TATA TTA TTC TTA TATA TTA TTC TTA TTA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
12048371 CCGTTATATA
Statistics
Matches: 91, Mismatches: 21, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
2 5 0.05
3 64 0.70
4 22 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:12048314 original size:20 final size:20
Alignment explanation
Indices: 12048289--12048345 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
12048279 TTACTATTGT
12048289 TATTTATTATTATTA-CAAA
1 TATTTATTATTATTATCAAA
*
12048308 GTATTTATT-TTATTATCATA
1 -TATTTATTATTATTATCAAA
12048328 TATATTATTATATATTAT
1 TAT-TTATTAT-TATTAT
12048346 TCTTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 9 0.28
20 16 0.50
21 1 0.03
22 6 0.19
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTATTATTATTATCAAA
Found at i:12048351 original size:13 final size:13
Alignment explanation
Indices: 12048325--12048380 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
12048315 TTTTATTATC
*
12048325 ATATA-TATTATT
1 ATATATTATTCTT
12048337 ATATATTATTCTT
1 ATATATTATTCTT
12048350 ATATATTATTCTT
1 ATATATTATTCTT
*
12048363 AT-TATTATCCGTT
1 ATATATTATTC-TT
12048376 ATATA
1 ATATA
12048381 GTAGTATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
12 12 0.31
13 25 0.64
14 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATATTATTCTT
Found at i:12055636 original size:19 final size:19
Alignment explanation
Indices: 12055595--12055637 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12055585 GAATCGATTT
*
12055595 TGACCGGTTCGAACCGGTT
1 TGACCGGTTCGAACCGGTC
*
12055614 TGACCGG-TCTGACCCGGTC
1 TGACCGGTTC-GAACCGGTC
12055633 TGACC
1 TGACC
12055638 CGAACAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.23
Consensus pattern (19 bp):
TGACCGGTTCGAACCGGTC
Found at i:12055669 original size:17 final size:17
Alignment explanation
Indices: 12055647--12055685 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
12055637 CCGAACAACC
*
12055647 TGACCCGACCCGTCCGT
1 TGACCCGACCCGACCGT
12055664 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
12055681 TGACC
1 TGACC
12055686 GTTGACCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:12066689 original size:20 final size:20
Alignment explanation
Indices: 12066649--12066689 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12066639 AACAAGTTTA
*
12066649 AATTATTTTCATTTATTAAT
1 AATTATTTTCATTTATAAAT
* *
12066669 AATTATTTTTATTTGTAAAT
1 AATTATTTTCATTTATAAAT
12066689 A
1 A
12066690 TTACGATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTATTTTCATTTATAAAT
Found at i:12071389 original size:55 final size:55
Alignment explanation
Indices: 12071320--12071828 Score: 442
Period size: 55 Copynumber: 9.4 Consensus size: 55
12071310 TTCATTATTA
* * * * *
12071320 TTTCAAGGAGTATAGGACTCGAATAATCTTTAGAAAATGGGTCCGCTCCCTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCGAAAACGGGTCCACTCCTTCTTC
* * * * * * * *
12071375 TTTCAGGGAATATAGGATTTGAACAATC-TTCGACAAACGTGTACATTCCCTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCGA-AAACGGGTCCACTCCTTCTTC
* * * *
12071430 TTTCAGGGAGTATAGGAATCGAACAATC-TTCGAAAAACGAGTTCACTCCTTC-T-
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCG-AAAACGGGTCCACTCCTTCTTC
