Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 41 of 163
Found at i:10565752 original size:69 final size:69
Alignment explanation
Indices: 10565544--10566065 Score: 840
Period size: 69 Copynumber: 7.6 Consensus size: 69
10565534 TGCAGGTCAC
* *
10565544 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT-ATCTCTGAAATTGAAGT
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGT-TTTCATCTCTGAAATTGAAGT
10565608 AAGAG
65 AAGAG
* *
10565613 CAACATCATTCC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGT
1 CAACGTCA-TCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGT
10565676 AAGAG
65 AAGAG
* * *
10565681 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCCTT-ATCTCTGAAATTGAAGT
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGT-TTTCATCTCTGAAATTGAAGT
10565745 AAGAG
65 AAGAG
*
10565750 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTT-ATCTCTGAAATTGAAGT
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGT-TTTCATCTCTGAAATTGAAGT
10565814 AAGAG
65 AAGAG
* *
10565819 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
*
10565884 AGGG
66 AGAG
10565888 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
*
10565953 AGGG
66 AGAG
10565957 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
10566022 AGAG
66 AGAG
* *
10566026 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGACAACAC
1 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAC
10566066 ATCCCCTTGA
Statistics
Matches: 429, Mismatches: 18, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
67 5 0.01
68 68 0.16
69 350 0.82
70 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (69 bp):
CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATTGAAGTA
AGAG
Found at i:10565806 original size:38 final size:37
Alignment explanation
Indices: 10565549--10566255 Score: 340
Period size: 31 Copynumber: 20.5 Consensus size: 37
10565539 GTCACCAACG
*
10565549 TCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCT
1 TCAT-CTC-TGAAATTGAAGTAGAGTTGGATA-CACGTCT
* * *
10565589 TTATCTCTGAAATTGAAGTA-AG-AGCA-ACA--TCAT
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTC-T
*
10565622 TC-CCT-TGAAATTGAAGTAGAG-TGGATAACACGTCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
* * *
10565657 TCATCTCTGAAATTGAAGTA-AG--AG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
* *
10565689 TCCTCT-TGAAATTGAAGTAGAGTTGGATATCAAGTCCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGATA-CACGT-CT
* * *
10565727 T-ATCTCTGAAATTGAAGTA-AG--AG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
*
10565758 TCCTCT-TGAAATTGAAGTAGAGTTGGATATCACGTCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGATA-CACGTCT
* * * *
10565795 TTATCTCTGAAATTGAAGTA-AG--AG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
**
10565827 TCCCCT-TGAAATTGAAGTAGAGTTGGATAACACGTCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
* *
10565864 TCATCTCTGAAATTGAAGTA-AG--GG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
* *
10565896 TCCTCT-TGAAATTGAAGTAGAGTTGGATAACACGTTT
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
* *
10565933 TCATCTCTGAAATTGAAGTA-AG--GG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
* *
10565965 TCCTCT-TGAAATTGAAGTAGAGTTGGATAACACGTTT
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
* * *
10566002 TCATCTCTGAAATTGAAGTA-AG--AG-CA-ACGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
** * *
10566034 TCCCCT-TGAAATTGAAGTAGAG-TGGACAACACATC-
1 TCATCTCTGAAATTGAAGTAGAGTTGGA-TACACGTCT
*
10566069 -C-CCT-TGAAATTGAAGTAGAG-TGGATAACACGT-T
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
* * *
10566102 CTCATCTCTGAAATTGAAGTA-AG--AG-CA-ACGTCA
1 -TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
* * *
10566135 GCCTCT-TGAAATTGAAGTAGAG-TGGATATCAAGTCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGATA-CACGTCT
* * * * * * *
10566171 TCGTCTTTAAAATTGAAGTA-AG--AG-CA-ATGTCA
1 TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
* *
10566203 TCCTCT-TGAAATTGAAGTAGAG-TGGATAACACATCT
1 TCATCTCTGAAATTGAAGTAGAGTTGGAT-ACACGTCT
*
10566239 TTATCTCTGAAATTGAA
1 TCATCTCTGAAATTGAA
10566256 TTAAGAGCAA
Statistics
Matches: 508, Mismatches: 90, Indels: 141
0.69 0.12 0.19
Matches are distributed among these distances:
31 118 0.23
32 92 0.18
33 38 0.07
34 17 0.03
35 19 0.04
36 36 0.07
37 102 0.20
38 80 0.16
39 3 0.01
40 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (37 bp):
TCATCTCTGAAATTGAAGTAGAGTTGGATACACGTCT
Found at i:10566151 original size:68 final size:69
Alignment explanation
Indices: 10566065--10566323 Score: 337
Period size: 68 Copynumber: 3.8 Consensus size: 69
10566055 GTGGACAACA
* *
10566065 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTTC-TCATCTCTGAAATTGAAGTAAGAGCA
1 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTCTTCATCTCTAAAATTGAAGTAAGAGCA
*
10566129 ACGT
66 ATGT
* * * * *
10566133 CAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAG-TCTTCGTCTTTAAAATTGAAGTAAGAGCA
1 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTCTTCATCTCTAAAATTGAAGTAAGAGCA
10566197 ATGT
66 ATGT
* * * *
10566201 CATCCTCTTGAAATTGAAGTAGAGTGGATAACAC-ATCTTTATCTCTGAAATTGAATTAAGAGCA
1 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTCTTCATCTCTAAAATTGAAGTAAGAGCA
10566265 ATGT
66 ATGT
* * * * *
10566269 CATCCCCTTGAAATGGAAGAAGAGTGGATAACACGCT-TTCATCTCCAAAATTGAA
1 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTCTTCATCTCTAAAATTGAA
10566324 AACAAAACCA
Statistics
Matches: 165, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
67 2 0.01
68 162 0.98
69 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (69 bp):
CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTCTTCATCTCTAAAATTGAAGTAAGAGCA
ATGT
Found at i:10566186 original size:207 final size:203
Alignment explanation
Indices: 10565548--10566190 Score: 729
Period size: 207 Copynumber: 3.1 Consensus size: 203
10565538 GGTCACCAAC
*
10565548 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAG
1 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAG
* *
10565613 CAACATCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
66 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-TCATCTCTGAAATTGAAGTAA
* * * ****
10565678 GAG-CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCCTTATCTCTGAAATTGA
130 GGGACAACGTCATCCTCTTGAAATTGAAGTAGAG--AGA-A-CACGTCAGCCTCTCTGAAATTGA
*
10565742 AGTAA--GAGCAA
191 AGTAAGGGAACAA
10565753 CGTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGA
1 -GTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGA
10565818 GCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGT
65 GCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTC-TCATCTCTGAAATTGAAGT
* *** *
10565883 AAGGG-CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTTTTCATCTCTGAAATT
128 AAGGGACAACGTCATCCTCTTGAAATTGAAGTAGA----GAGAACACGTCAGCCTCTCTGAAATT
10565947 GAAGTAAGGG--CAA
189 GAAGTAAGGGAACAA
*
10565960 CGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGT-TTTCATCTCTGAAATTGAAGTAAG
1 -GTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTT-ATCTCTGAAATTGAAGTAAG
* * *
10566024 AGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGACAACACATC-C-CCT-TGAAATTGAAGTA
64 AGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTCATCTCTGAAATTGAAGTA
* * *
10566086 GAGTGGATAACACGTTC-TCATCTCTGAAATTGAAGTA-AGAGCA-ACGTCAGCCTCT-TGAAAT
129 -AG-GGA-CA-ACG-TCATCCTCT-TGAAATTGAAGTAGAGAGAACACGTCAGCCTCTCTGAAAT
10566147 TGAAGTAGAGTGGATATCAA
188 TGAAGTA-AG-GGA-A-CAA
* * *
10566167 GTCTTCGTCTTTAAAATTGAAGTA
1 GTCATCCTC-TTGAAATTGAAGTA
10566191 AGAGCAATGT
Statistics
Matches: 390, Mismatches: 25, Indels: 43
0.85 0.05 0.09
Matches are distributed among these distances:
201 13 0.03
202 23 0.06
203 9 0.02
204 3 0.01
206 114 0.29
207 209 0.54
208 16 0.04
209 2 0.01
211 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (203 bp):
GTCATCCTCTTGAAATTGAAGTAGAGTTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAG
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTCATCTCTGAAATTGAAGTAAG
GGACAACGTCATCCTCTTGAAATTGAAGTAGAGAGAACACGTCAGCCTCTCTGAAATTGAAGTAA
GGGAACAA
Found at i:10566623 original size:11 final size:11
Alignment explanation
Indices: 10566589--10566664 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
10566579 AACCATTTGA
*
10566589 AAATTAAATTT
1 AAATTTAATTT
*
10566600 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10566611 AAATTTACTTT
1 AAATTTAATTT
*
10566622 AAATTCAATTT
1 AAATTTAATTT
10566633 AAATTTAAATTT
1 AAATTT-AATTT
*
10566645 GAATTTAATTT
1 AAATTTAATTT
10566656 AAATTTAAT
1 AAATTTAAT
10566665 GTTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 6 0.11
11 31 0.58
12 16 0.30
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10566661 original size:17 final size:16
Alignment explanation
Indices: 10566589--10566680 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
10566579 AACCATTTGA
*
10566589 AAATTAAATTT-ATTT
1 AAATTTAATTTAATTT
* *
10566604 TAATCTTAAATTTACTTT
1 AAAT-TT-AATTTAATTT
*
10566622 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
10566639 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
10566656 AAATTTAATGTT-ATTAT
1 AAATTTAAT-TTAATT-T
10566673 AAATTTAA
1 AAATTTAA
10566681 AAAGAAAGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 12 0.19
17 37 0.59
18 11 0.17
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:10566681 original size:6 final size:6
Alignment explanation
Indices: 10566592--10566663 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
10566582 CATTTGAAAA
* * *
10566592 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10566637 TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
10566664 TGTTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 32 0.59
7 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:10567405 original size:17 final size:17
Alignment explanation
Indices: 10567385--10567417 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10567375 TGTTCCTAAT
*
10567385 ATATTAATATTAATAAC
1 ATATTAATAATAATAAC
10567402 ATATTAATAATAATAA
1 ATATTAATAATAATAA
10567418 TAACATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTAATAATAATAAC
Found at i:10567456 original size:29 final size:30
Alignment explanation
Indices: 10567390--10567457 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
10567380 CTAATATATT
* *
10567390 AATATTAATAACATATTAATAATAATAATA
1 AATATTATTAACATATTAATAATAACAATA
*
10567420 ACAT-TTATTAACATCATT-A-AATGACAATA
1 A-ATATTATTAACAT-ATTAATAATAACAATA
10567449 AATATTATT
1 AATATTATT
10567458 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.06
29 14 0.44
30 11 0.34
31 5 0.16
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (30 bp):
AATATTATTAACATATTAATAATAACAATA
Found at i:10567800 original size:20 final size:20
Alignment explanation
