Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1450453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1822 original size:19 final size:20
Alignment explanation
Indices: 1798--1845 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1788 AATGCTTTTC
* *
1798 TTTTGAAAGCTAAAATG-AA
1 TTTTGAAAACCAAAATGAAA
1817 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
1837 TTTTGAAAA
1 TTTTGAAAA
1846 ATGATTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:5065 original size:22 final size:21
Alignment explanation
Indices: 5040--5095 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
5030 ACTCAACGTA
5040 TAAATATAAATTAGTTAAAATT
1 TAAATATAAATTAGTTAAAA-T
** *
5062 TAAAGGTAAATTATTTAAAAT
1 TAAATATAAATTAGTTAAAAT
* *
5083 GAAATATTAATTA
1 TAAATATAAATTA
5096 TATTTTTTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAATATAAATTAGTTAAAAT
Found at i:8510 original size:466 final size:461
Alignment explanation
Indices: 7607--8532 Score: 1516
Period size: 466 Copynumber: 2.0 Consensus size: 461
7597 GTTGCCCATT
7607 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACTCTACATTGCTCTAGTACCTCTTTATAT
1 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGAC-CTACATTGCTCTAGTACCTCTTTATAT
* *
7672 CAGTGATTGTTCTATAATTTCAAGTGTGAAAGCCATTCTTATTTTGTATATAGTGGGACATGAGT
65 CAGTGATCGTTCTATAATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
* * * * * *
7737 TGATATTCTTTTTTAAAGGTCTAGACATTGTGAAGTAGATGGTTGATATCTGAGGTTGTAAATAC
130 TAATATTCTTTTTTAAAGGTCTAGACATGGAGAAGTAAATGGTTAATATCTGAAGTTGTAAATAC
* * *
7802 ACTGTCTCTATATCATTTGAATGTAGATGCATATTTGGTGTTTATCTGTGAAATATTATATAATG
195 ACTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTATAAAATA
* *
7867 TTTAGATTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGTTAG
260 TTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGGTAG
* *
7932 AGACCTTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGCAGGAGTCCATC
325 AGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCCATC
*
7997 GTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTATAACTCTCAACACC
390 GTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAACACC
*
8062 TCTTTGC
455 CCTTTGC
* * *
8069 ACTATGCGTTTAATTATTACTTGAGCTACATTTGGA-CTACATTGCTCTAGTACCTCTTTATATT
1 ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACCTACATTGCTCTAGTACCTCTTTATATC
8133 AGTGATCGTTCTATACA-TTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
66 AGTGATCGTTCTATA-ATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGT
* *
8197 TAATCTT-TTTTTTAAAGGTCTAGACATGGAGAAGTAAATGGTAATAACACAATATCTGAATTTG
130 TAATATTCTTTTTTAAAGGTCTAGACATGGAGAAGTAAATGGT--T-----AATATCTGAAGTTG
* * *
8261 TAAATACATTGTCTCTATATCATTTGATTGTAGACGCATTTTTGGTGTTTATCTGTGAAATATTA
188 TAAATACACTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTA
*
8326 TAAAATATTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCGGGTGTCTACCTTTGTTATG
253 TAAAATATTTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATG
8391 ATGGTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGA
318 ATGGTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGA
8456 GTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCT
383 GTCCATCGTTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCT
8521 CAACACCCCTTT
448 CAACACCCCTTT
8533 ATATTAGTGG
Statistics
Matches: 430, Mismatches: 26, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
459 32 0.07
460 92 0.21
461 2 0.00
462 34 0.08
466 270 0.63
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (461 bp):
ACTATGCGTTTAATAATTACTTGAGCTACATCTGGACCTACATTGCTCTAGTACCTCTTTATATC
AGTGATCGTTCTATAATTTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGAGTT
AATATTCTTTTTTAAAGGTCTAGACATGGAGAAGTAAATGGTTAATATCTGAAGTTGTAAATACA
CTGTCTCTATATCATTTGAATGTAGACGCATATTTGGTGTTTATCTGTGAAATATTATAAAATAT
TTAGACTGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCTACCTTTGTTATGATGGTAGA
GACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCCATCG
TTGCTCAGTACTATGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCAACACCC
CTTTGC
Found at i:9928 original size:849 final size:841
Alignment explanation
Indices: 8142--10660 Score: 3840
Period size: 849 Copynumber: 3.0 Consensus size: 841
8132 TAGTGATCGT
* ** * *
8142 TCTATACATTCAAGTGTGAAAACCATTCTTATTTTGTATATAGTGGGACATGA-GTTAA--TC-T
1 TCTATACACTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACA-CATGTTAATTTCAT
* * * * *
8203 TTTTT-TTAAAGGTCTAGACATGGAGAAGTAAATGGTAATAACAC--AATATCTGAATTTGTAAA
65 TTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
* *
8265 TACATTG-TCTCTATATCATTTGATTGTAGACGCA-TTTTTGGTGTTTATCTGTGAAATATTATA
130 TACATTGCT-TCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATTAT-
* * * * *
8328 AAAT-ATTTAGA-CTGTTTCCCATGAATCTAACCAGATGTGGTCCGGGTGTCTACCTTTGTTATG
193 ATATGATTTAGATC-GTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTG
8391 ATGGTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGA
257 ATGGTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGA
8456 GTCCATCGTTGCTCAGTACTA--TGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACT
322 GTCCATCGTTGCTCAGTACTATGTGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACT
8519 CTCAACACCCCTTTATATTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTT
387 CTCAACACCCCTTTAT-TTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTT
*
8584 GGATACAGTGGAATGTGTGTTGTGAATCTGTTCTTTCTTAAAGTGATAGGCATAGTGAAGCCAAT
451 GGATACAGTGGAATGTGTGTTGTGAATCTGTTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAAT
* * *
8649 AATAATAACACAACATATGCATTTGGCAATACTTTCCATGGTTCAATATCTTTTGAATATTGATT
516 AATAATAACACAACATGTGCATTTTGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATT
*
8714 CATTTTTGGCGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACC
581 CATTTTTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACC
*
8779 AGATGTAGTCAGGTGTCTACCTTTCCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAG
646 AGATGTAGTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAG
8844 ATAGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCAT
711 ATAGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCAT
* *
8909 CGTTGCCCAGTACTACGCGTTTAATTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTAC
776 CGTTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTAC
8974 C
841 C
* *
8975 TCTATACATTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTAGGACACATGTTAAATTTCAT
1 TCTATACACTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTT-AATTTCAT
*
9040 TTTTTGTTAAAGGGCTATACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
65 TTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAA
9105 TACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATTATAT
130 TACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATTATAT
9170 ATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATG
195 ATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATG
9235 GTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTC
260 GTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTC
*
9300 CATCTTTGCTCAGTACTATGTGTTAAGTTAGTTAAGTTATTACTTGAGCTACATCTGGATGCTAC
325 CATCGTTGCTCAGTACTA--TG-T--G-T-GTTAAGTTATTACTTGAGCTACATCTGGATGCTAC
*
9365 AACTCTCAACACCCCTTTATTTAGTGGTCATTCTATTTATTCAAGTATGAAGAAGCCATTCTTAT
383 AACTCTCAACACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTAT
*
9430 TTTGGATACAGTGGAATGTGTGTTGTGAATCTGCTCTTTCTTAAAGTGATAGGCATAGTGAAGCA
448 TTTGGATACAGTGGAATGTGTGTTGTGAATCTGTTCTTTCTTAAAGTGATAGGCATAGTGAAGCA
9495 AATAATAATAACACAACATGTGCATTTTGCAATACTTTCCATGCTTCAATATCTTTTGAATATTG
513 AATAATAATAACACAACATGTGCATTTTGCAATACTTTCCATGCTTCAATATCTTTTGAATATTG
*
9560 ATTCATTTTTGGTGTGTATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTA
578 ATTCATTTTTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTA
* * *
9625 ATCAGATGTAGTCAGGTGTCTACCTTTGCTATAATGGTAGGGATTGTTACATATCTAGAAAATAA
643 ACCAGATGTAGTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAA
* *
9690 AAGATAGGGAAGCAATTGATGGCTTGAGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTC
708 AAGATAGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTC
*
9755 CATCGTTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGACACTACATTGCCCAG
773 CATCGTTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAG
9820 TACC
838 TACC
*
9824 TCTAT-CGACTCAAGTGTGAATGCCATTCTTATTTTATTTATAGTGGGACACATGTTAATCTTCA
1 TCTATAC-ACTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTTAAT-TTCA
9888 TTTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAA
64 TTTTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAA
*
9953 ATACATTGCTTCTATATCATTTGAATGTAGATGCAGTTTTTTGGTGTTTATCTGTGAAATATAAT
129 ATACATTGCTTCTATATCATTTGAATGTAGATGCA-TTTTTTGGTGTTTATCTGTGAAATATTAT
10018 ATATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGA
193 ATATGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGA
* *
10083 TGGTACAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCACTTGAAGGAG
258 TGGTAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAG
* * *
10148 TCCATCGTTGCTCAGTACCATGTGT-TT-AGTTATTACTTGAGCTACATCT-G-T-CAACATCTC
323 TCCATCGTTGCTCAGTACTATGTGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTC
* * * * *
10208 TTTATATTAGTGGCCATTCTATTTTTTTTTATAAGAGTGGTCATTCTATTCATTCAAGTATTAAG
388 -TCA-A-CA----CC---C----CTTTATT-T---AGTGGTCATTCTATTCATTCAAGTATGAAG
* * * *
10273 AAGCCATACTTATTTTGGATACAGTGGAATGTTTGTTGTGAATCTGTTCTTTCTTAAAGGGATAT
435 AAGCCATTCTTATTTTGGATACAGTGGAATGTGTGTTGTGAATCTGTTCTTTCTTAAAGTGATAG
* * * * * * *
10338 GCATAGTGAAGCTAATAATAATATCACTA-TTGTGTACGTTTGACAATACTTTCCATGCTTCTAT
500 GCATAGTGAAGCAAATAATAATAACACAACATGTGCA-TTTTG-CAATACTTTCCATGCTTCAAT
* * * ** *
10402 AAT-TTTT-AATATAGATGCTTTTTTTTATGTATATCTGTGAGATATTATTTAATATTTACCTTT