* * *
12071483 TTT-GAGGAGTATAGGACTCGAACAATC-TTCGAAAAATGTGT-CA-T--TT-TTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCG-AAAACGGGTCCACTCCTTCTTC
* * *
12071532 TTTCAAGGAGTATAAGACTCGAATAATC-TTCGAAAAACAGGTCCACTCCTTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCG-AAAACGGGTCCACTCCTTCTTC
* * *
12071587 TTTCAAGGAGTATAGGACTCGAA-AATC-TTCTAAAAACGTGTCCGCTCCTTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTC-GAAAACGGGTCCACTCCTTCTTC
* ** * * *
12071641 TTT-AAGGGAGTATAAGACTTAAACAATC-TTCGGAAAATGGGTCCGCTCTTTCTTC
1 TTTCAA-GGAGTATAGGACTCGAACAATCTTTC-GAAAACGGGTCCACTCCTTCTTC
* ** ** *
12071696 TTTCAAGGAGTATAGGACTTGAACAATC-TTCGAGAAACATGTATACTCCCTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCGA-AAACGGGTCCACTCCTTCTTC
* *
12071751 TTTCAGGGAGTATAGGACTCGAACAATCTTT-GAAAAACGGGTCCTCTCCTTCTTC
1 TTTCAAGGAGTATAGGACTCGAACAATCTTTCG-AAAACGGGTCCACTCCTTCTTC
*
12071806 TTTCAAGGAGTATATGACTCGAA
1 TTTCAAGGAGTATAGGACTCGAA
12071829 AAATGGGTAT
Statistics
Matches: 375, Mismatches: 62, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 33 0.09
51 4 0.01
52 34 0.09
53 5 0.01
54 52 0.14
55 235 0.63
56 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (55 bp):
TTTCAAGGAGTATAGGACTCGAACAATCTTTCGAAAACGGGTCCACTCCTTCTTC
Found at i:12071459 original size:110 final size:111
Alignment explanation
Indices: 12071320--12071828 Score: 560
Period size: 110 Copynumber: 4.7 Consensus size: 111
12071310 TTCATTATTA
* * * * * * *
12071320 TTTCAAGGAGTATAGGACTCGAATAATCTTTAG-AAAATGGGTCCGCTCCCTCTTCTTTCAGGGA
1 TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
* * * * *
12071384 ATATAGGATTTGAACAATCTTCGACAAACGTGTACATTCCCTCTTC
66 GTATAGGACTCGAACAATCTTCGAAAAACGTGTACACTCCCTCTTC
* * * *
12071430 TTTCAGGGAGTATAGGAATCGAACAATC-TTCGAAAAACGAGTTCACTCCTTC-T-TTT-GAGGA
1 TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
* *
12071491 GTATAGGACTCGAACAATCTTCGAAAAATGTGT-CA-T---TTTTC
66 GTATAGGACTCGAACAATCTTCGAAAAACGTGTACACTCCCTCTTC
* * * *
12071532 TTTCAAGGAGTATAAGACTCGAATAATC-TTCGAAAAACAGGTCCACTCCTTCTTCTTTCAAGGA
1 TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
* * * *
12071596 GTATAGGACTCGAA-AATCTTCTAAAAACGTGTCCGCTCCTTCTTC
66 GTATAGGACTCGAACAATCTTCGAAAAACGTGTACACTCCCTCTTC
* * ** * * * *
12071641 TTTAAGGGAGTATAAGACTTAAACAATC-TTCGGAAAATGGGTCCGCTCTTTCTTCTTTCAAGGA
1 TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
* * * *
12071705 GTATAGGACTTGAACAATCTTCGAGAAACATGTATACTCCCTCTTC
66 GTATAGGACTCGAACAATCTTCGAAAAACGTGTACACTCCCTCTTC
*
12071751 TTTCAGGGAGTATAGGACTCGAACAATCTTT-GAAAAACGGGTCCTCTCCTTCTTCTTTCAAGGA
1 TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
*
12071815 GTATATGACTCGAA
66 GTATAGGACTCGAA
12071829 AAATGGGTAT
Statistics
Matches: 331, Mismatches: 57, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
102 49 0.15
103 1 0.00
104 19 0.06
105 20 0.06
106 3 0.01
107 31 0.09
108 3 0.01
109 75 0.23
110 128 0.39
111 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (111 bp):
TTTCAGGGAGTATAGGACTCGAACAATCTTTCGAAAAACGGGTCCACTCCTTCTTCTTTCAAGGA
GTATAGGACTCGAACAATCTTCGAAAAACGTGTACACTCCCTCTTC
Found at i:12072029 original size:36 final size:37
Alignment explanation
Indices: 12071930--12072030 Score: 125