Indices: 10567775--10567814 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10567765 GATTGGCGAC
* *
10567775 CGGAGACGGTCGAGCAGGAT
1 CGGAGACAGACGAGCAGGAT
*
10567795 CGGAGATAGACGAGCAGGAT
1 CGGAGACAGACGAGCAGGAT
10567815 GGGGGAGGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.42, T:0.10
Consensus pattern (20 bp):
CGGAGACAGACGAGCAGGAT
Found at i:10568520 original size:30 final size:30
Alignment explanation
Indices: 10568417--10568792 Score: 544
Period size: 30 Copynumber: 12.6 Consensus size: 30
10568407 AACAATCTAG
*
10568417 AAATTATATTTTGACCCCAAAAACTTTTCCA
1 AAATTACATTTTGACCCC-AAAACTTTTCCA
*
10568448 AAATTACATTTTGA-CCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568477 AAATTA-TTTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10568506 AAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568536 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
10568566 AAATTATACTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568596 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568626 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568656 AAATTACATTTTGACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
10568686 AAATTATATTTTAACCCCAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10568716 AAATTACATTTTGACCCCGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
10568746 AAATTACATTTTGACACCAAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10568775 AAATTACCATTTT-ACCCC
1 AAATTA-CATTTTGACCCC
10568793 CCGAATCTTC
Statistics
Matches: 313, Mismatches: 29, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
28 6 0.02
29 53 0.17
30 241 0.77
31 13 0.04
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:10568865 original size:29 final size:28
Alignment explanation
Indices: 10568595--10568874 Score: 90
Period size: 30 Copynumber: 9.5 Consensus size: 28
10568585 AAACTTTTCC
* *
10568595 AAAATTA-CATTTTAACCCCAAAACTTTT
1 AAAATTACCATTTT-ACCCCGAATCTTTT
* * *
10568623 CCAAAATTA-TATTTTGACCCCAAAACTTTT
1 --AAAATTACCATTTT-ACCCCGAATCTTTT
* * *
10568653 CCAAAATTA-CATTTTGACCCCAAAACTTTACC
1 --AAAATTACCATTTT-ACCCCGAATCTTT--T
* * *
10568685 AAAATTA-TATTTTAACCCCAAAACTTTTCT
1 AAAATTACCATTTT-ACCCCGAATC-TTT-T
*
10568715 AAAATTA-CATTTTGACCCCGAAACTTTT
1 AAAATTACCATTTT-ACCCCGAATCTTTT
* * * *
10568743 CCAAAATTA-CATTTTGACACCAAAACTTTCA
1 --AAAATTACCATTTT-ACCCCGAATCTTT-T
*
10568774 AAAATTACCATTTTACCCCCCGAATCTTCT
1 AAAATTACCATTTTA--CCCCGAATCTTTT
* * * ****
10568804 AAAATT-CCGTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTT-ACCCCGA-ATCTTTT
10568833 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTA-CCCCGAATCTTTT
10568862 AAAATT-CCATTTT
1 AAAATTACCATTTT
10568875 TTAACCTCGA
Statistics
Matches: 206, Mismatches: 31, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
28 13 0.06
29 35 0.17
30 147 0.71
31 11 0.05
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAATCTTTT
Found at i:10568896 original size:59 final size:58
Alignment explanation
Indices: 10568774--10568913 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 58
10568764 AAAACTTTCA
*
10568774 AAAATTACCATTTTACCCCCCGAATCTTCTAAAATTCCGTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTTA-CCCCCGAATCTTCTAAAATTCCGTTTTAACCTCGATTACACCG
* *
10568833 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTTAACCTCGATTACACC-
1 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCC--GTTTTAACCTCGATTACACCG
*
10568892 AAAATTACCATTTTGCCCCCGA
1 AAAATTACCATTTTACCCCCGA
10568914 GTATCCATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
58 21 0.28
59 36 0.48
60 18 0.24
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCGTTTTAACCTCGATTACACCG
Found at i:10570791 original size:22 final size:22
Alignment explanation
Indices: 10570766--10570807 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10570756 TCAATGTCCT
10570766 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10570788 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10570808 ACGGCACTGT
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10573352 original size:13 final size:15
Alignment explanation
Indices: 10573334--10573365 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10573324 TAATTGCACA
10573334 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10573347 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10573362 TATT
1 TATT
10573366 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10578011 original size:22 final size:23
Alignment explanation
Indices: 10577968--10578011 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10577958 ATTTAAACAT
* *
10577968 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATATATTTATC
10577991 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10578012 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10579150 original size:22 final size:22
Alignment explanation
Indices: 10579125--10579166 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10579115 TCAATGTCCT
10579125 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10579147 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10579167 ACGGCACTGT
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10581711 original size:13 final size:15
Alignment explanation
Indices: 10581693--10581724 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10581683 TAATTGCACA
10581693 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10581706 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10581721 TATT
1 TATT
10581725 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10586370 original size:22 final size:23
Alignment explanation
Indices: 10586327--10586370 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10586317 ATTTAAACAT
* *
10586327 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATATATTTATC
10586350 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10586371 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10587509 original size:22 final size:22
Alignment explanation
Indices: 10587484--10587525 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10587474 TCAATGTCCT
10587484 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10587506 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10587526 ACGGCACTGT
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10590071 original size:13 final size:15
Alignment explanation
Indices: 10590053--10590084 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10590043 TAATTGCACA
10590053 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10590066 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10590081 TATT
1 TATT
10590085 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10594730 original size:22 final size:23
Alignment explanation
Indices: 10594687--10594730 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10594677 ATTTAAACAT
* *
10594687 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATATATTTATC
10594710 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10594731 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10595864 original size:22 final size:22
Alignment explanation
Indices: 10595839--10595880 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10595829 TCAATGTCCT
10595839 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10595861 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10595881 ACGGCACTGT
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10601546 original size:29 final size:29
Alignment explanation
Indices: 10601505--10601635 Score: 81
Period size: 29 Copynumber: 4.5 Consensus size: 29
10601495 TCGGGGTTAA
10601505 AAAATGG-AATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTAAAAGATTCGGGGGT
**** * * *
10601533 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTAAAAG-ATTCGGGGGT
* * *
10601563 AAAACGG-AATTTTAGAAGATTTGGGGGGT
1 AAAATGGTAATTTTAAAAGA-TTCGGGGGT
* **
10601592 AAAATGGTAATTTTTGAAAG-TTTTGGGGT
1 AAAATGGTAA-TTTTAAAAGATTCGGGGGT
10601621 CAAAAT-GTAATTTTA
1 -AAAATGGTAATTTTA
10601636 GAAAAGTTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
28 12 0.16
29 37 0.49
30 20 0.26
31 7 0.09
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTAAAAGATTCGGGGGT
Found at i:10601604 original size:30 final size:29
Alignment explanation
Indices: 10601570--10601997 Score: 247
Period size: 30 Copynumber: 14.3 Consensus size: 29
10601560 GTTAAAACGG
10601570 AATTTTAGAAGATTTGGGGGGT-AAAATGGT
1 AATTTTAGAAGATTT-GGGGGTCAAAAT-GT
* *
10601600 AATTTTTGAA-AGTTTTGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * *
10601629 AATTTTAGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
*
10601659 AATTTTGGAGAA-ATTTTGGGGTCAAAATGT
1 AATTTT--AGAAGATTTGGGGGTCAAAATGT
* * *
10601689 AATTTTGGAAAAGTTTCGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10601719 AATTTTAGAAAAGTTTTGAGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10601749 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * *
10601779 AATTTTGGAAAAGTTTTGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10601809 AATTTTGGAAAAGCTTT-GGGGTCAAAGTAT
1 AATTTT--AGAAGATTTGGGGGTCAAAATGT
* * * * *
10601839 AATTTTGGAAAAGTTTTGGGGTTAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10601869 AATTTTGGAAAAGTTT-TGGGTCAAAATTT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * *
10601898 AATTTT-GAAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAG-AAGA-TTTGGGGGTCAAAATGT
* * **
10601928 AATTTTGGAAAAGTTTTAGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10601958 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
10601988 AATTTCTAGA
1 AATTT-TAGA
10601998 TTGTTTGGGG
Statistics
Matches: 347, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
28 6 0.02
29 45 0.13
30 282 0.81
31 8 0.02
32 6 0.02
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
AATTTTAGAAGATTTGGGGGTCAAAATGT
Found at i:10601606 original size:59 final size:59
Alignment explanation
Indices: 10601467--10601607 Score: 196
Period size: 59 Copynumber: 2.4 Consensus size: 59
10601457 TATGGATACC
* * * *
10601467 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAAACGGAATTTTAAAAGATT
*
10601526 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAACGGAATTTTAGAAGATTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGA-TT
*
10601585 GGGGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
10601608 AAAGTTTTGG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 17 0.23
59 40 0.54
60 17 0.23
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGATT
Found at i:10601685 original size:60 final size:60
Alignment explanation
Indices: 10601599--10601992 Score: 614
Period size: 60 Copynumber: 6.6 Consensus size: 60
10601589 GGTAAAATGG
* * *
10601599 TAATTTTTG-AAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10601658 TAATTTTGGAGAAA-TTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATG
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
10601718 TAATTTTAGAAAAGTTTTGAGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10601778 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGCTTTGGGGTCAAAGTA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
10601838 TAATTTTGGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTT-GGGTCAAAATT
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10601897 TAATTTTGAAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
10601957 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTT
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTT
10601993 CTAGATTGTT
Statistics
Matches: 308, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
59 66 0.21
60 239 0.78
61 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (60 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:10601716 original size:90 final size:90
Alignment explanation
Indices: 10601587--10601997 Score: 643
Period size: 90 Copynumber: 4.6 Consensus size: 90
10601577 GAAGATTTGG
*
10601587 GGGGT-AAAATGGTAATTTTTG-AAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGG
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGG
10601650 TCAAAATATAATTTTGGAGAAA-TTTT
65 TCAAAATATAATTTTGGA-AAAGTTTT
* *
10601676 GGGGTCAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATGTAATTTTAGAAAAGTTTTGAGGT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
10601741 CAAAATATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * *
10601766 GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGCTTTGGGGT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
*
10601831 CAAAGTATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * *
10601856 GGGGTTAAAATATAATTTTGGAAAAGTTTT-GGGTCAAAATTTAATTTT-GAAAAAGTTTTGGGG
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAG-AAAAGTTTTGGGG
10601919 TCAAAATATAATTTTGGAAAAGTTTT
65 TCAAAATATAATTTTGGAAAAGTTTT
* *
10601945 AGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTCTAGA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTT-TAGA
10601998 TTGTTTGGGG
Statistics
Matches: 298, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
88 1 0.00
89 98 0.33
90 196 0.66
91 2 0.01
92 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (90 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
CAAAATATAATTTTGGAAAAGTTTT
Found at i:10602983 original size:29 final size:30
Alignment explanation
Indices: 10602950--10603017 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
10602940 TTTTTTATTG
10602950 AATAATATTTATTATCA-T-TTAATGATGTT
1 AATAATATTTATTATCATTATTAAT-ATGTT
*
10602979 AATAA-ATGTTATTATTATTATTAATATGTT
1 AATAATAT-TTATTATCATTATTAATATGTT
*
10603009 ATTAATATT
1 AATAATATT
10603018 AATATATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 13 0.39
30 11 0.33
31 7 0.21
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
AATAATATTTATTATCATTATTAATATGTT
Found at i:10603012 original size:17 final size:17
Alignment explanation
Indices: 10602990--10603022 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10602980 ATAAATGTTA
*
10602990 TTATTATTATTAATATG
1 TTATTAATATTAATATG
10603007 TTATTAATATTAATAT
1 TTATTAATATTAATAT
10603023 ATTAGGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATTAATATTAATATG
Found at i:10603660 original size:17 final size:16
Alignment explanation
Indices: 10603640--10603731 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 16
10603630 GACTTTCTTT
10603640 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
10603657 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
10603673 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
10603691 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
** *
10603707 TTTAAGGTTAAAATAAA
1 -TTAAATTTAAATTAAA
*
10603724 TTTAATTT
1 TTAAATTT
10603732 TCAAATGATT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.23
17 41 0.66
18 7 0.11
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:10603666 original size:6 final size:6
Alignment explanation
Indices: 10603657--10603711 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
10603647 TATAATAACA
* *
10603657 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10603702 GTAAAT TTAA
1 TTAAAT TTAA
10603712 GGTTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:10603728 original size:11 final size:11
Alignment explanation
Indices: 10603656--10603711 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
10603646 TTATAATAAC
10603656 ATTAAATTTAA
1 ATTAAATTTAA
*
10603667 ATTAAATTCAA
1 ATTAAATTTAA
10603678 ATTTAAATTTAA
1 A-TTAAATTTAA
*
10603690 ATTGAATTTAA
1 ATTAAATTTAA
*
10603701 AGTAAATTTAA
1 ATTAAATTTAA
10603712 GGTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10604224 original size:22 final size:23
Alignment explanation
Indices: 10604199--10604261 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
10604189 TTGGATTTAA
* *
10604199 ATAAAT-ATTTTAAAATAATTAG
1 ATAAATAAATTTAAAAAAATTAG
10604221 ATAAATAAATTTAAAAAAATTA-
1 ATAAATAAATTTAAAAAAATTAG
***
10604243 ATGTTTAAATTTAAAAAAA
1 ATAAATAAATTTAAAAAAA
10604262 AAACTTATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
ATAAATAAATTTAAAAAAATTAG
Found at i:10608876 original size:13 final size:15
Alignment explanation
Indices: 10608845--10608876 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10608835 ATTTATAAAT
10608845 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10608860 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10608873 AATA
1 AATA
10608877 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10611452 original size:22 final size:22
Alignment explanation
Indices: 10611404--10611445 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10611394 ACAGTGCCGT
*
10611404 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10611426 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10611446 AGGACATTGA
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:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10612584 original size:22 final size:23
Alignment explanation
Indices: 10612559--10612602 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10612549 TTGGATTTAA
* *
10612559 ATAAATA-TTTTAAAATAATTAG
1 ATAAATAGATTTAAAAAAATTAG
10612581 ATAAATAGATTTAAAAAAATTA
1 ATAAATAGATTTAAAAAAATTA
10612603 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAAATAGATTTAAAAAAATTAG
Found at i:10617188 original size:11 final size:11
Alignment explanation
Indices: 10617154--10617230 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
10617144 AACCATTTGA
*
10617154 AAATTAAATTT
1 AAATTTAATTT
*
10617165 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10617176 AAATTTATTTT
1 AAATTTAATTT
*
10617187 AAATTCAATTT
1 AAATTTAATTT
10617198 AAATTTAAATTT
1 AAATTT-AATTT
*
10617210 GAATTTAATTT
1 AAATTTAATTT
10617221 AAAATTTAAT
1 -AAATTTAAT
10617231 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10617204 original size:6 final size:6
Alignment explanation
Indices: 10617157--10617229 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
10617147 CATTTGAAAA
* * *
10617157 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10617202 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
10617230 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:10617204 original size:17 final size:17
Alignment explanation
Indices: 10617177--10617244 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
10617167 TTTAATCTTA
*
10617177 AATTTATTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
10617193 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
10617211 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
10617228 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10617245 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:10617375 original size:14 final size:13
Alignment explanation
Indices: 10617335--10617376 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
10617325 TTTCGGTCCA
10617335 AATTACAAAGGCCC
1 AATTAC-AAGGCCC
10617349 AATTA-AAGGCCC
1 AATTACAAGGCCC
10617361 AATTACAATGGCCC
1 AATTACAA-GGCCC
10617375 AA
1 AA
10617377 ATAGGCCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
13 2 0.08
14 12 0.46
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (13 bp):
AATTACAAGGCCC
Found at i:10617454 original size:15 final size:15
Alignment explanation
Indices: 10617434--10617464 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10617424 CGTGCCTCTG
10617434 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10617449 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10617464 C
1 C
10617465 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:10618313 original size:22 final size:22
Alignment explanation
Indices: 10618288--10618330 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10618278 AAAAAGGAAC
*
10618288 ACAAAAAATGAA-GAATAAAAGA
1 ACAAAAAAGGAAGGAA-AAAAGA
10618310 ACAAAAAAGGAAGGAAAAAAG
1 ACAAAAAAGGAAGGAAAAAAG
10618331 GGGAAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAAAAAAGGAAGGAAAAAAGA
Found at i:10619063 original size:30 final size:30
Alignment explanation
Indices: 10619022--10619236 Score: 376
Period size: 30 Copynumber: 7.1 Consensus size: 30
10619012 CCCTAAATTG
* *
10619022 TCCAGAAATTACATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
10619053 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10619083 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10619113 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
10619143 TCCAAAATTACATTTTGACCCCAAGACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
10619173 TCCAAAACTACATTTTGACTCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10619203 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10619233 TCCA
1 TCCA
10619237 CATTTTCCAA
Statistics
Matches: 176, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 172 0.98
31 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:10619305 original size:29 final size:28
Alignment explanation
Indices: 10619273--10619550 Score: 129
Period size: 29 Copynumber: 9.5 Consensus size: 28
10619263 AAAACTTTCA
*
10619273 AAAATTACCATTTTACCCCTGAATCTTTT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
* ** *
10619302 AAAATTCCATTTTTAACCCC-GATTTCACCA
1 AAAATTCCA-TTTT-ACCCCTGA-ATCTTCT
*
10619332 AAAATTACCATTTTACCCCTGAAGCTTCT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
** * ** *
10619361 AAAATTCTGTTTTTAACCCC-GATTTCACCA
1 AAAATTC-CATTTT-ACCCCTGA-ATCTTCT
** *
10619391 AAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
* *
10619420 AAAATTCCATTTTTAACCCT-AAT-TTCACCA
1 AAAATTCCA-TTTTACCCCTGAATCTT---CT
* *
10619450 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
*
10619479 AAAATTCCATTTTTAACCCC-G-AT-TTCACA
1 AAAATTCCA-TTTT-ACCCCTGAATCTT--CT
* * *
10619508 AAAATTACTATTTTACCCTTGAATCTTTT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