563 -ATCTTTTGAATATTGATTC-ATTTTTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTT
* *
10465 CTGCTTCCATGAGTTTAACCAGATGTAGTCAGGTGTTTACCTTTGCTTATGATGGTAGGGACTGT
626 CTGCTTCCATGAGTTTAACCAGATGTAGTCAGGTGTCTACCTTTGC-TATAATGGTAGGGACTGT
* * *
10530 TACATATCTGGAAAATAAAAGACAGGGAAGGAATTGATGGTTTGGGTTTCCAATCTATCTATTAA
690 TACATATCTGGAAAATAAAAGATAGGGAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAG
* * ***
10595 CCATCCCTTGAAGGAGTCCACCGTTGCCCAGTACTATTTTTTTAGTTATTACTTGAGCTACATCT
755 CCATCCCTTGATGGAGTCCATCGTTGCCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCT
10660 G
820 G
10661 AACCCAACAC
Statistics
Matches: 1552, Mismatches: 87, Indels: 69
0.91 0.05 0.04
Matches are distributed among these distances:
832 1 0.00
833 49 0.03
834 2 0.00
836 2 0.00
837 6 0.00
838 43 0.03
839 3 0.00
840 50 0.03
841 190 0.12
842 3 0.00
844 1 0.00
845 3 0.00
846 1 0.00
847 1 0.00
848 8 0.01
849 577 0.37
850 229 0.15
852 5 0.00
853 1 0.00
855 5 0.00
856 127 0.08
857 107 0.07
858 138 0.09
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (841 bp):
TCTATACACTCAAGTGTGAATGCCATTCTTATTTTGTTTATAGTGGGACACATGTTAATTTCATT
TTTTGTTAAAGGGCTAGACATGGTGAAGTAAATGGTAATAACACTTAATAACTGCATTTGGAAAT
ACATTGCTTCTATATCATTTGAATGTAGATGCATTTTTTGGTGTTTATCTGTGAAATATTATATA
TGATTTAGATCGTTTCCCATGAATCTAACCAGATGTGGTCCAGGTGTCAACCTTTGATCTGATGG
TAGAGACCGTTACATATCTGGAAAATAAAAGATAGGGAAGGAATATCCATCCCTTGAAGGAGTCC
ATCGTTGCTCAGTACTATGTGTGTTAAGTTATTACTTGAGCTACATCTGGATGCTACAACTCTCA
ACACCCCTTTATTTAGTGGTCATTCTATTCATTCAAGTATGAAGAAGCCATTCTTATTTTGGATA
CAGTGGAATGTGTGTTGTGAATCTGTTCTTTCTTAAAGTGATAGGCATAGTGAAGCAAATAATAA
TAACACAACATGTGCATTTTGCAATACTTTCCATGCTTCAATATCTTTTGAATATTGATTCATTT
TTGGTGTATATCTGTGAAATATTATTTAATATTTACCTTTCTGCTTCCATGAGTTTAACCAGATG
TAGTCAGGTGTCTACCTTTGCTATAATGGTAGGGACTGTTACATATCTGGAAAATAAAAGATAGG
GAAGGAATTGATGGCTTGGGTTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCGTTG
CCCAGTACTATGCGTTTAGTTATTACTTGAGCTACATCTGGAAACTACATTGCCCAGTACC
Found at i:14713 original size:26 final size:26
Alignment explanation
Indices: 14677--14735 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
14667 AGTGATCAGT
14677 GCTTGTCACTTACACGAGCTACCAGA
1 GCTTGTCACTTACACGAGCTACCAGA
14703 GCTTGTCACTTACACGAGCTACCAGA
1 GCTTGTCACTTACACGAGCTACCAGA
14729 GCTTGTC
1 GCTTGTC
14736 CACTGAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (26 bp):
GCTTGTCACTTACACGAGCTACCAGA
Found at i:15764 original size:12 final size:12
Alignment explanation
Indices: 15749--15794 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
15739 CGGTTTTTTT
*
15749 ACCGGATAAAAA
1 ACCGGTTAAAAA
15761 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
15776 ACCGGTTAAAAA
1 ACCGGTTAAAAA
15788 ACCGGTT
1 ACCGGTT
15795 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:15776 original size:15 final size:13
Alignment explanation
Indices: 15755--15795 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
15745 TTTTACCGGA
15755 TAAAAAACCGGTT
1 TAAAAAACCGGTT
15768 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
15782 TAAAAAACCGGTT
1 TAAAAAACCGGTT
15795 T
1 T
15796 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:18109 original size:21 final size:21
Alignment explanation
Indices: 18085--18124 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18075 TTTATTTTAT
18085 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
18106 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
18125 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:18209 original size:33 final size:32
Alignment explanation
Indices: 18119--18215 Score: 144
Period size: 31 Copynumber: 3.0 Consensus size: 32
18109 TTTGTTTCAA
18119 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAG-TTTTAAGTATTTGAAT
18151 TTATCGAACTTGGAAG-TTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTAAGTATTTGAAT
* *
18182 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGT-TTTAAGTATTTGAAT
18215 T
1 T
18216 ATGTTGAGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
31 30 0.50
32 11 0.18
33 19 0.32
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (32 bp):
TTATCGAACTTGGAAGTTTTAAGTATTTGAAT
Found at i:18244 original size:13 final size:13
Alignment explanation
Indices: 18201--18255 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
18191 TTGGAAGTAT
18201 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
18214 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
18228 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
18241 TTAAGTATTTGAA
1 TTAAGTATTTCAA
18254 TT
1 TT
18256 TATTGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:18674 original size:15 final size:15
Alignment explanation
Indices: 18649--18704 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
18639 ATCTGGAATA
*
18649 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
18664 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
18679 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
18696 TTAAAACCG
1 TTAAAACCG
18705 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:18713 original size:21 final size:18
Alignment explanation
Indices: 18668--18701 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18658 GTTTTTTTAT
18668 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
18685 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
18702 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:18821 original size:15 final size:17
Alignment explanation
Indices: 18795--18826 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18785 TTCTATGGGA
18795 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
18811 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
18827 CGGATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:18824 original size:21 final size:21
Alignment explanation
Indices: 18800--18852 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
18790 TGGGAAAAAA
18800 CCGGATCGGATAAAAACCGAT
1 CCGGATCGGATAAAAACCGAT
18821 CCGGATCGGATAAAAACCGAT
1 CCGGATCGGATAAAAACCGAT
18842 CCGGATCGGAT
1 CCGGATCGGAT
18853 TGAAATCCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.26, T:0.15
Consensus pattern (21 bp):
CCGGATCGGATAAAAACCGAT
Found at i:28596 original size:27 final size:27
Alignment explanation
Indices: 28558--28615 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
28548 TACCAACCTT
28558 CTTCCTCCACCTTATCTGTCATTTCAA
1 CTTCCTCCACCTTATCTGTCATTTCAA
* *
28585 CTTCCTCCACCTTATCTGTTATTTCAG
1 CTTCCTCCACCTTATCTGTCATTTCAA
28612 CTTC
1 CTTC
28616 TTCCGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.36, G:0.05, T:0.43
Consensus pattern (27 bp):
CTTCCTCCACCTTATCTGTCATTTCAA
Found at i:30153 original size:125 final size:125
Alignment explanation
Indices: 29931--30199 Score: 475
Period size: 125 Copynumber: 2.2 Consensus size: 125
29921 GGTATATGCG
* * * *
29931 ATGTCTTTAAAATTCTTTAGGTGTTCAACTCCTCATTTCTTATTGCTCTATGTTTCATTGAACGT
1 ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
*
29996 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTGA
66 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
* *
30056 ATGTCTCTACAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGTTCTATGTTTCATTGAACGT
1 ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
30121 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
66 CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
30181 ATGTCTCTAAAAATCATTA
1 ATGTCTCTAAAAATCATTA
30200 TGAAGATGTT
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 136 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (125 bp):
ATGTCTCTAAAAATCATTAGGTGTTCAACTCCTCATTTCTTATCGCTCTATGTTTCATTGAACGT
CATACACTTTACACTATTTGTTGGGCATTAGTTCAACAGGTAAGTTTCACATCGAACTAA
Found at i:30705 original size:3 final size:3
Alignment explanation
Indices: 30699--30746 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
30689 TATCCATTTG
* *
30699 TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA ATA -AA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30744 TTA
1 TTA
30747 CATTTCAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.90
4 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:41357 original size:54 final size:55
Alignment explanation
Indices: 41298--41461 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 55
41288 TATTGATCAG
* ** *
41298 ACATCTAGGCAAAAGTCACGGGAAAAGATGAATGTATTGTCGAATGTTTTACG-A
1 ACATCTAAGCAAAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
* * * *
41352 ACATCTAAGCAGAAGCCATAA-AAAATGATGAATGTATTGTTAAATG-TTTACGAA
1 ACATCTAAGCAAAAGTCACAAGAAAA-GATGAATGTATTGTCAAATGTTTTACGAA
* * * *
41406 ACATCTATGCAGAAA-TCACAAGAAATGATGAATGTGTTGTCAAATATTTTAC-AA
1 ACATCTAAGCA-AAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
41460 AC
1 AC
41462 CAATTATTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
53 10 0.11
54 69 0.78
55 10 0.11
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (55 bp):
ACATCTAAGCAAAAGTCACAAGAAAAGATGAATGTATTGTCAAATGTTTTACGAA
Found at i:41874 original size:21 final size:22
Alignment explanation
Indices: 41828--41878 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
41818 TCTATATTCC
*
41828 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTATCTTT
*
41850 TCAAAGATGATATATTATC-TT
1 TCAAAGATGATAGATTATCTTT
41871 TCAAAGAT
1 TCAAAGAT
41879 AAAAGCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
TCAAAGATGATAGATTATCTTT
Found at i:42436 original size:113 final size:113
Alignment explanation
Indices: 42239--42569 Score: 506
Period size: 113 Copynumber: 2.9 Consensus size: 113
42229 GATTCGAATC
*
42239 CATCACTCAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
42303 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