Period size: 36 Copynumber: 2.8 Consensus size: 37
12071920 GACTTGATCT
* *
12071930 TGATTTGCTTCACTACTTTTCCTTGAA-GACTCAAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGACTCAAGA
* * *
12071966 TGATTTGCTTTACTACTCTTCCGTGAAGGCCT-AAGA
1 TGATTTGCTTCACTACTCTTCCATGAAGGACTCAAGA
* *
12072002 TGATTTGCTTCATTACTCTTACATGAAGG
1 TGATTTGCTTCACTACTCTTCCATGAAGG
12072031 TATAAGTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 53 0.95
37 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (37 bp):
TGATTTGCTTCACTACTCTTCCATGAAGGACTCAAGA
Found at i:12076770 original size:8 final size:8
Alignment explanation
Indices: 12076757--12076800 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
12076747 AAGAGAGGAT
*
12076757 ATATATGC
1 ATATATAC
12076765 ATATATAC
1 ATATATAC
12076773 ATATATAC
1 ATATATAC
12076781 ATATATAC
1 ATATATAC
12076789 ATATATAC
1 ATATATAC
12076797 ATAT
1 ATAT
12076801 GGGAGAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:12085541 original size:28 final size:28
Alignment explanation
Indices: 12085467--12085541 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
12085457 TTCAAGGAAA
* *
12085467 CTAAAGTCCAAAGACCTAAATGTAAAAAT
1 CTAAAGT-CAAAGAGCTAAATCTAAAAAT
*
12085496 CTAAAGT-AGAAG-GTCTAAATCTATAAAT
1 CTAAAGTCA-AAGAG-CTAAATCTAAAAAT
*
12085524 CTAAAGTCTAAGAGCTAA
1 CTAAAGTCAAAGAGCTAA
12085542 CCAACAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
27 1 0.03
28 29 0.76
29 8 0.21
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (28 bp):
CTAAAGTCAAAGAGCTAAATCTAAAAAT
Found at i:12085916 original size:26 final size:25
Alignment explanation
Indices: 12085886--12085940 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
12085876 CTAGTCTTAC
12085886 AAATTCAAA-TAAGAAACAAATTAAAT
1 AAATT-AAATTAAGAAACAAA-TAAAT
*
12085912 AAATTAAATTTAAGAAATAAATAAAT
1 AAATTAAA-TTAAGAAACAAATAAAT
12085938 AAA
1 AAA
12085941 CAAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 13 0.50
27 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (25 bp):
AAATTAAATTAAGAAACAAATAAAT
Found at i:12085947 original size:27 final size:27
Alignment explanation
Indices: 12085895--12085947 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
12085885 CAAATTCAAA
**
12085895 TAAGAAACAAATTAAATAAATTAAATT
1 TAAGAAACAAATTAAATAAAAAAAATT
*
12085922 TAAGAAATAAA-TAAATAAACAAAAAT
1 TAAGAAACAAATTAAATAAA-AAAAAT
12085948 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAGAAACAAATTAAATAAAAAAAATT
Found at i:12087153 original size:31 final size:31
Alignment explanation
Indices: 12087118--12087185 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
12087108 GTCTCGGGTT
* **
12087118 TTGGGTTTGTAATTGGGATTGGTTTTAGGTG
1 TTGGGTTTGTAATTGAGATCAGTTTTAGGTG
*
12087149 TTGGGTTTGTAATTGAGATCAGTTTTGGGTG
1 TTGGGTTTGTAATTGAGATCAGTTTTAGGTG
12087180 TTGGGT
1 TTGGGT
12087186 ATTGAGTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.13, C:0.01, G:0.38, T:0.47
Consensus pattern (31 bp):
TTGGGTTTGTAATTGAGATCAGTTTTAGGTG
Found at i:12087233 original size:3 final size:3
Alignment explanation
Indices: 12087225--12087269 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
12087215 TATTTATTTG
*