10619537 AAAATTCCATTTTA
1 AAAATTCCATTTTA
10619551 AACCCCGATT
Statistics
Matches: 184, Mismatches: 40, Indels: 51
0.67 0.15 0.19
Matches are distributed among these distances:
27 4 0.02
28 25 0.14
29 82 0.45
30 60 0.33
31 11 0.06
32 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTGAATCTTCT
Found at i:10619540 original size:58 final size:59
Alignment explanation
Indices: 10619271--10619584 Score: 470
Period size: 59 Copynumber: 5.4 Consensus size: 59
10619261 CCAAAACTTT
10619271 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* * **
10619330 CAAAAATTACCATTTTACCCCTGAAGCTTCTAAAATTCTGTTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
** **
10619389 CAAAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCCTAATTTCAC
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* * *
10619448 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA-
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
10619506 CAAAAATTACTATTTTACCCTTGAATCTTTTAAAATTCCATTTTAAACCCCGATTACAC
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
*
10619565 C-AAAATTACCATTTTGCCCC
1 CAAAAATTACCATTTTACCCC
10619585 CGGATATCCA
Statistics
Matches: 227, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
58 67 0.30
59 160 0.70
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:10631598 original size:31 final size:31
Alignment explanation
Indices: 10631558--10631946 Score: 188
Period size: 31 Copynumber: 11.5 Consensus size: 31
10631548 TCTTCATCTC
10631558 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
* * **
10631589 TGAACTTGAAGTAGAGTGGAACGTCAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---G-A-G-C-A-ACGTCATCCCCT
10631629 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * **
10631661 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
*
10631697 ATGAAATTGAAGTAAGAACAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * **
10631729 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
*
10631765 CTGAAATTGAAGTAAGAGCAACGCCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * ***
10631797 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
*
10631833 CTGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** *
10631865 TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-
1 TGAAATTGAAGTA-A---GAGCA-ACG---TCATCCCCT
* *
10631902 TAAAATTGAAGTAAGAGCAACGTCATCCTCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
10631933 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
10631947 AGTTGGATAG
Statistics
Matches: 269, Mismatches: 51, Indels: 76
0.68 0.13 0.19
Matches are distributed among these distances:
29 4 0.01
30 3 0.01
31 77 0.29
32 41 0.15
33 13 0.05
34 1 0.00
35 14 0.05
36 33 0.12
37 53 0.20
38 3 0.01
39 5 0.02
40 10 0.04
41 12 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:10631723 original size:68 final size:68
Alignment explanation
Indices: 10631507--10631955 Score: 738
Period size: 68 Copynumber: 6.5 Consensus size: 68
10631497 TGCAGGTCAC
* *
10631507 CAACGTCATCCCCTTGAAATTGGAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
10631572 GAG
66 GAG
*
10631575 CAACGTCATCCCCTTGAACTTGAAGTAGAGTGGAACGTCAACACGTCTTCATCTCTGAAATTGAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGG-A--T-AACACGTCTTCATCTCTGAAATTGAA
10631640 GTAAGAG
62 GTAAGAG
*
10631647 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTATGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
10631712 GAA
66 GAG
10631715 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
10631780 GAG
66 GAG
* *
10631783 CAACGCCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
10631848 GAG
66 GAG
* *
10631851 CAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG-CTTTCATCTCTAAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-TTCATCTCTGAAATTGAAGTA
10631915 AGAG
65 AGAG
* *
10631919 CAACGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
10631956 GCAAAGTCTT
Statistics
Matches: 358, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
67 1 0.00
68 282 0.79
69 8 0.02
71 2 0.01
72 65 0.18
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:10632279 original size:11 final size:11
Alignment explanation
Indices: 10632245--10632321 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
10632235 AACCATTTGA
*
10632245 AAATTAAATTT
1 AAATTTAATTT
*
10632256 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10632267 AAATTTATTTT
1 AAATTTAATTT
*
10632278 AAATTCAATTT
1 AAATTTAATTT
10632289 AAATTTAAATTT
1 AAATTT-AATTT
*
10632301 GAATTTAATTT
1 AAATTTAATTT
10632312 AAAATTTAAT
1 -AAATTTAAT
10632322 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10632295 original size:6 final size:6
Alignment explanation
Indices: 10632248--10632320 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
10632238 CATTTGAAAA
* * *
10632248 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10632293 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
10632321 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:10632295 original size:17 final size:17
Alignment explanation
Indices: 10632268--10632335 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
10632258 TTTAATCTTA
*
10632268 AATTTATTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
10632284 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
10632302 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
10632319 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10632336 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:10632466 original size:14 final size:13
Alignment explanation
Indices: 10632426--10632467 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
10632416 TTTCGGTCCA
10632426 AATTACAAAGGCCC
1 AATTAC-AAGGCCC
10632440 AATTA-AAGGCCC
1 AATTACAAGGCCC
10632452 AATTACAATGGCCC
1 AATTACAA-GGCCC
10632466 AA
1 AA
10632468 ATAGGCCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
13 2 0.08
14 12 0.46
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (13 bp):
AATTACAAGGCCC
Found at i:10632545 original size:15 final size:15
Alignment explanation
Indices: 10632525--10632555 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10632515 CGTGCCTCTG
10632525 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10632540 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10632555 C
1 C
10632556 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:10633403 original size:22 final size:22
Alignment explanation
Indices: 10633378--10633420 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10633368 AAAAAGGAAC
*
10633378 ACAAAAAATGAA-GAATAAAAGA
1 ACAAAAAAGGAAGGAA-AAAAGA
10633400 ACAAAAAAGGAAGGAAAAAAG
1 ACAAAAAAGGAAGGAAAAAAG
10633421 GGGAAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAAAAAAGGAAGGAAAAAAGA
Found at i:10634150 original size:30 final size:30
Alignment explanation
Indices: 10634115--10634493 Score: 571
Period size: 30 Copynumber: 12.6 Consensus size: 30
10634105 AAATTGTCCA
* *
10634115 AAAATTACATTTTAACCCCAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10634145 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10634175 AAAATTACATTTTAACCCCAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10634205 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10634235 AAAATTACATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
10634265 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10634295 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10634325 AAAATTACATTTTGACTCCAAGACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10634355 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
**
10634385 AAAATTACATTTTGACCCTGAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10634415 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * *
10634445 AAAATTGCATTTTGACCCTAAAAGTTTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
10634475 AAAATTACCATTTT-ACCCC
1 AAAATTA-CATTTTGACCCC
10634494 TGAATCTTTT
Statistics
Matches: 320, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 314 0.98
31 6 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:10634536 original size:59 final size:59
Alignment explanation
Indices: 10634473--10634665 Score: 307
Period size: 59 Copynumber: 3.3 Consensus size: 59
10634463 TAAAAGTTTT
* * *
10634473 CAAAAATTACCATTTTACCCCTGAATCTTTTGAAATTCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* *
10634532 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
*
10634591 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAATCCCCGATTACAC
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAA-CCCCGATTTCAC
*
10634650 CGAAAATTACCATTTT
1 CAAAAATTACCATTTT
10634666 GCCCTCGGAT
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
58 6 0.05
59 118 0.95
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:10634546 original size:90 final size:88
Alignment explanation
Indices: 10634113--10634551 Score: 458
Period size: 90 Copynumber: 4.9 Consensus size: 88
10634103 CTAAATTGTC
* ** * *
10634113 CAAAAATTACATTTTAACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAA
1 CAAAAATTACATTTTGACCCTGAAAC-TTTTCAAAATTACATTTTAACCC-AAAACTTTACCAAA
* *
10634178 ATTACATTTTAACCCCAAAACTTTTT
64 ATTACATTTTGACCCTAAAAC-TTTT
* * * *
10634204 C-AAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAA
1 CAAAAATTACATTTTGACCCTGAAACTTTT-CAAAATTACATTTT-AACCCAAAACTTTACCAAA
*
10634268 ATTACATTTTGACCCCAAAACTTTT
64 ATTACATTTTGACCCTAAAACTTTT
* * ** * * *
10634293 CCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACTCCAAGACTTTTCCAAA
1 CAAAAATTACATTTTGACCCTGAAACTTTT-CAAAATTACATTTTAAC-CCAAAACTTTACCAAA
10634358 ATTACATTTTGACCCTAAAACTTTT
64 ATTACATTTTGACCCTAAAACTTTT
* *
10634383 CCAAAATTACATTTTGACCCTGAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAA
1 CAAAAATTACATTTTGACCCTGAAACTTTT-CAAAATTACATTTTAACCC-AAAACTTTACCAAA
* *
10634448 ATTGCATTTTGACCCTAAAAGTTTT
64 ATTACATTTTGACCCTAAAACTTTT
* * * *
10634473 CAAAAATTACCATTTT-ACCCCTGAATCTTTT-GAAATTCCATTTTTAACCC-CAA-TTTCACCA
1 CAAAAATTA-CATTTTGA-CCCTGAAACTTTTCAAAATTACA-TTTTAACCCAAAACTTT-ACC-
10634534 AAAATTACCATTTT-ACCC
61 AAAATTA-CATTTTGACCC
10634552 CCGAAGCTTC
Statistics
Matches: 310, Mismatches: 27, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
87 3 0.01
88 4 0.01
89 29 0.09
90 252 0.81
91 22 0.07
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (88 bp):
CAAAAATTACATTTTGACCCTGAAACTTTTCAAAATTACATTTTAACCCAAAACTTTACCAAAAT
TACATTTTGACCCTAAAACTTTT
Found at i:10634566 original size:29 final size:28
Alignment explanation
Indices: 10634475--10634635 Score: 119
Period size: 29 Copynumber: 5.5 Consensus size: 28
10634465 AAAGTTTTCA
* *
10634475 AAAATTACCATTTTACCCCTGAATCTTTT
1 AAAATT-CCATTTTACCCCCGAATCTTCT
* * *
10634504 GAAATTCCATTTTTAACCCC-AAT-TTCACCA
1 AAAATTCCA-TTTTACCCCCGAATCTT---CT
*