* *
42351 CATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGATGAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * **
42416 AGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTCTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
* * * * *
42464 CATTACTCGATGGATCAACTTTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATTTGAAG-AGG
1 CATCACTCGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
42527 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
42570 TGACTCTATC
Statistics
Matches: 197, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
112 60 0.30
113 135 0.69
114 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
Found at i:42654 original size:19 final size:19
Alignment explanation
Indices: 42630--42693 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
42620 TTCATAACGA
42630 GAAGAACTTATCTGAAGAG
1 GAAGAACTTATCTGAAGAG
**
42649 GAAGAA-GAAGTTCAT-AATGA-
1 GAAGAACTTA--TC-TGAA-GAG
42669 GAAGAACTTATCTGAAGAG
1 GAAGAACTTATCTGAAGAG
42688 GAAGAA
1 GAAGAA
42694 GAAGTTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 4 0.12
19 16 0.47
20 10 0.29
21 4 0.12
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.19
Consensus pattern (19 bp):
GAAGAACTTATCTGAAGAG
Found at i:42656 original size:22 final size:22
Alignment explanation
Indices: 42629--42696 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
42619 GTTCATAACG
42629 AGAAGAACTTATCTGAAGAGGA
1 AGAAGAACTTATCTGAAGAGGA
* *
42651 AGAAGAA-GT-TC--ATA-ATG-
1 AGAAGAACTTATCTGA-AGAGGA
42668 AGAAGAACTTATCTGAAGAGGA
1 AGAAGAACTTATCTGAAGAGGA
42690 AGAAGAA
1 AGAAGAA
42697 GTTCATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
17 7 0.20
18 4 0.11
19 3 0.09
20 3 0.09
21 4 0.11
22 14 0.40
ACGTcount: A:0.49, C:0.07, G:0.26, T:0.18
Consensus pattern (22 bp):
AGAAGAACTTATCTGAAGAGGA
Found at i:42671 original size:39 final size:39
Alignment explanation
Indices: 42617--42716 Score: 191
Period size: 39 Copynumber: 2.6 Consensus size: 39
42607 TTTCCAGATA
*
42617 AAGTTCATAACGAGAAGAACTTATCTGAAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
42656 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
42695 AAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTT
42717 GTTCGACCTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.21
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
Found at i:42720 original size:20 final size:20
Alignment explanation
Indices: 42658--42720 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
42648 GGAAGAAGAA
42658 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
42678 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
42697 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
42717 GTTC
1 GTTC
42721 GACCTTAGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 14 0.47
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:42971 original size:138 final size:140
Alignment explanation
Indices: 42651--43000 Score: 446
Period size: 138 Copynumber: 2.5 Consensus size: 140
42641 CTGAAGAGGA
* *
42651 AGAAGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* ** * * * * * *
42715 TTGTTCGACCTTAGTTTGATTCATCACCTATGGAGTTGAATGAAGGAAGAACCTTTCTTGAGGAT
66 TTGTTCAACCTTAGTTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCTTTCTTGAAGAT
*
42780 CAACATTTTC
131 CAACATTTCC
*
42790 AGAGGAAGTTCATAATGAGAAGAACTCATCT-AA-ATAGGAAGAAGAAGTTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGA-AGGAAGAAGAAGTTCATAATGAGAAGAA
**
42853 TTTGTTCAACCTT-GCCTTAAATTCATCACATATGAAGCTGAATCAA-CAA-CCCCTCTT-TTGA
65 TTTGTTCAACCTTAG--TTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCT-TTCTTGA
42914 AGATCAACATTTCC
127 AGATCAACATTTCC
* * *
42928 AGAAGCAGTTCATAATGAGAAGAACTCATCTGAAGAATG-AGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
42992 TTGTTCAAC
66 TTGTTCAAC
43001 TTTTTGCTAG
Statistics
Matches: 185, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
138 84 0.45
139 76 0.41
140 25 0.14
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (140 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTAGTTAAATTCATCACATATGAAGCTGAATCAAGCAAGAACCTTTCTTGAAGAT
CAACATTTCC
Found at i:43222 original size:3 final size:3
Alignment explanation
Indices: 43216--43255 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
43206 TATCCATTCG
43216 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
43256 CATTTCAGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:44335 original size:5 final size:5
Alignment explanation
Indices: 44327--44352 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44317 TAGTATTTAA
44327 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
44353 GTCATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:49392 original size:24 final size:25
Alignment explanation
Indices: 49334--49392 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
49324 AAATATAAAC
*
49334 AATTATTAAAATATTTAATAAATTA
1 AATTATTAAAATATATAATAAATTA
*
49359 AA-TATAAAAATACTAT-A-AAATTA
1 AATTATTAAAATA-TATAATAAATTA
49382 AATTATTAAAA
1 AATTATTAAAA
49393 AATTAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTATTAAAATATATAATAAATTA
Found at i:50454 original size:28 final size:28
Alignment explanation
Indices: 50423--50496 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 28
50413 TTTTTTCATC
* *
50423 TAAGTACTTAAAATTTTTTTAGTTGAAA
1 TAAGTACTTAAAATTTTTTTAATTAAAA
*
50451 TAAGTATTTAAATTTAATTTTTTTAATTAAAA
1 TAAGTACTT-AA---AATTTTTTTAATTAAAA
*
50483 TAAGTACCTAAAAT
1 TAAGTACTTAAAAT
50497 ATTTAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
28 11 0.30
29 2 0.05
31 2 0.05
32 22 0.59
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (28 bp):
TAAGTACTTAAAATTTTTTTAATTAAAA
Found at i:51057 original size:27 final size:29
Alignment explanation
Indices: 51027--51083 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
51017 GCGACCTCCT
*
51027 AGGTCGCCATGCGC-C-CGGCGACCAAGG
1 AGGTCGCCATGCACTCGCGGCGACCAAGG
*
51054 AGGTCGCCATGCACTCGGGGCGACCAAGG
1 AGGTCGCCATGCACTCGCGGCGACCAAGG
51083 A
1 A
51084 TTCATGCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 13 0.50
28 1 0.04
29 12 0.46
ACGTcount: A:0.21, C:0.33, G:0.37, T:0.09
Consensus pattern (29 bp):
AGGTCGCCATGCACTCGCGGCGACCAAGG
Found at i:52600 original size:20 final size:20
Alignment explanation
Indices: 52570--52616 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
52560 AAATAATATA
*
52570 TTTTG-GATATTTATTTTAT
1 TTTTGTGATATTTAATTTAT
52589 TTTTGTGATATTTAATTTAT
1 TTTTGTGATATTTAATTTAT
52609 TTTTGTGA
1 TTTTGTGA
52617 AACTTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (20 bp):
TTTTGTGATATTTAATTTAT
Found at i:52623 original size:20 final size:20
Alignment explanation
Indices: 52584--52623 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52574 GGATATTTAT
* *
52584 TTTATTTTTGTGATATTTAA
1 TTTATTTTTGTGAAACTTAA
52604 TTTATTTTTGTGAAACTTAA
1 TTTATTTTTGTGAAACTTAA
52624 ATGTTACGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTATTTTTGTGAAACTTAA
Found at i:54269 original size:21 final size:21
Alignment explanation
Indices: 54254--54295 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
54244 GAACAGTTAA
54254 AAGATTCAATAAAACAATAAC
1 AAGATTCAATAAAACAATAAC
*
54275 AAGATTCAGTAAAACAATAAC
1 AAGATTCAATAAAACAATAAC
54296 TTCAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (21 bp):
AAGATTCAATAAAACAATAAC
Found at i:55325 original size:28 final size:28
Alignment explanation
Indices: 55265--55327 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
55255 TTAATTATTT
* ** *
55265 CTATTATTATATTAGTATTGTTATTATA
1 CTATTATTATATTAGTAGTACTAGTATA
55293 CTATTATTATATTAGTAGTACTAGTATTA
1 CTATTATTATATTAGTAGTACTAGTA-TA
55322 -TATTAT
1 CTATTAT
55328 GTTACTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (28 bp):
CTATTATTATATTAGTAGTACTAGTATA
Found at i:56395 original size:60 final size:58
Alignment explanation
Indices: 56314--56455 Score: 153
Period size: 58 Copynumber: 2.4 Consensus size: 58
56304 TTTGGGGATT
* * * *
56314 AATTTAGAAAGAGGGTCATAGTTTAAGAATGAAGTTAGAATATT-AAAAAATTTAAAGATC
1 AATTTAGAATGAGAGTTATAGTTTAA-AA--AAATTAGAATATTCAAAAAATTTAAAGATC
* * * *
56374 AGTTTAGAATGAGAGTTATAGTTTAAAAAAATTAGATTTTTCAAAAAATTTAAGGATC
1 AATTTAGAATGAGAGTTATAGTTTAAAAAAATTAGAATATTCAAAAAATTTAAAGATC
*
56432 AATTTCA-AATGAGAGTTAGAGTTT
1 AATTT-AGAATGAGAGTTATAGTTT
56456 GAGGATGTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 10 0.14
58 35 0.50
59 3 0.04
60 22 0.31
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (58 bp):
AATTTAGAATGAGAGTTATAGTTTAAAAAAATTAGAATATTCAAAAAATTTAAAGATC
Found at i:56708 original size:30 final size:30
Alignment explanation
Indices: 56672--56733 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
56662 ACTCCTAATT
*
56672 ATCGAAGTCATTAACTGTCAAAATCACTTC
1 ATCGAAGTCATTAACTATCAAAATCACTTC
*
56702 ATCGAAGTCATTAACTATTAAAATCACTTC
1 ATCGAAGTCATTAACTATCAAAATCACTTC
56732 AT
1 AT
56734 GTGTGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (30 bp):
ATCGAAGTCATTAACTATCAAAATCACTTC
Found at i:60460 original size:15 final size:15
Alignment explanation
Indices: 60436--60465 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60426 TTGCAACAAC
*
60436 CTTCATAATATAGAA
1 CTTCAGAATATAGAA
60451 CTTCAGAATATAGAA
1 CTTCAGAATATAGAA
60466 AGAGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (15 bp):
CTTCAGAATATAGAA
Found at i:61623 original size:29 final size:29
Alignment explanation
Indices: 61581--61639 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
61571 AATTTCACCT
61581 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
61610 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
61639 A
1 A