12087225 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12087270 AAATTTGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12088446 original size:27 final size:27
Alignment explanation
Indices: 12088415--12088466 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
12088405 AATCGAAAAT
12088415 ATGATAAATTTGATACATCCTTCTACA
1 ATGATAAATTTGATACATCCTTCTACA
12088442 ATGATAAATTTGATACATCCTTCTA
1 ATGATAAATTTGATACATCCTTCTA
12088467 GAAGCTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (27 bp):
ATGATAAATTTGATACATCCTTCTACA
Found at i:12091415 original size:21 final size:21
Alignment explanation
Indices: 12091391--12091437 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12091381 AGAGGTTTCG
*
12091391 ATACTCTAGATAGGAGTATCA
1 ATACTCCAGATAGGAGTATCA
*
12091412 ATACACCAGATAGGAGTATCA
1 ATACTCCAGATAGGAGTATCA
12091433 ATACT
1 ATACT
12091438 AAGAGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (21 bp):
ATACTCCAGATAGGAGTATCA
Found at i:12093586 original size:2 final size:2
Alignment explanation
Indices: 12093573--12093779 Score: 94
Period size: 2 Copynumber: 109.0 Consensus size: 2
12093563 AATTAAATAA
*
12093573 AT AT ACT AT AT AT A- AT AT GCT AT AT GAT AT -T A- AT AT AT A-
1 AT AT A-T AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT AT AT AT
* * *
12093612 AT AT AA AT A- AT AT AT AT A- AT AT -T GA- AT AT GAT AT AA AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT
* * * *
12093652 AT A- AT AT AA AT ACT AT AT -T GT AT A- AT AT AT AT GT AT ACT GT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
12093693 CAT AT A- AT AT AC AT AT -T AT AT AT -T AT AC A- AT AT -T AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
12093731 AT -T AT AC A- AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12093770 AGT AT -T AT AT
1 A-T AT AT AT AT
12093780 TTTATAATAT
Statistics
Matches: 157, Mismatches: 19, Indels: 58
0.67 0.08 0.25
Matches are distributed among these distances:
1 20 0.13
2 124 0.79
3 13 0.08
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:12093590 original size:7 final size:7
Alignment explanation
Indices: 12093580--12093790 Score: 69
Period size: 7 Copynumber: 28.7 Consensus size: 7
12093570 TAAATATACT
12093580 ATATATA
1 ATATATA
*
12093587 ATATGCTA
1 ATAT-ATA
12093595 TATGATATTA
1 -AT-ATA-TA
12093605 ATATATA
1 ATATATA
12093612 ATATA-A
1 ATATATA
12093618 ATA-AT-
1 ATATATA
12093623 ATATATA
1 ATATATA
*
12093630 ATAT-TG
1 ATATATA
*
12093636 A-ATATG
1 ATATATA
12093642 ATATA-A
1 ATATATA
*
12093648 ATACATA
1 ATATATA
12093655 ATATA-A
1 ATATATA
12093661 ATACTATA
1 ATA-TATA
* *
12093669 TTGTATA
1 ATATATA
12093676 ATATAT-
1 ATATATA
*
12093682 ATGTATA
1 ATATATA
*
12093689 CTGTCATATA
1 --AT-ATATA
12093699 ATATACATA
1 ATAT--ATA
*
12093708 TTATATA
1 ATATATA
* *
12093715 TTATACA
1 ATATATA
12093722 ATATTATA
1 ATA-TATA
*
12093730 TATTATACA
1 -A-TATATA
12093739 ATATTATA
1 ATA-TATA
12093747 TATATATA
1 -ATATATA
12093755 TATATATA
1 -ATATATA
12093763 TATATATA
1 -ATATATA
*
12093771 GTATTATA
1 ATA-TATA
* *
12093779 TTTTATA
1 ATATATA
12093786 ATATA
1 ATATA
12093791 CAACGATGAA
Statistics
Matches: 155, Mismatches: 25, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
5 6 0.04