10634534 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATT-CCATTTTACCCCCGAATCTTCT
* * ** *
10634563 AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTCCA-TTTTACCCCCGA-ATCTTCT
*
10634593 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTACCCCCGAATCTTCT
10634622 AAAATTCCATTTTA
1 AAAATTCCATTTTA
10634636 ATCCCCGATT
Statistics
Matches: 101, Mismatches: 21, Indels: 21
0.71 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 17 0.17
29 39 0.39
30 33 0.33
31 8 0.08
32 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGAATCTTCT
Found at i:10634607 original size:30 final size:29
Alignment explanation
Indices: 10634505--10634665 Score: 119
Period size: 30 Copynumber: 5.4 Consensus size: 29
10634495 GAATCTTTTG
*
10634505 AAATTCCATTTTTAACCCCAATTTCACCAA
1 AAATTCCA-TTTTAACCCCGATTTCACCAA
* ** ** *
10634535 AAATTACCATTTTACCCCCGA-AGCTTCTA
1 AAATT-CCATTTTAACCCCGATTTCACCAA
10634564 AAATTCCATTTTTAACCCCGATTTCACCAA
1 AAATTCCA-TTTTAACCCCGATTTCACCAA
* * ****
10634594 AAATTACCATTTTACCCCCGA-ATCTTTTA
1 AAATT-CCATTTTAACCCCGATTTCACCAA
* *
10634623 AAATTCCATTTTAATCCCCGATTACACCGA
1 AAATTCCATTTTAA-CCCCGATTTCACCAA
10634653 AAATTACCATTTT
1 AAATT-CCATTTT
10634666 GCCCTCGGAT
Statistics
Matches: 98, Mismatches: 26, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
28 11 0.11
29 33 0.34
30 41 0.42
31 13 0.13
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATTCCATTTTAACCCCGATTTCACCAA
Found at i:10634643 original size:29 final size:28
Alignment explanation
Indices: 10634475--10634635 Score: 107
Period size: 30 Copynumber: 5.5 Consensus size: 28
10634465 AAAGTTTTCA
*
10634475 AAAATTACCATTTTACCCCTGAATCTTTT
1 AAAATTACCATTTTACCCC-GAATCTTCT
* *
10634504 GAAATT-CCATTTTTAACCCC-AAT-TTCACCA
1 AAAATTACCA-TTTT-ACCCCGAATCTT---CT
*
10634534 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTA-CCCCGAATCTTCT
* ** *
10634563 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTT-ACCCCGA-ATCTTCT
*
10634593 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTA-CCCCGAATCTTCT
10634622 AAAATT-CCATTTTA
1 AAAATTACCATTTTA
10634636 ATCCCCGATT
Statistics
Matches: 102, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
27 2 0.02
28 17 0.17
29 36 0.35
30 37 0.36
31 8 0.08
32 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAATCTTCT
Found at i:10634691 original size:118 final size:118
Alignment explanation
Indices: 10634473--10634709 Score: 300
Period size: 118 Copynumber: 2.0 Consensus size: 118
10634463 TAAAAGTTTT
* * *
10634473 CAAAAATTACCATTTTACCCCTGAATCTTTTGAAATTCCATTTTTAACCCCAATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCAATTACACCAAAAA
* * *
10634538 TTACCATTTTACCCCCGAAGCTTCTAAAATTCCA-TTTTTAACCCCGATTTCAC
66 TTACCATTTTACCCCCG-AGATTCCAAAATCCCATTTTTTAACCCCGATTTCAC
* *
10634591 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAATCCCCGATTACACCGAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAA-CCCCAATTACACCAAAA
* * * *
10634655 ATTACCATTTTGCCCTCG-GATATCCATAAGTCCCATTTTTTTCACCCCGATTTCA
65 ATTACCATTTTACCCCCGAGAT-TCCA-AAATCCCA-TTTTTTAACCCCGATTTCA
10634710 TCATTTATCA
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
116 2 0.02
117 9 0.09
118 74 0.73
120 17 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCAATTACACCAAAAA
TTACCATTTTACCCCCGAGATTCCAAAATCCCATTTTTTAACCCCGATTTCAC
Found at i:10638516 original size:22 final size:22
Alignment explanation
Indices: 10638468--10638509 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10638458 ACAGTGCCGT
*
10638468 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10638490 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10638510 AGGACATTGA
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:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10639648 original size:22 final size:23
Alignment explanation
Indices: 10639623--10639666 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10639613 TTGGATTTAA
* *
10639623 ATAAATA-TTTTAAAATAATTAG
1 ATAAATAGATTTAAAAAAATTAG
10639645 ATAAATAGATTTAAAAAAATTA
1 ATAAATAGATTTAAAAAAATTA
10639667 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAAATAGATTTAAAAAAATTAG
Found at i:10644300 original size:13 final size:15
Alignment explanation
Indices: 10644269--10644300 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10644259 ATTTATAAAT
10644269 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10644284 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10644297 AATA
1 AATA
10644301 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10646877 original size:22 final size:22
Alignment explanation
Indices: 10646829--10646870 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10646819 ACAGTGCCGT
*
10646829 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10646851 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10646871 AGGACATTGA
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:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10648008 original size:22 final size:23
Alignment explanation
Indices: 10647983--10648026 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10647973 TTGGATTTAA
* *
10647983 ATAAATA-TTTTAAAATAATTAG
1 ATAAATAGATTTAAAAAAATTAG
10648005 ATAAATAGATTTAAAAAAATTA
1 ATAAATAGATTTAAAAAAATTA
10648027 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAAATAGATTTAAAAAAATTAG
Found at i:10652661 original size:13 final size:15
Alignment explanation
Indices: 10652630--10652661 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10652620 ATTTATAAAT
10652630 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10652645 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10652658 AATA
1 AATA
10652662 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10654775 original size:57 final size:59
Alignment explanation
Indices: 10654684--10655023 Score: 422
Period size: 57 Copynumber: 5.9 Consensus size: 59
10654674 GGAAAATTTA
* * * * *
10654684 GGGTTAAAAATGGGATTTTGGAAGGTTTAAGGGTAAAACGGTAATTTTTGGTGAAA-CA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * * * * * * *
10654742 GAGTTACAAATGGGA-TTTGGAAAGCTCAGGGGTATAATTGTGATTTTTAGTGAAATC-
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
10654799 GGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAATTGTAATTTTTGGTGAAACCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * *
10654857 AGGTTAAAAATAGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
** *
10654916 GGGTTAAAAATCAAATTTTGGAAAGTTT-GGGGGAAAATGGTAA-TTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
**
10654973 GGGACAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
10655024 AAGTTTTAGG
Statistics
Matches: 241, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
57 106 0.44
58 77 0.32
59 58 0.24
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:10654911 original size:116 final size:117
Alignment explanation
Indices: 10654684--10655023 Score: 436
Period size: 116 Copynumber: 2.9 Consensus size: 117
10654674 GGAAAATTTA
* * * * *
10654684 GGGTTAAAAATGGGATTTTGGAAGGTTTAAGGGTAAAACGGTAATTTTTGGTGAAACAGA-GTTA
1 GGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTA
* * * * * * * *
10654748 CAAATGGGA-TTTGGAAAGCTCAGGGGTATAATTGTGATTTTTAGTGAAATC-
65 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
*
10654799 GGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATTGTAATTTTTGGTGAAACCGAGGTTAA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAA
* *
10654864 AAATAGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTGAAATCG
66 AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
** * * * **
10654916 GGGTTAAAAATCAAATTTTGGAAAGTTTGGGGGAAAATGGTAA-TTTTGGTGAAATCGGGGACAA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAA
10654980 AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
66 AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
10655024 AAGTTTTAGG
Statistics
Matches: 196, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
114 27 0.14
115 36 0.18
116 94 0.48
117 39 0.20
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (117 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAA
AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:10666022 original size:30 final size:29
Alignment explanation
Indices: 10665980--10666061 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
10665970 TTTTTAACTC
10665980 TCGAGGGGTAAAAATGTAATTTTGGGAAAAT
1 TCGA-GGGTAAAAATGTAATTTT-GGAAAAT
* ** **
10666011 TCGAGGTTAAAAATGGGATTTTGGAAGGT
1 TCGAGGGTAAAAATGTAATTTTGGAAAAT
10666040 TCGAGGGT-AAAATGGTAATTTT
1 TCGAGGGTAAAAAT-GTAATTTT
10666062 TGGTGAAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.12
29 18 0.43
30 15 0.36
31 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (29 bp):
TCGAGGGTAAAAATGTAATTTTGGAAAAT
Found at i:10666063 original size:30 final size:30
Alignment explanation
Indices: 10665960--10666299 Score: 95
Period size: 30 Copynumber: 11.6 Consensus size: 30
10665950 GCCTAGGGGC
*
10665960 AAAATGGTAATTTTT--AACTCTCGAGGGGTA
1 AAAATGGTAATTTTTGGAAAT-TCGA-GGGTA
* *
10665990 AAAAT-GTAATTTTGGGAAAATTCGAGGTTA
1 AAAATGGTAATTTTTGG-AAATTCGAGGGTA
* *
10666020 AAAATGG-GA-TTTTGGAAGGTTCGAGGGT-
1 AAAATGGTAATTTTTGGAA-ATTCGAGGGTA
* *
10666048 AAAATGGTAATTTTTGGTGAAA-TGGA-GTTA
1 AAAATGGTAATTTTT-G-GAAATTCGAGGGTA
* * *
10666078 AAAA-GG-GA--TTTGGAAAGCTCGGGGGT-
1 AAAATGGTAATTTTTGGAAA-TTCGAGGGTA
* * * *
10666104 ATAACGGTGATTTTTAGTGAAA-CCG-GGGTTA
1 AAAATGGTAATTTTT-G-GAAATTCGAGGG-TA
* *
10666135 AAAATGG-AA-TTTTGGAAAGTTTGGGGGT-
1 AAAATGGTAATTTTTGGAAA-TTCGAGGGTA
* ** *
10666163 AAAATGATAATTTTTGGTGAAAACCGAGGTTA
1 AAAATGGTAATTTTT-G-GAAATTCGAGGGTA
* *
10666195 AAAATGG-AA-TTTTGGAAAGTTTGGGGGT-
1 AAAATGGTAATTTTTGGAAA-TTCGAGGGTA
* *
10666223 AAAATGGTAATTTTGGTGAAA-TC-AAGGTCA
1 AAAATGGTAATTTTTG-GAAATTCGAGGGT-A
*
10666253 AAAATTG-AA-TTTTGGAAAGTTC-AGGGGT-
1 AAAATGGTAATTTTTGGAAA-TTCGA-GGGTA
*
10666281 AAAACGGTAATTTTTGGAA
1 AAAATGGTAATTTTTGGAA
10666300 GTTTTAGGGA
Statistics
Matches: 227, Mismatches: 43, Indels: 80
0.65 0.12 0.23
Matches are distributed among these distances:
24 4 0.02
25 1 0.00
26 8 0.04
27 12 0.05
28 42 0.19
29 52 0.23
30 65 0.29
31 23 0.10
32 20 0.09
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAATTCGAGGGTA
Found at i:10666235 original size:29 final size:28
Alignment explanation
Indices: 10666135--10666238 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
10666125 ACCGGGGTTA
10666135 AAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGAATTTTGGAAAGTTTGGGGGT
* *** * *
10666163 AAAATGATAATTTTTGGTGAAA-ACCGAGGTT
1 AAAATG-GAA-TTTT-G-GAAAGTTTGGGGGT
10666194 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAAGTTTGGGGGT
10666223 AAAATGGTAATTTTGG
1 AAAATGG-AATTTTGG
10666239 TGAAATCAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
28 17 0.30
29 15 0.26
30 8 0.14
31 7 0.12
32 10 0.18
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTGGGGGT
Found at i:10666284 original size:29 final size:29
Alignment explanation
Indices: 10666128--10666284 Score: 85
Period size: 29 Copynumber: 5.3 Consensus size: 29
10666118 TAGTGAAACC
**
10666128 GGGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGG-TAAAAATGGAATTTTGGAAAGTTCA
* * *
10666158 GGGGT-AAAATGATAATTTTTGGTGAAA--ACC
1 GGGGTAAAAATG-GAA-TTTT-G-GAAAGTTCA
* **
10666188 GAGGTTAAAAATGGAATTTTGGAAAGTTTG
1 G-GGGTAAAAATGGAATTTTGGAAAGTTCA
10666218 GGGGT-AAAATGGTAATTTTGGTGAAA--TCA
1 GGGGTAAAAATGG-AATTTT-G-GAAAGTTCA
* *
10666247 -AGGTCAAAAATTGAATTTTGGAAAGTTCA
1 GGGGT-AAAAATGGAATTTTGGAAAGTTCA
10666276 GGGGTAAAA
1 GGGGTAAAA
10666285 CGGTAATTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
27 4 0.04
28 21 0.22
29 27 0.28
30 24 0.25
31 10 0.10
32 10 0.10
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTCA
Found at i:10666284 original size:58 final size:58
Alignment explanation
Indices: 10665984--10666294 Score: 335
Period size: 58 Copynumber: 5.3 Consensus size: 58
10665974 TAACTCTCGA
* *
10665984 GGGGTAAAAAT-GTAATTTTGG-GAAAATTCGAGGTTAAAAATGGGATTTTGGAAGGTTCG
1 GGGGT-AAAATGGTAATTTTGGTG-AAA-TCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * * *
10666043 AGGGTAAAATGGTAATTTTTGGTGAAATGGA-GTTAAAAA-GGGA-TTTGGAAAGCTCG
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * * * * * *
10666099 GGGGTATAACGGTGATTTTTAGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGT-AATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * *
10666158 GGGGTAAAATGATAATTTTTGGTGAAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAA-TTTTGGTG-AAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * * *
10666218 GGGGTAAAATGGTAATTTTGGTGAAATCAAGGTCAAAAATTGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
*
10666276 GGGGTAAAACGGTAATTTT
1 GGGGTAAAATGGTAATTTT
10666295 TGGAAGTTTT
Statistics
Matches: 214, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
56 32 0.15
57 13 0.06
58 64 0.30
59 47 0.22
60 57 0.27
61 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
Found at i:10667045 original size:18 final size:18
Alignment explanation
Indices: 10667018--10667052 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10667008 CTTCATTTCC
10667018 TTTTTAAACCAGATCTGG
1 TTTTTAAACCAGATCTGG
*
10667036 TTTTTGAACCAGATCTG
1 TTTTTAAACCAGATCTG
10667053 AACATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTTTAAACCAGATCTGG
Found at i:10667100 original size:15 final size:16
Alignment explanation
Indices: 10667070--10667102 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10667060 AAAACCCCTT
*
10667070 CCTTTCTTTTTTTAAA
1 CCTTTCTTTATTTAAA
10667086 CCTTT-TTTATTTAAA
1 CCTTTCTTTATTTAAA
10667101 CC
1 CC
10667103 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (16 bp):
CCTTTCTTTATTTAAA
Found at i:10667403 original size:15 final size:16
Alignment explanation
Indices: 10667327--10667414 Score: 85
Period size: 15 Copynumber: 5.6 Consensus size: 16
10667317 GGTTCTTTTT
10667327 TTTA-TATTATAAGTTA
1 TTTATTATTATAA-TTA
*
10667343 TTTAATATTATTAATATA
1 TTTATTATTA-TAAT-TA
*
10667361 TTTATTATTA-AACTA
1 TTTATTATTATAATTA
*
10667376 TTTATTATAATAATTA
1 TTTATTATTATAATTA
*
10667392 -TTATTATTATAA-CA
1 TTTATTATTATAATTA
10667406 TTTATTATT
1 TTTATTATT
10667415 TATTAATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.02
15 30 0.49
16 10 0.16
17 6 0.10
18 14 0.23
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTATTATTATAATTA
Found at i:10668087 original size:36 final size:37
Alignment explanation
Indices: 10668046--10668115 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
10668036 GTTTGGGGTG
*
10668046 TTTGGG-CCAATTGGGCCTTGTATGTTGGA-TTTGAGT
1 TTTGGGCCCAATTGGGCCATGTAT-TTGGACTTTGAGT
10668082 TTTGGGCCCAATTGGGCCATGTATTTGGACTTTG
1 TTTGGGCCCAATTGGGCCATGTATTTGGACTTTG
10668116 GACATTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 11 0.35
37 20 0.65
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.40
Consensus pattern (37 bp):
TTTGGGCCCAATTGGGCCATGTATTTGGACTTTGAGT
Found at i:10668164 original size:6 final size:5
Alignment explanation
Indices: 10668152--10668220 Score: 57
Period size: 5 Copynumber: 12.6 Consensus size: 5
10668142 TTATAATAAT
* *
10668152 ATTAA ATTTAA ATTAA ATTCAA ATTAAA ATTGAA TTTAA AATAA ATTTAAA
1 ATTAA A-TTAA ATTAA ATT-AA ATT-AA ATT-AA ATTAA ATTAA A-TT-AA
*
10668203 ATTAA AATAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATT
10668221 TCAAAGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
5 27 0.52
6 22 0.42
7 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (5 bp):
ATTAA
Found at i:10668168 original size:11 final size:11
Alignment explanation
Indices: 10668153--10668221 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
10668143 TATAATAATA
10668153 TTAAATTTAAA-
1 TTAAA-TTAAAT
10668164 TTAAATTCAAAT
1 TTAAATT-AAAT
* *
10668176 TAAAATTGAAT
1 TTAAATTAAAT
*
10668187 TTAAAATAAAT
1 TTAAATTAAAT
10668198 TTAAAATTAAA-
1 TT-AAATTAAAT
*
10668209 ATAAATTAAAT
1 TTAAATTAAAT
10668220 TT
1 TT
10668222 CAAAGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 10 0.22
11 23 0.50
12 13 0.28
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:10668175 original size:17 final size:16
Alignment explanation
Indices: 10668160--10668230 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
10668150 ATATTAAATT
*
10668160 TAAATTAAATTCAAAT
1 TAAATTAAATTCAAAA
* *
10668176 TAAAATTGAATTTAAAA
1 T-AAATTAAATTCAAAA
10668193 TAAATTTAAAATT-AAAA
1 TAAA-TT-AAATTCAAAA
*
10668210 TAAATTAAATTTCAAAG
1 TAAATTAAA-TTCAAAA
10668227 TAAA
1 TAAA
10668231 AAATGGTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
15 3 0.07
16 8 0.18
17 30 0.67
18 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAATTAAATTCAAAA
Found at i:10668221 original size:22 final size:22
Alignment explanation
Indices: 10668153--10668231 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
10668143 TATAATAATA
* *
10668153 TTAAATTTAAATTAAATTCAAA-
1 TTAAAATTAAAATAAATT-AAAT
** *
10668175 TTAAAATTGAATTTAAAATAAAT
1 TTAAAATT-AAAATAAATTAAAT
10668198 TTAAAATTAAAATAAATTAAAT
1 TTAAAATTAAAATAAATTAAAT
* *
10668220 TTCAAAGTAAAA
1 TTAAAATTAAAA
10668232 AATGGTTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
22 31 0.66
23 16 0.34
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TTAAAATTAAAATAAATTAAAT
Found at i:10668691 original size:92 final size:92
Alignment explanation
Indices: 10668484--10668751 Score: 346
Period size: 92 Copynumber: 2.9 Consensus size: 92
10668474 TGATGTCGAG
* * * * * *
10668484 GCTTCATCTTGCTCTTAATACAATTTTAGAGAAATAAAGAC-TCATTACCCAACTTTA-TTACAA
1 GCTTCATCTAGCTCTTAATTCAATTTCAGAGAGATAAAGACTTGA-TATCCAACTTTACTT-CAA
*
10668547 CTTCAAGAGG-TCA-GAAACGATGTTTGAT
64 TTTCAAGAGGAT-AGGAAACGATGTTTGAT
* * *
10668575 GCTTTATCTAGCTCTTATTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
1 GCTTCATCTAGCTCTTAATTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTTCAATT
*
10668640 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAACGATGTTTGAT
* * *
10668667 GCTTCGTCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATT
1 GCTTCATCTAGCTCTTAATTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTTCAATT
*
10668732 TCAAGAGGATGGGAAACGAT
66 TCAAGAGGATAGGAAACGAT
10668752 CTTGCTCTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
91 59 0.38
92 96 0.62
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (92 bp):
GCTTCATCTAGCTCTTAATTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTTCAATT
TCAAGAGGATAGGAAACGATGTTTGAT
Found at i:10668805 original size:76 final size:76
Alignment explanation
Indices: 10668677--10669294 Score: 954
Period size: 76 Copynumber: 8.0 Consensus size: 76
10668667 GCTTCGTCTA
10668677 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* *
10668742 GGGAAACGATCTT
64 AGGAAATGATCTT
10668755 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
10668820 GAAATGATCTT
66 GAAATGATCTT
* *
10668831 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
10668895 GAAATGA-CGTT
66 GAAATGATC-TT
*
10668906 GCTCTTACTTCAATTTTAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
10668971 AGGAAATGA-CGTT
64 AGGAAATGATC-TT
*
10668984 GCTCTTACTTTAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
10669049 AGGAAATGATCTT
64 AGGAAATGATCTT
* * *
10669062 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGTGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
10669127 AAAATGATGTT
66 GAAATGATCTT
* *
10669138 GCTCTTACTTCAATTTCAGAGAGATAAGGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAC
1 GCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* *
10669203 AGGGAATGACCTT
64 AGGAAATGATCTT
* * *
10669216 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAGTTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
10669281 GGAATGATCTT
66 GAAATGATCTT
10669292 GCT
1 GCT
10669295 GCAGTTTGAT
Statistics
Matches: 501, Mismatches: 30, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
74 1 0.00
75 48 0.10
76 223 0.45
77 22 0.04
78 206 0.41
79 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATCTT
Found at i:10669141 original size:154 final size:154
Alignment explanation
Indices: 10668677--10669294 Score: 994
Period size: 154 Copynumber: 4.0 Consensus size: 154
10668667 GCTTCGTCTA
10668677 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* * *
10668742 GGGAAACGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAAT
66 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAAT
10668807 TTCAAGAGGATAGGAAATGATCTT
131 TTCAAGAGGATAGGAAATGATCTT
* *
10668831 GCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* *
10668893 AGGAAATGA-CGTTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGATATCCAACTCTACTTC
66 AGGAAATGATC-TTGCTCTTACTTCAA-TTT-CAGAGATAAAGACGTGATATCCAACTCTACTTC
10668957 AATTTCAAGAGGATAGGAAATGA-CGTT
128 AATTTCAAGAGGATAGGAAATGATC-TT
*
10668984 GCTCTTACTTTAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
*
10669049 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAAT
66 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAAT
* * *
10669114 TTCAAGTGGATAGAAAATGATGTT
131 TTCAAGAGGATAGGAAATGATCTT
* *
10669138 GCTCTTACTTCAATTTCAGAGAGATAAGGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAC
1 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* * * *
10669203 AGGGAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAGT
66 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAAT
*
10669268 TTCAAGAGGATAGGGAATGATCTT
131 TTCAAGAGGATAGGAAATGATCTT
10669292 GCT
1 GCT
10669295 GCAGTTTGAT
Statistics
Matches: 431, Mismatches: 24, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
150 1 0.00
151 46 0.11
152 23 0.05
153 73 0.17
154 217 0.50
155 22 0.05
156 48 0.11
157 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (154 bp):
GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAAT
TTCAAGAGGATAGGAAATGATCTT
Found at i:10676279 original size:13 final size:15
Alignment explanation
Indices: 10676248--10676279 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10676238 ATTTATAAAT
10676248 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10676263 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10676276 AATA
1 AATA
10676280 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10678855 original size:22 final size:22
Alignment explanation
Indices: 10678807--10678848 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10678797 ACAGTGCCGT
*
10678807 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10678829 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10678849 AGGACATTGA
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:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10679987 original size:22 final size:23
Alignment explanation
Indices: 10679962--10680005 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10679952 TTGGATTTAA
* *
10679962 ATAAATA-TTTTAAAATAATTAG
1 ATAAATAGATTTAAAAAAATTAG
10679984 ATAAATAGATTTAAAAAAATTA
1 ATAAATAGATTTAAAAAAATTA
10680006 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAAATAGATTTAAAAAAATTAG
Found at i:10684591 original size:11 final size:11
Alignment explanation
Indices: 10684557--10684633 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
10684547 AACCATTTGA
*
10684557 AAATTAAATTT
1 AAATTTAATTT
*
10684568 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10684579 AAATTTATTTT
1 AAATTTAATTT
*
10684590 AAATTCAATTT
1 AAATTTAATTT
10684601 AAATTTAAATTT
1 AAATTT-AATTT
*
10684613 GAATTTAATTT
1 AAATTTAATTT
10684624 AAAATTTAAT
1 -AAATTTAAT
10684634 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10684607 original size:6 final size:6
Alignment explanation
Indices: 10684560--10684632 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
10684550 CATTTGAAAA
* * *
10684560 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10684605 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
10684633 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:10684607 original size:17 final size:17
Alignment explanation
Indices: 10684580--10684647 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
10684570 TTTAATCTTA
*
10684580 AATTTATTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
10684596 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
10684614 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
10684631 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10684648 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:10684778 original size:14 final size:13
Alignment explanation
Indices: 10684738--10684779 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
10684728 TTTCGGTCCA
10684738 AATTACAAAGGCCC
1 AATTAC-AAGGCCC
10684752 AATTA-AAGGCCC
1 AATTACAAGGCCC
10684764 AATTACAATGGCCC
1 AATTACAA-GGCCC
10684778 AA
1 AA
10684780 ATAGGCCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
13 2 0.08
14 12 0.46
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (13 bp):
AATTACAAGGCCC
Found at i:10684857 original size:15 final size:15
Alignment explanation
Indices: 10684837--10684867 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10684827 CGTGCCTCTG
10684837 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10684852 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
10684867 C
1 C
10684868 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:10685716 original size:22 final size:22
Alignment explanation
Indices: 10685691--10685733 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10685681 AAAAAGGAAC
*
10685691 ACAAAAAATGAA-GAATAAAAGA
1 ACAAAAAAGGAAGGAA-AAAAGA
10685713 ACAAAAAAGGAAGGAAAAAAG
1 ACAAAAAAGGAAGGAAAAAAG
10685734 GGGAAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAAAAAAGGAAGGAAAAAAGA
Found at i:10686467 original size:30 final size:30
Alignment explanation
Indices: 10686426--10686810 Score: 612
Period size: 30 Copynumber: 12.7 Consensus size: 30
10686416 CCCTAAATTG
* *
10686426 TCCAGAAATTACATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
10686457 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
10686487 TCCAAAATTACATTTT-AACCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10686516 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
10686546 TCCAAAATTACATTTTAACCCAAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10686576 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
** *
10686606 TCCAAAATTACATTTTGACTGCAAGACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10686636 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
10686666 TCCAAAATTACATTTTGACCCCAAGACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
10686696 TCCAAAACTACATTTTGACTCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10686726 TCCAAAAAAATTACATTTTGACCCCAAAACTTT
1 TCC---AAAATTACATTTTGACCCCAAAACTTT
10686759 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
10686789 TCCAAAATTACCATTTT-ACCCC
1 TCCAAAATTA-CATTTTGACCCC
10686811 TGAATCTTTT
Statistics
Matches: 329, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
29 28 0.09
30 263 0.80
31 10 0.03
33 28 0.09
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:10686859 original size:59 final size:59
Alignment explanation
Indices: 10686792--10686982 Score: 294
Period size: 59 Copynumber: 3.2 Consensus size: 59
10686782 AAACTTTTCC
* * * *
10686792 AAAATTACCATTTTACCCCTGAATCTTTTGAAATACCATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCA
* *
10686851 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCA
* *
10686910 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAATCCCCGATTACACCG
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAA-CCCCGATTTCACCA
10686969 AAAATTACCATTTT
1 AAAATTACCATTTT
10686983 GCCCTCGGAT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
58 6 0.05
59 115 0.95
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:10686865 original size:30 final size:30
Alignment explanation
Indices: 10686825--10686982 Score: 107
Period size: 30 Copynumber: 5.3 Consensus size: 30
10686815 TCTTTTGAAA
10686825 TACCATTTTTAACCCCAATTTCACCAAAAAT
1 TACCA-TTTTAACCCCAATTTCACCAAAAAT
* * *
10686856 TACCATTTTACCCCCGAAGCTT---CTAAAAT
1 TACCATTTTAACCCC-AA-TTTCACCAAAAAT
*
10686885 T-CCATTTTTAACCCCGATTTCACCAAAAAT
1 TACCA-TTTTAACCCCAATTTCACCAAAAAT
* **
10686915 TACCATTTTACCCCCGAATCTT---TTAAAAT
1 TACCATTTTAACCCC-AAT-TTCACCAAAAAT
* * *
10686944 T-CCATTTTAATCCCCGATTACACCGAAAAT
1 TACCATTTTAA-CCCCAATTTCACCAAAAAT
10686974 TACCATTTT
1 TACCATTTT
10686983 GCCCTCGGAT
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
27 3 0.03
28 14 0.14
29 26 0.27
30 31 0.32
31 19 0.20
32 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (30 bp):
TACCATTTTAACCCCAATTTCACCAAAAAT
Found at i:10686960 original size:29 final size:29
Alignment explanation
Indices: 10686792--10686952 Score: 125
Period size: 29 Copynumber: 5.5 Consensus size: 29
10686782 AAACTTTTCC
* *
10686792 AAAATTACCATTTTACCCCTGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * *
10686821 GAAA-TACCATTTTTAACCCC-AAT-TTCACCA
1 AAAATTACCA-TTTTACCCCCGAATCTT---CT
*
10686851 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * ** *
10686880 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTTACCCCCGA-ATCTTCT
*
10686910 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTCT
10686939 AAAATT-CCATTTTA
1 AAAATTACCATTTTA
10686953 ATCCCCGATT
Statistics
Matches: 101, Mismatches: 21, Indels: 21
0.71 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 19 0.19
29 37 0.37
30 31 0.31
31 10 0.10
32 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTCT
Found at i:10687008 original size:118 final size:118
Alignment explanation
Indices: 10686792--10687026 Score: 287
Period size: 118 Copynumber: 2.0 Consensus size: 118
10686782 AAACTTTTCC
* * *
10686792 AAAATTACCATTTTACCCCTGAATCTTTTGAAATACCATTTTTAACCCCAATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATACCATTTTTAACCCCAATTACACCAAAAATT
* * *
10686857 ACCATTTTACCCCCGAAGCTTCTAAAATTCCA-TTTTTAACCCCGATTTCACCA
66 ACCATTTTACCCCCG-AGATTCCAAAATCCCATTTTTTAACCCCGATTTCACCA
* * *
10686910 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAATCCCCGATTACACCGAAAAT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATACCATTTTTAA-CCCCAATTACACCAAAAAT
* * * *
10686974 TACCATTTTGCCCTCG-GATATCCATAAGTCCCATTTTTTTCACCCCGATTTCA
65 TACCATTTTACCCCCGAGAT-TCCA-AAATCCCA-TTTTTTAACCCCGATTTCA
10687027 TCATTTATCA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
116 2 0.02
117 9 0.09
118 71 0.72
120 17 0.17
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATACCATTTTTAACCCCAATTACACCAAAAATT
ACCATTTTACCCCCGAGATTCCAAAATCCCATTTTTTAACCCCGATTTCACCA
Found at i:10690834 original size:22 final size:22
Alignment explanation
Indices: 10690786--10690827 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10690776 ACAGTGCTGT
*
10690786 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10690808 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10690828 AGGACATTGA
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:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10706845 original size:29 final size:29
Alignment explanation
Indices: 10706804--10706934 Score: 81
Period size: 29 Copynumber: 4.5 Consensus size: 29
10706794 TCGGGGTTAA
10706804 AAAATGG-AATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTAAAAGATTCGGGGGT
**** * * *
10706832 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTAAAAG-ATTCGGGGGT
* * *
10706862 AAAACGG-AATTTTAGAAGATTTGGGGGGT
1 AAAATGGTAATTTTAAAAGA-TTCGGGGGT
* **
10706891 AAAATGGTAATTTTTGAAAG-TTTTGGGGT
1 AAAATGGTAA-TTTTAAAAGATTCGGGGGT
10706920 CAAAAT-GTAATTTTA
1 -AAAATGGTAATTTTA
10706935 GAAAAGTTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
28 12 0.16
29 37 0.49
30 20 0.26
31 7 0.09
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTAAAAGATTCGGGGGT
Found at i:10706903 original size:30 final size:29
Alignment explanation
Indices: 10706869--10707297 Score: 263
Period size: 30 Copynumber: 14.3 Consensus size: 29
10706859 GTTAAAACGG
10706869 AATTTTAGAAGATTTGGGGGGT-AAAATGGT
1 AATTTTAGAAGATTT-GGGGGTCAAAAT-GT
* *
10706899 AATTTTTGAA-AGTTTTGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * *
10706928 AATTTTAGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
*
10706958 AATTTTGGAGAA-ATTTTGGGGTCAAAATGT
1 AATTTT--AGAAGATTTGGGGGTCAAAATGT
* * *
10706988 AATTTTGGAAAAGTTTCGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10707018 AATTTTAGAAAAGTTTTGAGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10707048 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * *
10707078 AATTTTGGAAAAGTTTTGGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10707108 AATTTTGGAAAAGCTTT-GGGGTCAAAGTAT