61640 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:66283 original size:29 final size:29
Alignment explanation
Indices: 66241--66299 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
66231 ATTTTCACCT
*
66241 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAACCAATGACATCAA
66270 AACTAAATTGATGTAACCAATGACATCAA
1 AACTAAATTGATGTAACCAATGACATCAA
66299 A
1 A
66300 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAACCAATGACATCAA
Found at i:73233 original size:17 final size:17
Alignment explanation
Indices: 73198--73233 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
73188 TTATGTTTAC
*
73198 CAGTTTCTTTCATTAAA
1 CAGTTTCTTTCATGAAA
*
73215 CAGTTTCTTTCATGCAA
1 CAGTTTCTTTCATGAAA
73232 CA
1 CA
73234 ATTCTTGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (17 bp):
CAGTTTCTTTCATGAAA
Found at i:75284 original size:67 final size:67
Alignment explanation
Indices: 75200--75338 Score: 208
Period size: 67 Copynumber: 2.1 Consensus size: 67
75190 TAGTTAAGTT
* * * *
75200 TTTAACGACGAGGTACTAAAATAAAATAAAAACTAAACATTA-GTTATGGTTTTGAAAGAATTGA
1 TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATG-TATGATTTTGAAAAAATTGA
75264 AAG
65 AAG
* *
75267 TTTAATGACAAGGTACTAAAATGAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
1 TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
75332 AG
66 AG
75334 TTTAA
1 TTTAA
75339 GTATTAAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 64 0.98
68 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.29
Consensus pattern (67 bp):
TTTAACGACAAGGTACTAAAATAAAACAAAAACTAAACATTATGTATGATTTTGAAAAAATTGAA
AG
Found at i:78748 original size:108 final size:108
Alignment explanation
Indices: 78554--78771 Score: 251
Period size: 108 Copynumber: 2.0 Consensus size: 108
78544 ATATATATAT
* * * *
78554 TAATTTATATATATTTATAAATAAAATATTTTTTTATTTAGAAATATCAGAAAATGACTTATAGG
1 TAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATACAGG
* * *
78619 TGCCTTAAGACAACTATTTTCTTTGATATTAAAAAATAAATAAA
66 TACCTTAAGACAACTACTTTC-TTAATATTAAAAAATAAATAAA
** *
78663 TAATTTATATA-ATTTATAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAG
1 TAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATACAG
* ** ** * *
78727 TTATTTTAAGACTGC-CCTTTCTTAATATTGAAAAATAAATAAA
65 GTACCTTAAGACAACTACTTTCTTAATATTAAAAAATAAATAAA
78770 TA
1 TA
78772 TTAAAACATG
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 22 0.24
108 43 0.47
109 26 0.29
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.40
Consensus pattern (108 bp):
TAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATACAGG
TACCTTAAGACAACTACTTTCTTAATATTAAAAAATAAATAAA
Found at i:78864 original size:18 final size:16
Alignment explanation
Indices: 78828--78866 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
78818 ATAAATAAAA
*
78828 AAATATTATTTATTAT
1 AAATATTATTTATAAT
78844 AAATATATATTTATAACT
1 AAATAT-TATTTATAA-T
78862 AAATA
1 AAATA
78867 ATAATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 8 0.40
18 6 0.30
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATTATTTATAAT
Found at i:80309 original size:3 final size:3
Alignment explanation
Indices: 80301--80355 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
80291 GGCCTGTTTG
**
80301 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA
*
80347 TAA CAA TAA
1 TAA TAA TAA
80356 ATAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:80344 original size:25 final size:24
Alignment explanation
Indices: 80318--80365 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
80308 AATAATTTTA
80318 ATAATAATAAAT-AATAAATAAAATA
1 ATAATAA-AAATAAATAAA-AAAATA
*
80343 ATAATAACAATAAATAAAAAAAT
1 ATAATAAAAATAAATAAAAAAAT
80366 GGGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
ATAATAAAAATAAATAAAAAAATA
Found at i:80362 original size:22 final size:22
Alignment explanation
Indices: 80317--80361 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
80307 TAATAATTTT
*
80317 AATAATAATAAATAATAAATAA
1 AATAATAATAAACAATAAATAA
80339 AATAATAAT-AACAATAAATAA
1 AATAATAATAAACAATAAATAA
80360 AA
1 AA
80362 AAATGGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAATAATAAACAATAAATAA
Found at i:80877 original size:113 final size:112
Alignment explanation
Indices: 80660--81456 Score: 1215
Period size: 113 Copynumber: 7.1 Consensus size: 112
80650 ATCTCCTTCT
*
80660 ATGATAGAA-TCATGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 ATGAT-GAATTCAAGCAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * * *
80724 GATGAGTTCTTTTCATTATGAACTC-TCTCTGGAAAAGTTGATCCATCGA
64 GATGAGTTCTTCTCATTATGAACTCGAC-CTGGCAATGCTGATCCATCGA
* ** * * *
80773 GTGATGAATTTGAGCAAACAGTTGAACAAGTTCTTCGCATTATGAACTTCTTCTTCTTTCTTTAG
1 ATGATGAATTCAAGCAAA-AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
80838 ATGAGTTCTTCTCATTATGAACTC-ACCCTGGCAATGTTGATCCATTGA
65 ATGAGTTCTTCTCATTATGAACTCGA-CCTGGCAATGCTGATCCATCGA
*
80886 ATGATAAATTCAAGCGAAAAGTTGAACACA-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 ATGATGAATTCAAGC-AAAAGTTGAACA-AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
80950 GATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
64 GATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
*
80999 ATGATGAATTCAAGTGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAAG-CAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
81064 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
65 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
81112 ATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAAGC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
81177 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
65 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
* * *
81225 ATGATGAATTCAAGTGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTAG
1 ATGATGAATTCAAG-CAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
81290 ATGAGTTATTCTCATTATGAACTCGCCCGGGCAATGCTGATCCATTGA
65 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
*
81338 ATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAAGC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
81403 ATGAGTTCTTCTCATTATGAACTCGACCTAGTAATGTTGATCCATTGA
65 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
81451 ATGATG
1 ATGATG
81457 GATTTGAACT
Statistics
Matches: 631, Mismatches: 42, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
112 4 0.01
113 619 0.98
114 8 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (112 bp):
ATGATGAATTCAAGCAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGA
Found at i:81888 original size:22 final size:22
Alignment explanation
Indices: 81863--81917 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
81853 GATAAAGCTT
*
81863 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
81885 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
81907 TCATCTTTGAA
1 TCATCTTTGAA
81918 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:82365 original size:54 final size:54
Alignment explanation
Indices: 82283--82436 Score: 254
Period size: 54 Copynumber: 2.9 Consensus size: 54
82273 TCAGAATAGC
* * *
82283 ATGTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAG
82337 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAG
* * *
82391 ACGTTCGTAAAGCATTTGACAACACATTCATCTTTTTCTGTGGCTT
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTT
82437 TTGCCAAGAT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
ATGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAG
Found at i:84902 original size:114 final size:114
Alignment explanation
Indices: 84337--84898 Score: 849
Period size: 114 Copynumber: 4.9 Consensus size: 114
84327 GATCATGCAG
* * * *
84337 TTCATCTTTCAATTTCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
* *
84402 ACATTTCCAAAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * * * *
84451 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATATCAAACCAGATTAGATAACTCAAATA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
*
84516 ACACTTCCAGAAGATGCTATTGGGTCTTTTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * *
84565 TTCATCTTTTAAATCTAATGATTGGTTTTAGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
*
84630 ACACTTCCAGAAGATGCTATTGGGGC-TCTTTATTTCTACTATGAG-AACA
66 ACACTTCCAGAAGATGCTATTGGGTCTTC-TTATTTCTACTATGAGCAA-A
* *
84679 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTAAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
* * *
84744 ACATTTCCAAAAGATGCTATTGGGTCTTCTTATTTCTACTACGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * * *
84793 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACAAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
* *
84858 ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
84899 CGAGAACATG
Statistics
Matches: 407, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
113 3 0.01
114 400 0.98
115 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:87011 original size:8 final size:8
Alignment explanation
Indices: 86972--87013 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
86962 ATTTCTCCCC
86972 TTTTTC-T
1 TTTTTCTT
*
86979 TTTTCCTTT
1 TTTTTC-TT
86988 TTTTTCATT
1 TTTTTC-TT
86997 TTTTTCTT
1 TTTTTCTT
87005 TTTTTCTT
1 TTTTTCTT
87013 T
1 T
87014 CTTTGCTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 5 0.17
8 11 0.37
9 14 0.47
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:87027 original size:27 final size:26
Alignment explanation
Indices: 86997--87050 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 26
86987 TTTTTTCATT
86997 TTTTTCTTTTTTTCTTTCTTTGCTGGA
1 TTTTTC-TTTTTTCTTTCTTTGCTGGA
87024 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
87050 T
1 T
87051 GAGTATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:90702 original size:14 final size:14