6 24 0.15
7 57 0.37
8 40 0.26
9 18 0.12
10 10 0.06
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (7 bp):
ATATATA
Found at i:12093641 original size:43 final size:43
Alignment explanation
Indices: 12093569--12093669 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
12093559 TTGTAATTAA
* * *
12093569 ATAAATATACTATATATAATATGCTATATGATATTAATATATAAT
1 ATAAATA-A-TATATATAATATGCAATATGATATAAATACATAAT
12093614 ATAAATAATATATATAATATTG-AATATGATATAAATACATAAT
1 ATAAATAATATATATAATA-TGCAATATGATATAAATACATAAT
*
12093657 ATAAATACTATAT
1 ATAAATAATATAT
12093670 TGTATAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 41 0.80
44 3 0.06
45 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (43 bp):
ATAAATAATATATATAATATGCAATATGATATAAATACATAAT
Found at i:12095067 original size:20 final size:20
Alignment explanation
Indices: 12095000--12095067 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
12094990 CATTGTTCAA
**
12095000 ATAGTACCGATACAGTTCTT
1 ATAGTACCGATATTGTTCTT
* * *
12095020 CATCAGTATCGATGTTGTTCGTC
1 -AT-AGTACCGATATTGTTC-TT
12095043 A-AGTACCGATATTGTTCTT
1 ATAGTACCGATATTGTTCTT
12095062 ATAGTA
1 ATAGTA
12095068 TCACTAGGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
19 2 0.06
20 18 0.50
21 2 0.06
22 13 0.36
23 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (20 bp):
ATAGTACCGATATTGTTCTT
Found at i:12095233 original size:22 final size:22
Alignment explanation
Indices: 12095123--12095235 Score: 208
Period size: 22 Copynumber: 5.1 Consensus size: 22
12095113 ATACGAGTAC
12095123 TACTCATTTAATTGAGTACCGA
1 TACTCATTTAATTGAGTACCGA
*
12095145 AACTCATTTAATTGAGTACCGA
1 TACTCATTTAATTGAGTACCGA
*
12095167 AACTCATTTAATTGAGTACCGA
1 TACTCATTTAATTGAGTACCGA
12095189 TACTCATTTAATTGAGTACCGA
1 TACTCATTTAATTGAGTACCGA
12095211 TACTCATTTAATTGAGTACCGA
1 TACTCATTTAATTGAGTACCGA
12095233 TAC
1 TAC
12095236 ACAGGGTCTG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 89 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.35
Consensus pattern (22 bp):
TACTCATTTAATTGAGTACCGA
Found at i:12099306 original size:21 final size:20
Alignment explanation
Indices: 12099278--12099317 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12099268 CACTACAGGA
*
12099278 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
12099298 ATTTCATGGCTTCAACAAAA
1 ATTT-ATGGCCTCAACAAAA
12099318 ACATTAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:12111133 original size:148 final size:147
Alignment explanation
Indices: 12110918--12111226 Score: 519
Period size: 148 Copynumber: 2.1 Consensus size: 147
12110908 TTACGATTAC
12110918 TTATTATTACTACTTATTATATTAGAATTATCTTATATATTATTATTACTCTTATTAGTAGTTAT
1 TTATTATTACTACTTATTATATTAGAATTATCTTATATATTATTATTACTCTTATTAGTAGTTAT
* * *
12110983 TATACGATTTTAGTATATATATTATATAGTCTTATTTATTACTTATTATTATTTACTACTTACTA
66 TATACGATATTAGTATATATATTATATAGTCTGATTTATTAATTATTATTATTTACTACTTACTA
12111048 TATATTACTATTGTTAT
131 TATATTACTATTGTTAT
* *
12111065 TTATTATTACTACTTATTATATTAGAATTATCTTTATATCTTATTATTACTCTTATTGGTAGTTA
1 TTATTATTACTACTTATTATATTAGAATTATC-TTATATATTATTATTACTCTTATTAGTAGTTA
*
12111130 TTATATGATATTAGTATATATATTATATAGTCTGATTTATTAATTATTATTATTTACTACTTACT