1 AATTTT--AGAAGATTTGGGGGTCAAAATGT
* * * *
10707138 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * ** *
10707168 AATTTTGGAAAAGTTTTAGGGTCAAAATTT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10707198 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * **
10707228 AATTTTGGAAAAGTTTTAGGGTCAAAATGT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
* * * *
10707258 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAGA-TTTGGGGGTCAAAATGT
10707288 AATTTCTAGA
1 AATTT-TAGA
10707298 TTGTTTGGGG
Statistics
Matches: 353, Mismatches: 34, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.01
29 21 0.06
30 314 0.89
31 7 0.02
32 6 0.02
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
AATTTTAGAAGATTTGGGGGTCAAAATGT
Found at i:10706905 original size:59 final size:59
Alignment explanation
Indices: 10706766--10706906 Score: 196
Period size: 59 Copynumber: 2.4 Consensus size: 59
10706756 TATGGATACC
* * * *
10706766 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAAACGGAATTTTAAAAGATT
*
10706825 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAACGGAATTTTAGAAGATTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGA-TT
*
10706884 GGGGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
10706907 AAAGTTTTGG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 17 0.23
59 40 0.54
60 17 0.23
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGATT
Found at i:10706984 original size:60 final size:60
Alignment explanation
Indices: 10706898--10707292 Score: 632
Period size: 60 Copynumber: 6.6 Consensus size: 60
10706888 GGTAAAATGG
* * *
10706898 TAATTTTTG-AAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10706957 TAATTTTGGAGAAA-TTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATG
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
10707017 TAATTTTAGAAAAGTTTTGAGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10707077 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGCTTTGGGGTCAAAGTA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
10707137 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATT
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
10707197 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
10707257 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTT
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTT
10707293 CTAGATTGTT
Statistics
Matches: 313, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
59 11 0.04
60 299 0.96
61 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (60 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:10707015 original size:90 final size:90
Alignment explanation
Indices: 10706886--10707297 Score: 659
Period size: 90 Copynumber: 4.6 Consensus size: 90
10706876 GAAGATTTGG
*
10706886 GGGGT-AAAATGGTAATTTTTG-AAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGG
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGG
10706949 TCAAAATATAATTTTGGAGAAA-TTTT
65 TCAAAATATAATTTTGGA-AAAGTTTT
* *
10706975 GGGGTCAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATGTAATTTTAGAAAAGTTTTGAGGT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
10707040 CAAAATATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * *
10707065 GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGCTTTGGGGT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
*
10707130 CAAAGTATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * * *
10707155 GGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATTTAATTTTGGAAAAGTTTTGGGGT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
10707220 CAAAATATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* *
10707245 AGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTCTAGA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTT-TAGA
10707298 TTGTTTGGGG
Statistics
Matches: 301, Mismatches: 18, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
89 17 0.06
90 281 0.93
91 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (90 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGT
CAAAATATAATTTTGGAAAAGTTTT
Found at i:10708284 original size:29 final size:30
Alignment explanation
Indices: 10708251--10708318 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
10708241 TTTTTTATTG
10708251 AATAATATTTATTATCA-T-TTAATGATGTT
1 AATAATATTTATTATCATTATTAAT-ATGTT
*
10708280 AATAA-ATGTTATTATTATTATTAATATGTT
1 AATAATAT-TTATTATCATTATTAATATGTT
*
10708310 ATTAATATT
1 AATAATATT
10708319 AATATATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 13 0.39
30 11 0.33
31 7 0.21
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
AATAATATTTATTATCATTATTAATATGTT
Found at i:10708313 original size:17 final size:17
Alignment explanation
Indices: 10708291--10708323 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10708281 ATAAATGTTA
*
10708291 TTATTATTATTAATATG
1 TTATTAATATTAATATG
10708308 TTATTAATATTAATAT
1 TTATTAATATTAATAT
10708324 ATTAGGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATTAATATTAATATG
Found at i:10708961 original size:17 final size:16
Alignment explanation
Indices: 10708941--10709032 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 16
10708931 GACTTTCTTT
10708941 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
10708958 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
10708974 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
10708992 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
** *
10709008 TTTAAGGTTAAAATAAA
1 -TTAAATTTAAATTAAA
*
10709025 TTTAATTT
1 TTAAATTT
10709033 TCAAATGATT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.23
17 41 0.66
18 7 0.11
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:10708967 original size:6 final size:6
Alignment explanation
Indices: 10708958--10709012 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
10708948 TATAATAACA
* *
10708958 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10709003 GTAAAT TTAA
1 TTAAAT TTAA
10709013 GGTTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:10709029 original size:11 final size:11
Alignment explanation
Indices: 10708957--10709012 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
10708947 TTATAATAAC
10708957 ATTAAATTTAA
1 ATTAAATTTAA
*
10708968 ATTAAATTCAA
1 ATTAAATTTAA
10708979 ATTTAAATTTAA
1 A-TTAAATTTAA
*
10708991 ATTGAATTTAA
1 ATTAAATTTAA
*
10709002 AGTAAATTTAA
1 ATTAAATTTAA
10709013 GGTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10709525 original size:22 final size:23
Alignment explanation
Indices: 10709500--10709562 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
10709490 TTGGATTTAA
* *
10709500 ATAAAT-ATTTTAAAATAATTAG
1 ATAAATAAATTTAAAAAAATTAG
10709522 ATAAATAAATTTAAAAAAATTA-
1 ATAAATAAATTTAAAAAAATTAG
***
10709544 ATGTTTAAATTTAAAAAAA
1 ATAAATAAATTTAAAAAAA
10709563 AAACTTATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
ATAAATAAATTTAAAAAAATTAG
Found at i:10714177 original size:13 final size:15
Alignment explanation
Indices: 10714146--10714177 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10714136 ATTTATAAAT
10714146 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10714161 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10714174 AATA
1 AATA
10714178 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10717804 original size:13 final size:15
Alignment explanation
Indices: 10717786--10717817 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10717776 TAATTGCACA
10717786 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10717799 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10717814 TATT
1 TATT
10717818 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10722455 original size:22 final size:23
Alignment explanation
Indices: 10722412--10722455 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10722402 ATTTAAACAT
* *
10722412 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATATATTTATC
10722435 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10722456 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10723593 original size:22 final size:22
Alignment explanation
Indices: 10723568--10723609 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10723558 TCAATGTCCT
10723568 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10723590 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10723610 ACGGCACTGT
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10726155 original size:13 final size:15
Alignment explanation
Indices: 10726137--10726168 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10726127 TAATTGCACA
10726137 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10726150 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10726165 TATT
1 TATT
10726169 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10730796 original size:23 final size:22
Alignment explanation
Indices: 10730751--10730814 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
10730741 AGATAAGTTT
***
10730751 TTTTTTTAAATTTAAACATTAA
1 TTTTTTTAAATTTATTTATTAA
10730773 TTTTTTTAAATTTATTTATCTAA
1 TTTTTTTAAATTTATTTAT-TAA
* *
10730796 TTATTTTAAA-ATATTTATT
1 TTTTTTTAAATTTATTTATT
10730815 TAAATCCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.03
22 23 0.64
23 12 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTTTAAATTTATTTATTAA
Found at i:10730813 original size:22 final size:23
Alignment explanation
Indices: 10730770--10730813 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10730760 ATTTAAACAT
* *
10730770 TAATTTTTTTAAATTTATTTATC
1 TAATTATTTTAAATATATTTATC
10730793 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10730814 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10731315 original size:11 final size:11
Alignment explanation
Indices: 10731301--10731356 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
10731291 TATTTTAACC
*
10731301 TTAAATTTACT
1 TTAAATTTAAT
*
10731312 TTAAATTCAAT
1 TTAAATTTAAT
10731323 TTAAATTTAAAT
1 TTAAATTT-AAT
*
10731335 TTGAATTTAAT
1 TTAAATTTAAT
10731346 TTAAATTTAAT
1 TTAAATTTAAT
10731357 GTTATTATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:10731353 original size:17 final size:16
Alignment explanation
Indices: 10731281--10731372 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 16
10731271 AATCATTTGA
* *
10731281 AAATTAAATTTATTTT
1 AAATTTAATTTAATTT
* * *
10731297 AACCTTAAATTTACTTT
1 AA-ATTTAATTTAATTT
*
10731314 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
10731331 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
10731348 AAATTTAATGTT-ATTAT
1 AAATTTAAT-TTAATT-T
10731365 AAATTTAA
1 AAATTTAA
10731373 AAAGAAAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
16 15 0.23
17 45 0.69
18 5 0.08
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Done.