Alignment explanation
Indices: 90648--90702 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
90638 AAAGCAAACA
* *
90648 TAAAAATACAAATA
1 TAAAAATGCAAATG
* *
90662 CAAAGATGCAAATG
1 TAAAAATGCAAATG
*
90676 TAAATATGCAAATG
1 TAAAAATGCAAATG
*
90690 TAAAAATGTAAAT
1 TAAAAATGCAAAT
90703 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (14 bp):
TAAAAATGCAAATG
Found at i:92384 original size:18 final size:18
Alignment explanation
Indices: 92361--92401 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
92351 ATACCTGAAT
*
92361 AAAATAAAAAATAATATA
1 AAAATAAAAAATAATAAA
* *
92379 AAAATAATAAGTAATAAA
1 AAAATAAAAAATAATAAA
92397 AAAAT
1 AAAAT
92402 TTGAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATAAAAAATAATAAA
Found at i:93107 original size:108 final size:108
Alignment explanation
Indices: 92899--93130 Score: 272
Period size: 108 Copynumber: 2.1 Consensus size: 108
92889 TATAATTATG
* * * *
92899 AAAAATATATATATTAATTTATATATATTTATAAATAAAATATTTTTTTATTTAGAAATATCAGA
1 AAAAATAAATA-AATAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGA
* * * * *
92964 AAAGGACTTCTAGGTGCCTTAAGACAGCTCTTTTCTT-TGATATTA
65 AAAGGACATCCAGATACCTTAAGACAGCTCCTTTCTTAT--TATTA
**
93009 AAAAATAAATAAATAATTTATATA-ATTTATAAATAGGATATTTATTTATTTAAAAATATCAGAA
1 AAAAATAAATAAATAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAA
** * *
93073 AATGGACATCCAGATATTTTAAGACTGC-CCTTTCTTATTATTG
66 AA-GGACATCCAGATACCTTAAGACAGCTCCTTTCTTATTATTA
93116 AAAAATAAATAAATA
1 AAAAATAAATAAATA
93131 TTAAAACATG
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
107 19 0.18
108 45 0.43
109 31 0.30
110 10 0.10
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (108 bp):
AAAAATAAATAAATAATTTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAA
AAGGACATCCAGATACCTTAAGACAGCTCCTTTCTTATTATTA
Found at i:93198 original size:24 final size:23
Alignment explanation
Indices: 93171--93268 Score: 58
Period size: 25 Copynumber: 4.1 Consensus size: 23
93161 ATTAAAAAAG
93171 ATTTTAATAAATAAAATAAATAT
1 ATTTTAATAAATAAAATAAATAT
* * *
93194 -TATTTATTATAT-AAATATATAT
1 AT-TTTAATAAATAAAATAAATAT
93216 ATTTATAACTAAATAATAAT-AATAAT
1 ATTT-TAA-TAAATAA-AATAAAT-AT
** *
93242 AGTAATAATAATTAAAAGTAAATAT
1 A-TTTTAATAAATAAAA-TAAATAT
93267 AT
1 AT
93269 AAAATTAACA
Statistics
Matches: 56, Mismatches: 9, Indels: 19
0.67 0.11 0.23
Matches are distributed among these distances:
22 12 0.21
23 11 0.20
24 7 0.12
25 13 0.23
26 12 0.21
27 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTTTAATAAATAAAATAAATAT
Found at i:94711 original size:3 final size:3
Alignment explanation
Indices: 94703--94758 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
94693 TGGCCTGTTT
* *
94703 ATA ATA ATA ATA ATT TTA ATA ATA ATAA ATA ATAA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA
*
94749 ATA ACA ATA A
1 ATA ATA ATA A
94759 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94736 original size:22 final size:22
Alignment explanation
Indices: 94703--94764 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
94693 TGGCCTGTTT
* **
94703 ATAAT-AATAATAATTTTAATA
1 ATAATAAATAATAAATAAAATA
94724 ATAATAAATAATAAATAAAATA
1 ATAATAAATAATAAATAAAATA
*
94746 ATAAT-AACAATAAATAAAA
1 ATAATAAATAATAAATAAAA
94765 AAATGGGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATAAATAATAAATAAAATA
Found at i:94747 original size:25 final size:24
Alignment explanation
Indices: 94721--94768 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
94711 AATAATTTTA
94721 ATAATAATAAAT-AATAAATAAAATA
1 ATAATAA-AAATAAATAAA-AAAATA
*
94746 ATAATAACAATAAATAAAAAAAT
1 ATAATAAAAATAAATAAAAAAAT
94769 GGGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
ATAATAAAAATAAATAAAAAAATA
Found at i:98561 original size:43 final size:44
Alignment explanation
Indices: 98314--98563 Score: 210
Period size: 43 Copynumber: 5.8 Consensus size: 44
98304 CCACAATAGG
* **
98314 TCAAGATCTATAGCGGTATTTTTGGA-ACAAATGCCGCAAAA-A
1 TCAAGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
* ** ** *
98356 GTCAATATCTATAGCGGCATTTTCAGA-ACAAACGTCGCAAAAGG
1 -TCAAGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
* * ** * * *
98400 T-AGATATATATAGCAAC-GTTTTCGAT-CAAACACCGCAAAAGG
1 TCA-AGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
* * * * * * *
98442 TCAATATCTATAGCGACGTTTTT-GTTACAAACGCCGTAAAAAA
1 TCAAGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
*
98485 TCAAGATCTATAGCGGCATTTTTTGATACAAACACCGCAAAAGA
1 TCAAGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
98529 TC-AGATCTATAGCGGCATTTTTGGATACAAACACC
1 TCAAGATCTATAGCGGCATTTTTGGATACAAACACC
98564 ACTAATTACC
Statistics
Matches: 169, Mismatches: 31, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
42 35 0.21
43 116 0.69
44 18 0.11
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (44 bp):
TCAAGATCTATAGCGGCATTTTTGGATACAAACACCGCAAAAGA
Found at i:103433 original size:39 final size:41
Alignment explanation
Indices: 103216--103491 Score: 204
Period size: 41 Copynumber: 6.8 Consensus size: 41
103206 AAAAAATAGC
* *
103216 AGTACGA-TACTATAGCGGCGTTTGTATAAAAACGCCACTAG
1 AGTACGAGT-CTATAGCGACGTTTGTATAAAAACGCCACTAA
* * * * **
103257 AGTATGAGTTTATAACAGA-GTTTATATAAAAATACCACTAA
1 AGTACGAGTCTATAGC-GACGTTTGTATAAAAACGCCACTAA
* ** * * * *
103298 AGTATGAGTCTATAGCGGTGTTTATATAAAAACGTCATTAT
1 AGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAA
* ** ** * * * *
103339 A-TATGAACCATATTATTG-CATTTTTATATAAACGCCACTAC
1 AGTACGAGTC-TA-TAGCGACGTTTGTATAAAAACGCCACTAA
* * *
103380 AGTACGAGTATATAGCGACGTTT-T-TACAAACGCCGCTAA
1 AGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAA
** *
103419 AGTTTGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAA
1 AGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAA
103460 AGTACGAGTCTATAGCGACGTTTGTATAAAAA
1 AGTACGAGTCTATAGCGACGTTTGTATAAAAA
103492 TGCTACTATA
Statistics
Matches: 180, Mismatches: 46, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
39 31 0.17
40 12 0.07
41 128 0.71
42 9 0.05
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (41 bp):
AGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAA
Found at i:103509 original size:162 final size:164
Alignment explanation
Indices: 103215--103509 Score: 373
Period size: 162 Copynumber: 1.8 Consensus size: 164
103205 GAAAAAATAG
* * *
103215 CAGTACGATACTATAGCGGCGTTTGTATAAAAACGCCACTAGAGTATGAGTTTATAACAGAGTTT
1 CAGTACGATACTATAGCGACGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAACAGAGTTT
* * ** * *
103280 ATATAAAAATACCACTAAAGTATGAGTCTATAGCGGTGTTTATATAAAAACGTCATTATATATGA
66 ATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGTCACTATAGATGA
103345 ACCATATTATTGCATTTTTATATAAACGCCACTA
131 ACCATATTATTGCATTTTTATATAAACGCCACTA
* * * * * *
103379 CAGTACGAGTA-TATAGCGACGTTT-T-TACAAACGCCGCTAAAGTTTGAGTCTATAGCGGCGTT
1 CAGTACGA-TACTATAGCGACGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAACAGAGTT
* * * *
103441 TGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAATG-CTACTATAGAT
65 TATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGTC-ACTATAGAT
103505 GAACC
129 GAACC
103510 CTAGTACGGT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
161 1 0.01
162 86 0.78
163 1 0.01
164 20 0.18
165 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (164 bp):
CAGTACGATACTATAGCGACGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAACAGAGTTT
ATATAAAAACACCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGTCACTATAGATGA
ACCATATTATTGCATTTTTATATAAACGCCACTA
Found at i:108388 original size:18 final size:20
Alignment explanation
Indices: 108350--108410 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 20
108340 AAAATTAATC
*
108350 AAATAATATATATTAAAATA
1 AAATAATATATACTAAAATA
108370 AAATAATA-ATACT-AAATA
1 AAATAATATATACTAAAATA
108388 AAAT-AT-TATA-TAAAATTA
1 AAATAATATATACTAAAA-TA
108406 AAATA
1 AAATA
108411 TATTTAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 15 0.42
19 4 0.11
20 8 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATATATACTAAAATA
Found at i:109269 original size:13 final size:13
Alignment explanation
Indices: 109251--109288 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
109241 TGGGTTCGTG
109251 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
*
109264 GCTCGTCTATGTT
1 GCTCGTCTCTGTT
109277 GCTCGTCTCTGT
1 GCTCGTCTCTGT
109289 GTATCTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.03, C:0.29, G:0.24, T:0.45
Consensus pattern (13 bp):
GCTCGTCTCTGTT
Found at i:109749 original size:3 final size:3
Alignment explanation
Indices: 109741--109820 Score: 74
Period size: 3 Copynumber: 26.7 Consensus size: 3
109731 TTTTATTTTA
* * *
109741 AAT AAT AAT ATTT AAT AAT -AT ATT AAT AAT AAT -AT ATAT AAT ATT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
** *
109786 AAT AAT AAT AAT AAT TTT AAT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
109821 AACGAAATGA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
2 4 0.07
3 52 0.85
4 5 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:109768 original size:21 final size:20
Alignment explanation
Indices: 109743--109819 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
109733 TTATTTTAAA
*
109743 TAATAATATTTAATAATATAT
1 TAATAATA-ATAATAATATAT
109764 TAATAATAAT-ATATATAATAT
1 TAATAATAATAATA-AT-ATAT
109785 TAATAATAATAATAAT-T-T
1 TAATAATAATAATAATATAT
*
109803 TAATAATAAAAATAATA
1 TAATAATAATAATAATA
109820 AAACGAAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
18 16 0.32
19 4 0.08
20 3 0.06
21 24 0.48
22 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAATAATAATAATATAT
Found at i:109816 original size:24 final size:25
Alignment explanation