65 TTATACGATATTAGTATATATATTATATAGTCTGATTTATTAATTATTATTATTTACTACTTACT
** *
12111195 ATATATTTTTATTTTTAT
130 ATATATTACTATTGTTAT
*
12111213 TTATTATTATTACT
1 TTATTATTACTACT
12111227 AAGTATTTAT
Statistics
Matches: 151, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
147 32 0.21
148 119 0.79
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (147 bp):
TTATTATTACTACTTATTATATTAGAATTATCTTATATATTATTATTACTCTTATTAGTAGTTAT
TATACGATATTAGTATATATATTATATAGTCTGATTTATTAATTATTATTATTTACTACTTACTA
TATATTACTATTGTTAT
Found at i:12111274 original size:13 final size:13
Alignment explanation
Indices: 12111256--12111285 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12111246 ATATACAATA
12111256 TTATATATTATTC
1 TTATATATTATTC
12111269 TTATATATTATTC
1 TTATATATTATTC
12111282 TTAT
1 TTAT
12111286 TTGCCGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATATTATTC
Found at i:12111948 original size:36 final size:37
Alignment explanation
Indices: 12111852--12112139 Score: 275
Period size: 36 Copynumber: 7.8 Consensus size: 37
12111842 AATTCAAACG
* * ***
12111852 TTTT-AAATCATATAATATATAATTTTAAAAATCGGT
1 TTTTGAAAACATATAATATATAGTTTTAAAAATATAT
* *
12111888 TTTTGAAAATATATAATAT-T-GTTTTGAAAATATAT
1 TTTTGAAAACATATAATATATAGTTTTAAAAATATAT
* * *
12111923 TTTAG-AAACATATATTATATAGTTTTAAAAACA-AT
1 TTTTGAAAACATATAATATATAGTTTTAAAAATATAT
* * *
12111958 TTTTGAAAACGTATAATATATAGTTTTAAAAACA-AA
1 TTTTGAAAACATATAATATATAGTTTTAAAAATATAT
* * * * *
12111994 TTTTGAAAACATATAGTATATAATTTCAGAAACAAATTT
1 TTTTGAAAACATATAATATATAGTTTTA-AAA-ATATAT
12112033 TTTTGAAAACATATATATTATATAGTTTTTTAAAAA-ATAT
1 TTTTGAAAACATATA-A-TATATAG--TTTTAAAAATATAT
12112073 TTTTGAAAACATATAATATATAGTTTTTAAAAAATATAT
1 TTTTGAAAACATATAATATATAG-TTTT-AAAAATATAT
* *
12112112 TTGTGAAAACACATAATATATAGTTTTA
1 TTTTGAAAACATATAATATATAGTTTTA
12112140 TTTTTTTAAA
Statistics
Matches: 210, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
34 11 0.05
35 21 0.10
36 66 0.31
37 21 0.10
38 18 0.09
39 41 0.20
40 18 0.09
41 7 0.03
42 3 0.01
43 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (37 bp):
TTTTGAAAACATATAATATATAGTTTTAAAAATATAT
Found at i:12112223 original size:23 final size:21
Alignment explanation
Indices: 12112189--12112231 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12112179 AACTTTTGAA
12112189 ATCGTATAATATATTTTTTTT
1 ATCGTATAATATATTTTTTTT
*
12112210 ATCGTATAATATATATTTTTT
1 ATCGTATAATATATTTTTTTT
12112231 A
1 A
12112232 GAAAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
ATCGTATAATATATTTTTTTT
Found at i:12113148 original size:92 final size:92
Alignment explanation
Indices: 12112991--12113250 Score: 493
Period size: 92 Copynumber: 2.8 Consensus size: 92
12112981 TTCTTAGCGA
12112991 TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
1 TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
12113056 TTATGAATTTCCTTCCAACATGGAAAT
66 TTATGAATTTCCTTCCAACATGGAAAT
*
12113083 TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATATGGAAATTCATAAACTTA
1 TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
12113148 TTATGAATTTCCTTCCAACATGGAAAT
66 TTATGAATTTCCTTCCAACATGGAAAT
* *
12113175 TCATAAACTTATTATGAATTTCTTAGGTTGTACACACAGTGCCAATACGGAAATTCATAAACATA
1 TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
12113240 TTATGAATTTC
66 TTATGAATTTC
12113251 TTAGGTTGCA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 164 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (92 bp):
TCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
TTATGAATTTCCTTCCAACATGGAAAT
Found at i:12113180 original size:38 final size:38
Alignment explanation
Indices: 12113124--12113196 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
12113114 ACACACAGTG
*
12113124 CCAATATGGAAATTCATAAACTTATTATGAATTTCCTT
1 CCAACATGGAAATTCATAAACTTATTATGAATTTCCTT
12113162 CCAACATGGAAATTCATAAACTTATTATGAATTTC
1 CCAACATGGAAATTCATAAACTTATTATGAATTTC
12113197 TTAGGTTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
CCAACATGGAAATTCATAAACTTATTATGAATTTCCTT
Found at i:12113251 original size:54 final size:54
Alignment explanation
Indices: 12113169--12113283 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
12113159 CTTCCAACAT
* *
12113169 GGAAATTCATAAACTTATTATGAATTTCTTAGGTTGTACACACAGTGCCAATAC
1 GGAAATTCATAAACATATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
12113223 GGAAATTCATAAACATATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
1 GGAAATTCATAAACATATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
*
12113277 AGAAATT
1 GGAAATT
12113284 ACAATACATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
GGAAATTCATAAACATATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
Found at i:12113782 original size:94 final size:94
Alignment explanation
Indices: 12113617--12113790 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 94
12113607 ACCATGGTAT
* * * *
12113617 CGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCTGGAT
1 CGATACTTCTATACTATGGTACCGATACTCCATTTCAATATCGATACCATTTCTACATTATGAAT
*
12113682 CCATGGTATCGATACTTTTCTCCTAGTAC
66 CAATGGTATCGATACTTTTCTCCTAGTAC
** * *
12113711 CGATACTTCTATGTTATGGTACCGATACTCCATTAT-AATATCGATACCA-TTCTGCGTTATGTA
1 CGATACTTCTATACTATGGTACCGATACTCCATT-TCAATATCGATACCATTTCTACATTATG-A
*
12113774 ATCAATGGTATTGATAC
64 ATCAATGGTATCGATAC
12113791 CTTCTTCACA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 9 0.13
94 58 0.85
95 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (94 bp):
CGATACTTCTATACTATGGTACCGATACTCCATTTCAATATCGATACCATTTCTACATTATGAAT
CAATGGTATCGATACTTTTCTCCTAGTAC
Found at i:12113809 original size:94 final size:94
Alignment explanation
Indices: 12113613--12113810 Score: 224
Period size: 94 Copynumber: 2.1 Consensus size: 94
12113603 CCCTACCATG
* * *
12113613 GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATACTATGGTACCGATACTCCATTTCAATATCGATACCATTTCTACATTAT
* * *
12113678 GGATCCATGGTATCGATACTTTTCTCCTA
66 GAATCAATGGTATCGATACTTTTCTACTA
* ** * *
12113707 GTACCGATACTTCTATGTTATGGTACCGATACTCCATTAT-AATATCGATACCA-TTCTGCGTTA
1 GTATCGATACTTCTATACTATGGTACCGATACTCCATT-TCAATATCGATACCATTTCTACATTA
*
12113770 TGTAATCAATGGTATTGATACCTTCTTC-AC-A
65 TG-AATCAATGGTATCGATA-CTT-TTCTACTA
12113801 GTATCGATAC
1 GTATCGATAC
12113811 CTACATCAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
93 9 0.10
94 70 0.80
95 5 0.06
96 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (94 bp):
GTATCGATACTTCTATACTATGGTACCGATACTCCATTTCAATATCGATACCATTTCTACATTAT