Indices: 109741--109820 Score: 101
Period size: 24 Copynumber: 3.2 Consensus size: 25
109731 TTTTATTTTA
109741 AATAATAATATTTAATAATATATTAAT
1 AATAATAATATTTAATAATA-A-TAAT
* *
109768 AATAAT-ATATATAATATTAATAAT
1 AATAATAATATTTAATAATAATAAT
*
109792 AATAATAAT-TTTAATAATAAAAAT
1 AATAATAATATTTAATAATAATAAT
109816 AATAA
1 AATAA
109821 AACGAAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 27 0.57
25 3 0.06
26 11 0.23
27 6 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAATAATATTTAATAATAATAAT
Found at i:110078 original size:76 final size:76
Alignment explanation
Indices: 109952--110310 Score: 490
Period size: 76 Copynumber: 4.7 Consensus size: 76
109942 GAAATATTGA
* *
109952 AAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAAACTCCCGA
110017 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
110028 AAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAAACTCCCGA
110093 AGGCTTTTTGG
66 AGGCTTTTTGG
*
110104 AAACATCATGCACTGCAGGACTTACAGATGACCTTGAGGGTTTGAAAACATCAAAAAGA-TCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAA-ACTCCCG
*
110168 AAGGCTTCTTGG
65 AAGGCTTTTTGG
* * * * * *
110180 AAAACATCATGCACTGAAGGGCTTACAGATGACCC-GAAGGTTTTGAAAATATCCAAAAAGCTCT
1 -AAACATCATGCACTGCAGGACTTACAGATGACCCTG-AGGGTTTGAAAACAT-CAAAAAACTCC
* *
110244 TGAAGGCTTTTTGA
63 CGAAGGCTTTTTGG
* * * *
110258 AAACATCCTGCACTGCAGGGCTTACGGATGACCC-GAAGGCTTTGAAAACATCA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTG-AGGGTTTGAAAACATCA
110311 TGCACTGAAG
Statistics
Matches: 255, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
76 146 0.57
77 90 0.35
78 19 0.07
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAAACTCCCGA
AGGCTTTTTGG
Found at i:110315 original size:45 final size:44
Alignment explanation
Indices: 110253--110354 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 44
110243 TTGAAGGCTT
* * *
110253 TTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
110297 CTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 -TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
110342 TTTAAAAACATCA
1 TTTGAAAACATCA
110355 AAAAGCTCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 12 0.23
45 41 0.77
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (44 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:110326 original size:122 final size:121
Alignment explanation
Indices: 110164--110430 Score: 394
Period size: 121 Copynumber: 2.2 Consensus size: 121
110154 TCAAAAAGAT
*
110164 CCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGC-T-TT-GAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTAAAAA
* ** * * * *
110229 TATCCAAAAAGCTCTTGAAGGCTTTTT-GAAAACATCCTGCACTGCAGGGCTTACGGATGA
62 CAT-CAAAAAGCTCCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGA
110289 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTAAAAACATC
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTAAAAACATC
110354 AAAAAGCTCCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGA
66 AAAAAGCTCCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
110410 CCCGAAGG-TTTTAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
110431 AAAAGCTCCC
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
120 32 0.24
121 47 0.36
122 41 0.31
123 2 0.02
124 1 0.01
125 9 0.07
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (121 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTAAAAACATC
AAAAAGCTCCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:110389 original size:76 final size:77
Alignment explanation
Indices: 110289--110659 Score: 594
Period size: 76 Copynumber: 4.9 Consensus size: 77
110279 TTACGGATGA
*
110289 CCCGAAGGC--TTT-GAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTAAAAA
1 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
110350 CATCAAAAAGCT
66 CATCAAAAAGCT
* *
110362 CCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTAAAA
1 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
110426 CATCAAAAAGCT
66 CATCAAAAAGCT
*
110438 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAA
1 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
110502 CATCAAAAAGCT
66 CATCAAAAAGCT
*
110514 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
*
110579 TATCAAAAAGCT
66 CATCAAAAAGCT
** * * *
110591 CTTGAAGGCTTTTT-GAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGCTTTGAAAA
1 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
110655 CATCA
66 CATCA
110660 TGCACTGAAG
Statistics
Matches: 279, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
73 8 0.03
75 3 0.01
76 238 0.85
77 30 0.11
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (77 bp):
CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
CATCAAAAAGCT
Found at i:110664 original size:45 final size:44
Alignment explanation
Indices: 110602--110703 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 44
110592 TTGAAGGCTT
* * *
110602 TTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
110646 CTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGG
1 -TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
110691 TTTGAAAACATCA
1 TTTGAAAACATCA
110704 AAAAGCTCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 13 0.25
45 40 0.75
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:110672 original size:273 final size:270
Alignment explanation
Indices: 110072--110830 Score: 890
Period size: 273 Copynumber: 2.8 Consensus size: 270
110062 TGAGGTTTTG
* * * *
110072 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGCACCCGAAGGC--TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
* * * * *
110137 TTGAGGGTTTGAAAACATCAAAAAGATCCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGC
64 -CGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGAC
* * ** *
110202 TTACAGATGACCCGAAGGTTTTGAAAATATCCAAAAAGCTCTTGAAGGCTTTTT-GAAAACATCC
128 TTACAGATGACCCGAAGGCTTTGAAAACAT-CAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCA
* * *
110266 TGCACTGCAGGGCTTACGGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGA
192 TGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAGCACTGAAGGGCTTACAGA
** * *
110331 TGACCCGAAGGTTTA
257 AAACCCGAA-GCTGA
* *
110346 AAAACATCAAAAAGCTCCCGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 AAAACATCAAAAAGCACCCGAAGG--CTTT-GAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
110411 CCGAAGGTTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGAC
63 CCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGAC
110476 TTACAGATGACCCGAAGGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCAT
128 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCAT
* * * **
110540 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCTTGAA-GGCTTTT
193 GCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATC---AAGCAC-TGAAGGGCTTAC
* * *
110604 TGAAAACATCCTGCA-CTGC
254 AGAAAAC--CC-GAAGCTGA
*** * ** * *
110623 AGGGC-TTACGGATG-ACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCC
1 AAAACATCA-AAAAGCACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
* *
110686 GAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG-AAACATCATGCACT-ACAAGACT
65 GAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGA-AGGACT
110749 TACAGATGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG-AAACATCAT
129 TACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCAT
* *
110812 GCACTGTAGGACTTACAGA
193 GCACTGAAGGGCTTACAGA
110831 CGTGGGAAAT
Statistics
Matches: 425, Mismatches: 45, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
271 1 0.00
272 85 0.20
273 162 0.38
274 109 0.26
275 32 0.08
276 23 0.05
277 9 0.02
278 2 0.00
279 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (270 bp):
AAAACATCAAAAAGCACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG
AAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTA
CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCA
CTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAGCACTGAAGGGCTTACAGAAAAC
CCGAAGCTGA
Found at i:110726 original size:349 final size:349
Alignment explanation
Indices: 109948--110830 Score: 1497
Period size: 349 Copynumber: 2.5 Consensus size: 349
109938 AATGGAAATA
* * * *
109948 TTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGGTTTGAAAACATCAAAAAACTC
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-GAAGGTTTGAAAACATCAAAAAGCTC
*
110013 CCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTGAGGTTTTGAAAACA
65 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGTTTT-AAAACA
* *
110078 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCTTGAGG
129 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTCGAGG
*
110143 GTTTGAAAACATCAAAAAGATCCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGCTTACAG
194 CTTTGAAAACATCAAAAAGATCCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGCTTACAG
110208 ATGACCCGAAGGTTTTGAAAATATCCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCACTG
259 ATGACCCGAAGGTTTTGAAAATATCCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCACTG
110273 CAGGGCTTACGGATGACCCGAAGGCT
324 CAGGGCTTACGGATGACCCGAAGGCT
*
110299 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTAAAAACATCAAAAAGCTCC
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
* *
110364 CGAAGGATTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-GAAGGTTTTAAAACA
66 CGAAGGCTTTTTGG-AAACATCATGCACTGAAGGACTTACAGATGACCCTG-AGGTTTTAAAACA
110428 TCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACC-CGAA
129 TCAAAAAGCTCCCGAAGGCTTTTTGG-AAACATCATGCACTGAAGGACTTACAGATGACCTCG-A
* *
110492 GGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTAC
192 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGCTTAC
110556 AGATGACCCGAAGGTTTTGAAAATAT-CAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCAC
257 AGATGACCCGAAGGTTTTGAAAATATCCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCAC
110620 TGCAGGGCTTACGGATGACCCGAAGGCT
322 TGCAGGGCTTACGGATGACCCGAAGGCT
*
110648 TTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
* * *
110713 CAAAGGCTTTTTGGAAACATCATGCACT-ACAAGACTTACAGATGACCCTGAGGCTTTGAAAACA
66 CGAAGGCTTTTTGGAAACATCATGCACTGA-AGGACTTACAGATGACCCTGAGG-TTTTAAAACA
*
110777 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
129 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
110831 CGTGGGAAAT
Statistics
Matches: 504, Mismatches: 21, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
347 1 0.00
348 60 0.12
349 177 0.35
350 153 0.30
351 113 0.22
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (349 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGTTTTAAAACATC
AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTCGAGGCT
TTGAAAACATCAAAAAGATCCCGAAGGCTTCTTGGAAAACATCATGCACTGAAGGGCTTACAGAT
GACCCGAAGGTTTTGAAAATATCCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCACTGCA
GGGCTTACGGATGACCCGAAGGCT
Found at i:110739 original size:75 final size:76
Alignment explanation
Indices: 110647--110830 Score: 275
Period size: 76 Copynumber: 2.4 Consensus size: 76
110637 ACCCGAAGGC
* * *
110647 TTTGAAAACATCATGCACTGAAGGGCTTACATATGACCC-GAAGG-TTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTG-AGGCTTTGAAAACATCAAAAAGC
110710 TCCCAAAGGCTT
65 TCCCAAAGGCTT
*
110722 TTTGGAAACATCATGCACT-ACAAGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGA-AGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGC
*
110786 TCCCGAAGGCTT
65 TCCCAAAGGCTT
*
110798 TTTGGAAACATCATGCACTGTAGGACTTACAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGA
110831 CGTGGGAAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.01
75 36 0.37
76 61 0.62
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCT
CCCAAAGGCTT
Found at i:110751 original size:120 final size:121
Alignment explanation
Indices: 110514--110779 Score: 383
Period size: 120 Copynumber: 2.2 Consensus size: 121
110504 TCAAAAAGCT
110514 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGC--TTT-GAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *** * * * * *
110579 TATCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGA
63 CATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCATGCACTACAAGACTTACAGATGA
*
110638 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGG-TTTGAAAACAT
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
*
110702 CAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTACAAGACTTACAGATGA
66 CAAAAAGCTCCCAAAGGCTTTTTGAAAACATCATGCACTACAAGACTTACAGATGA
110758 CCCTG-AGGCTTTGAAAACATCA
1 CCC-GAAGGCTTTGAAAACATCA
110780 AAAAGCTCCC
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
120 77 0.59
121 41 0.32
122 3 0.02
124 9 0.07
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (121 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCTCCCAAAGGCTTTTTGAAAACATCATGCACTACAAGACTTACAGATGA
Found at i:110809 original size:196 final size:199
Alignment explanation
Indices: 110438--110827 Score: 585
Period size: 196 Copynumber: 2.0 Consensus size: 199
110428 TCAAAAAGCT
110438 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAC
1 CCCGAAGGC-TTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAC
* * *
110503 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
65 ATCAAAAAGCTCCCAAAGGCTTTTTGGAAAACATCATGCACTGAAAGACTTACAGATGACCCGAA
* * ** * *
110568 GGTTTTGAAAATATCAAAAAGCTCTTGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACG
130 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACG
110633 GATGA
195 GATGA
* *
110638 CCCGAAGGC-TTT-GAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAAC
110700 ATCAAAAAGCTCCCAAAGGCTTTTTGG-AAACATCATGCACT-ACAAGACTTACAGATGACCCTG
65 ATCAAAAAGCTCCCAAAGGCTTTTTGGAAAACATCATGCACTGA-AAGACTTACAGATGACCC-G
* *
110763 -AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
128 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTA
110827 C
193 C
110828 AGACGTGGGA
Statistics
Matches: 174, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
195 1 0.01
196 90 0.52
197 71 0.41
198 3 0.02
200 9 0.05
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (199 bp):
CCCGAAGGCTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACA
TCAAAAAGCTCCCAAAGGCTTTTTGGAAAACATCATGCACTGAAAGACTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACGG
ATGA
Found at i:111534 original size:22 final size:22
Alignment explanation
Indices: 111509--111563 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
111499 CATAAAGTTT
* *
111509 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
*
111531 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
111553 TCATCTTTGAA
1 TCATCTTTGAA
111564 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:114372 original size:114 final size:114
Alignment explanation
Indices: 114172--114602 Score: 738
Period size: 114 Copynumber: 3.8 Consensus size: 114
114162 GATCATGCAG
* * * * * *
114172 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
114237 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
* * *
114286 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATGACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
114351 ACACTTCCAAAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
*
114400 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
114465 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
* *
114514 TTCATCTTTCAAATCCAATGATTAATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
114579 ACACTTCCAGAAGATGCTA-TGAGC
66 ACACTTCCAGAAGATGCTATTGAGC
114603 ACATTCATCT
Statistics
Matches: 305, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 5 0.02
114 300 0.98
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
Found at i:114670 original size:93 final size:92
Alignment explanation
Indices: 114505--114784 Score: 436
Period size: 93 Copynumber: 3.0 Consensus size: 92
114495 TATTTCTACC
* * * * * *
114505 ATGAGCAAATTCATCTTTCAAATCCAATGATTAATTT-TGGAGTTCATACCAAATCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTTGTGG-TTTCATACCAAACCAGATCAGAT
*
114569 AATTCAAAGAACACTTCCAGAAGATGCT
65 AACTCAAAGAACACTTCCAGAAGATGCT
114597 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATT-TGTGGTTTCATACCAAACCAGATCAGAT
*
114662 AACTCAAAGAACACTTCCAAAAGATGCT
65 AACTCAAAGAACACTTCCAGAAGATGCT
*
114690 ATGAGCACATTCATCTTCCAAATTCAATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATT-TGTGGTTTCATACCAAACCAGATCAGAT
*
114755 AACTCAAAGAACACTTCCAGAAGATACT
65 AACTCAAAGAACACTTCCAGAAGATGCT
114783 AT
1 AT
114785 TGGGTCTTCT
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
92 32 0.18
93 139 0.80
94 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (92 bp):
ATGAGCACATTCATCTTCCAAATTCAATGATTGATTTGTGGTTTCATACCAAACCAGATCAGATA
ACTCAAAGAACACTTCCAGAAGATGCT
Found at i:116903 original size:16 final size:15
Alignment explanation
Indices: 116882--116913 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
116872 TCAATTTTCC
116882 TTTTTCTTCTTCTCTT
1 TTTTTCTTCTT-TCTT
116898 TTTTTCTTCTTTCTT
1 TTTTTCTTCTTTCTT
116913 T
1 T
116914 GTTGGATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTCTTTCTT
Found at i:122348 original size:11 final size:11
Alignment explanation
Indices: 122273--122361 Score: 55
Period size: 11 Copynumber: 8.2 Consensus size: 11
122263 TTAATCAAAT
122273 AATATATATTAA
1 AATATA-ATTAA
*
122285 AATA-AAATAA
1 AATATAATTAA
122295 TAATACTAATTAA
1 -AATA-TAATTAA
122308 AATAT--TT-A
1 AATATAATTAA
* *
122316 TATAAAATTAA
1 AATATAATTAA
*
122327 AATATATTTAA
1 AATATAATTAA
122338 ACA-ATAATTAA
1 A-ATATAATTAA
122349 AAT-TAAATTAA
1 AATAT-AATTAA
122360 AA
1 AA
122362 CTAAATATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.07
9 2 0.03
10 8 0.13
11 32 0.53
12 9 0.15
13 5 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAATTAA
Found at i:123185 original size:13 final size:13
Alignment explanation
Indices: 123167--123204 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
123157 TGGGTTCGTG
123167 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
*
123180 GCTCGTCTATGTT
1 GCTCGTCTCTGTT
123193 GCTCGTCTCTGT
1 GCTCGTCTCTGT
123205 GTATCTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.03, C:0.29, G:0.24, T:0.45
Consensus pattern (13 bp):
GCTCGTCTCTGTT
Found at i:123663 original size:3 final size:3
Alignment explanation
Indices: 123657--123737 Score: 74
Period size: 3 Copynumber: 26.7 Consensus size: 3
123647 TTTTATTTTA
* * * *
123657 AAT AAT AAT ATTT AAT AAT ATT ATT AAT AAT AAT -AT ATAT AAT ATT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
** *
123703 AAT AAT AAT AAT AAT TTT AAT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
123738 AACGAAATGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.03
3 56 0.89
4 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:124593 original size:28 final size:28
Alignment explanation
Indices: 124553--124614 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
124543 GTTAGCTTTA
124553 ATATATGGTTGGTTCTACCAC-ATAAATG
1 ATATATGGTTGGTTCTACCACTA-AAATG
124581 ATATATGGTTGGTTCTACCACTAAAATG
1 ATATATGGTTGGTTCTACCACTAAAATG
124609 ATATAT
1 ATATAT
124615 AATCGATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (28 bp):
ATATATGGTTGGTTCTACCACTAAAATG
Found at i:124624 original size:28 final size:28
Alignment explanation
Indices: 124565--124647 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
124555 ATATGGTTGG
** * *
124565 TTCTACCAC-ATAAATGATATATGGTTGG
1 TTCTACCACTA-AAATGATATATAATCGA