GAATCAATGGTATCGATACTTTTCTACTA
Found at i:12113840 original size:21 final size:21
Alignment explanation
Indices: 12113814--12113869 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
12113804 TCGATACCTA
12113814 CATCAGTATCGATACTAATTG
1 CATCAGTATCGATACTAATTG
*
12113835 CATCAGTATTGATACTAATTG
1 CATCAGTATCGATACTAATTG
12113856 CATCAGTATCGATA
1 CATCAGTATCGATA
12113870 TTGTTCATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATCAGTATCGATACTAATTG
Found at i:12117959 original size:20 final size:20
Alignment explanation
Indices: 12117934--12117980 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
12117924 CTAAAAAATT
*
12117934 GTTCTAAAGTAATTCCTCTA
1 GTTCTAAAGGAATTCCTCTA
*
12117954 GTTCTAAAGGAATTCTTCTA
1 GTTCTAAAGGAATTCCTCTA
12117974 GTTCTAA
1 GTTCTAA
12117981 CCAACTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
GTTCTAAAGGAATTCCTCTA
Found at i:12120086 original size:53 final size:54
Alignment explanation
Indices: 12119946--12120189 Score: 314
Period size: 54 Copynumber: 4.5 Consensus size: 54
12119936 ACTCTATAGT
* * * * * * *
12119946 TTGCACATACAGTGCCAATATGGTAATTCACAAACTTACTAT-AGA-TTACGTGGG
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGA-ATTTA-TTAGG
* * *
12120000 TTGCACACCCAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
* * * * *
12120054 TTGCACACACAGT-ACAATACAGAAATTCATAAAATTATTATAAATTTTTTAGG
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
12120107 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
12120161 TTGCACACACAGTGCCAATACGGAAATTC
1 TTGCACACACAGTGCCAATACGGAAATTC
12120190 CAATACACAC
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
53 47 0.28
54 115 0.70
55 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (54 bp):
TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
Found at i:12120662 original size:94 final size:95
Alignment explanation
Indices: 12120521--12120715 Score: 232
Period size: 94 Copynumber: 2.1 Consensus size: 95
12120511 ACCATAATAT
* *** * *
12120521 CGATACTTCTATACTGTGGTATTGATACTCCCTTTCAGTATCCATACCATTTATACATTCTGG-A
1 CGATACTTCTATACTATGGTACCAATACTCCATTACAGTATCCATACCATTTATACATTCTGGAA
* * * *
12120585 T-ACATGGTATCGATACTTTTCTCTTAGTAC
66 TCA-ACGGTATCGATACCTTCCTCATAGTAC
* * * *
12120615 CGATACTTCTATACTATGGTACCAATACTTCATTACAGTATCGATACCATTTCTGCATTCTGGAA
1 CGATACTTCTATACTATGGTACCAATACTCCATTACAGTATCCATACCATTTATACATTCTGGAA
*
12120680 TCAACGGTATCGATACCTTCCTCATAGTAT
66 TCAACGGTATCGATACCTTCCTCATAGTAC
12120710 CGATAC
1 CGATAC
12120716 CCACATCAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
94 53 0.63
95 30 0.36
96 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (95 bp):
CGATACTTCTATACTATGGTACCAATACTCCATTACAGTATCCATACCATTTATACATTCTGGAA
TCAACGGTATCGATACCTTCCTCATAGTAC
Found at i:12127030 original size:20 final size:21
Alignment explanation
Indices: 12127005--12127053 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
12126995 ATTCAAAGGG
12127005 TGCACATGAATT-TTAATGAA
1 TGCACATGAATTGTTAATGAA
**
12127025 TGCACATGCCTTGTTAATGAA
1 TGCACATGAATTGTTAATGAA
12127046 -GCACATGA
1 TGCACATGA
12127054 CAACAAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (21 bp):
TGCACATGAATTGTTAATGAA
Done.