124593 TTCTACCACTAAAATGATATATAATCGA
1 TTCTACCACTAAAATGATATATAATCGA
*
124621 TTCTATCGC-CT-AAATGATATATTATCG
1 TTCTA-C-CACTAAAATGATATATAATCG
124648 GCACTACCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 42 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (28 bp):
TTCTACCACTAAAATGATATATAATCGA
Found at i:129033 original size:2 final size:2
Alignment explanation
Indices: 129026--129060 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
129016 ACCAAAAGAA
129026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129061 AGAGAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:135244 original size:24 final size:24
Alignment explanation
Indices: 135217--135268 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
135207 TAGTTTTATA
*
135217 GTTTTTCGAGTTATTTATAAGTTT
1 GTTTGTCGAGTTATTTATAAGTTT
*
135241 GTTTGTCGATTTATTTATAAGTTT
1 GTTTGTCGAGTTATTTATAAGTTT
135265 GTTT
1 GTTT
135269 ATGATATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.60
Consensus pattern (24 bp):
GTTTGTCGAGTTATTTATAAGTTT
Found at i:136439 original size:36 final size:36
Alignment explanation
Indices: 136379--136450 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
136369 TTTGGCAGAC
*
136379 AAACGCCGCAATAGTCGTTGATTTTTAGCGGCGTTT
1 AAACGCCGCAATAGTCGTTGATTTTTACCGGCGTTT
* *
136415 AAACGCCGCAGTAGAT-GTTTATTTTTACCGGCGTTT
1 AAACGCCGCAATAG-TCGTTGATTTTTACCGGCGTTT
136451 TCCTACAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (36 bp):
AAACGCCGCAATAGTCGTTGATTTTTACCGGCGTTT
Found at i:136912 original size:21 final size:21
Alignment explanation
Indices: 136848--136943 Score: 93
Period size: 21 Copynumber: 4.6 Consensus size: 21
136838 TGATATATTA
* *
136848 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTGCCGCTG
* * *
136869 CCTCTCTCTGTGCTGTCGCTG
1 CTTCTCTCTCTGCTGCCGCTG
*
136890 CTTCTCTCTCTGCTCCCGCTG
1 CTTCTCTCTCTGCTGCCGCTG
* ** *
136911 CTGCTCTAGCTGCTTCCGCTG
1 CTTCTCTCTCTGCTGCCGCTG
*
136932 CTGCTCTCTCTG
1 CTTCTCTCTCTG
136944 TTTCCCTTGC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.01, C:0.41, G:0.20, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTCTGCTGCCGCTG
Found at i:138893 original size:23 final size:23
Alignment explanation
Indices: 138861--138915 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
138851 CATATTAAGG
* *
138861 TTAAAAAAATAAATATTAAAAGA
1 TTAAATAAATAAATATTAAAAAA
*
138884 TTAAATAAATAATTATTAAAAAA
1 TTAAATAAATAAATATTAAAAAA
*
138907 TTATATAAA
1 TTAAATAAA
138916 GGTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAATAAATAAATATTAAAAAA
Found at i:141128 original size:41 final size:41
Alignment explanation
Indices: 141083--141425 Score: 298
Period size: 41 Copynumber: 8.4 Consensus size: 41
141073 CGTTTATTCA
* *
141083 AAAAAAGCCACTAAAGTACGGGTCTTTGGCGGTGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
*
141124 AAAAACGCCACGAAAGTACGGGTCTTTGGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * *
141165 AAAAATGCCACGAAAGTACGGGTCTTTGACGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * ** * **
141206 AGAAACGCCACTAAAGAACAAGTATTTACCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * *
141247 AAAAACGCCACTACAA-TACGGGTATTTAGCGGCGTTTGTTT
1 AAAAACGCCACTA-AAGTACGGGTCTTTGGCGGCGTTTGTAT
* * * ** * *
141288 AGAAACACCACTAAAGTATGACTCTTTGGCGGCGTTTTTGCT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGT-AT
* ** * * * *
141330 -TAAACGCCACTAAAGTAC-ATTATTTAGCGGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* ** * * *
141369 AAACACGCCACTAAAGTAC-TATCTTTTAGCGGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGTAT
*
141410 AAAAACGTCACTAAAG
1 AAAAACGCCACTAAAG
141426 AACAAGTATT
Statistics
Matches: 252, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
40 34 0.13
41 215 0.85
42 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
Found at i:141644 original size:21 final size:21
Alignment explanation
Indices: 141620--141659 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
141610 ACGTTAAAAT
*
141620 ATTAACATATTAGGTAACGAA
1 ATTAACATATTAAGTAACGAA
*
141641 ATTAACATTTTAAGTAACG
1 ATTAACATATTAAGTAACG
141660 TTCTATTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
ATTAACATATTAAGTAACGAA
Found at i:144377 original size:27 final size:27
Alignment explanation
Indices: 144305--144372 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
144295 TCGAGTGGAA
144305 GGTGTATATTTTTCAGGTCGGGAAGAT
1 GGTGTATATTTTTCAGGTCGGGAAGAT
144332 GGTGTATATTTTTCAGGTCGGGAAGAT
1 GGTGTATATTTTTCAGGTCGGGAAGAT
144359 GGTGTATAATTTTT
1 GGTGTAT-ATTTTT
144373 GGGTCAGTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (27 bp):
GGTGTATATTTTTCAGGTCGGGAAGAT
Found at i:147739 original size:2 final size:2
Alignment explanation
Indices: 147732--147760 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
147722 TGTTACAACC
147732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
147761 TAACAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:150562 original size:14 final size:14
Alignment explanation
Indices: 150545--150606 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
150535 TATTTTTTAA
*
150545 ATATTATATTAATT
1 ATATTATATTAAAT
* *
150559 ATATTTTAATAAAT
1 ATATTATATTAAAT
*
150573 ATA-TATA-TATAT
1 ATATTATATTAAAT
*
150585 ATA-TATATGAAAT
1 ATATTATATTAAAT
150598 ATATT-TATT
1 ATATTATATT
150607 TATAAATTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
12 11 0.29
13 12 0.32
14 15 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
ATATTATATTAAAT
Found at i:159000 original size:13 final size:13
Alignment explanation
Indices: 158984--159015 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
158974 CTCAATGTGT
158984 GTCATAAATGCTA
1 GTCATAAATGCTA
*
158997 GTCATAAATGCTC
1 GTCATAAATGCTA
159010 GTCATA
1 GTCATA
159016 GATTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCTA
Found at i:159684 original size:23 final size:22
Alignment explanation
Indices: 159626--159687 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 22
159616 CAAAAATGCA
*
159626 AATGGGTACAAATACCCCTATG
1 AATGGGTATAAATACCCCTATG
** *
159648 AATGAATATCAATACCCCTTATG
1 AATGGGTATAAATACCCC-TATG
159671 AATGGGTATAAATACCC
1 AATGGGTATAAATACCC
159688 TGGGTACCGA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (22 bp):
AATGGGTATAAATACCCCTATG
Found at i:159722 original size:22 final size:22
Alignment explanation
Indices: 159688--159730 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
159678 ATAAATACCC
*
159688 TGGGTACCGATACCCATATGAT
1 TGGGTACCAATACCCATATGAT
* *
159710 TGGGTATCAATACCCTTATGA
1 TGGGTACCAATACCCATATGA
159731 AGACTCAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (22 bp):
TGGGTACCAATACCCATATGAT
Found at i:160222 original size:33 final size:33
Alignment explanation
Indices: 160185--160251 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
160175 TTTTGTAAAG
* *
160185 GGGAAAGGTTCTAGTTGATCCCGTGAAAAGCTA
1 GGGAAAGGTTCTAGTTGAGCCCGTGAAAAACTA
* * *
160218 GGGAAATGTTCTAGTTTAGCTCGTGAAAAACTA
1 GGGAAAGGTTCTAGTTGAGCCCGTGAAAAACTA
160251 G
1 G
160252 AGAGTTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTGAGCCCGTGAAAAACTA
Found at i:162963 original size:18 final size:18
Alignment explanation
Indices: 162929--162964 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
162919 ATATTTTTCA
* *
162929 ACAATTGGTTTCTTTTTG
1 ACAATTGGTATCCTTTTG
162947 ACAATTGGTATCCTTTTG
1 ACAATTGGTATCCTTTTG
162965 TAAACAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (18 bp):
ACAATTGGTATCCTTTTG
Found at i:163235 original size:23 final size:22
Alignment explanation
Indices: 163183--163273 Score: 110
Period size: 22 Copynumber: 4.1 Consensus size: 22
163173 CAAAAATGCA
* *
163183 AATGGGTACCGATACCCCTATG
1 AATGGGTATCAATACCCCTATG
*
163205 AATAGGTATCAATACCCCTTATG
1 AATGGGTATCAATACCCC-TATG
* *
163228 AATGGGTAACGATACCCCTATG
1 AATGGGTATCAATACCCCTATG
* *
163250 ACTGGGTATCAATACTCCTATG
1 AATGGGTATCAATACCCCTATG
163272 AA
1 AA
163274 GGCTCAAACA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 38 0.67
23 19 0.33
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (22 bp):
AATGGGTATCAATACCCCTATG
Found at i:163247 original size:45 final size:44
Alignment explanation
Indices: 163183--163273 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
163173 CAAAAATGCA
*
163183 AATGGGTACCGATACCCCTATGAATAGGTATCAATACCCCTTATG
1 AATGGGTAACGATACCCCTATGAATAGGTATCAATACCCC-TATG
* * *
163228 AATGGGTAACGATACCCCTATGACTGGGTATCAATACTCCTATG
1 AATGGGTAACGATACCCCTATGAATAGGTATCAATACCCCTATG
163272 AA
1 AA
163274 GGCTCAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 6 0.14
45 36 0.86
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (44 bp):
AATGGGTAACGATACCCCTATGAATAGGTATCAATACCCCTATG
Found at i:163334 original size:33 final size:34
Alignment explanation
Indices: 163297--163361 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
163287 AATACAAAAA
163297 GGGTACCGATACCCC-TATAGGTATCAATACGTT
1 GGGTACCGATACCCCTTATAGGTATCAATACGTT
*
163330 GGGTACCGATACCCCTTTATGGGTATCAATAC
1 GGGTACCGATACCCC-TTATAGGTATCAATAC
163362 CCCCTAGCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 15 0.52
35 14 0.48
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (34 bp):
GGGTACCGATACCCCTTATAGGTATCAATACGTT
Found at i:163791 original size:33 final size:33
Alignment explanation
Indices: 163729--163800 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
163719 CTTTTTGTAA
* ** *
163729 AGGGAAAAGGTTCTAGTTGATCCTGTGAAAAGCT
1 AGGG-AAAGGTTCTAGTTGAGCCCATGAAAAACT
*
163763 AGGGAAAGGTTCTAGTTTAGCCCATGAAAAACT
1 AGGGAAAGGTTCTAGTTGAGCCCATGAAAAACT
163796 AGGGA
1 AGGGA
163801 GTTATAAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (33 bp):
AGGGAAAGGTTCTAGTTGAGCCCATGAAAAACT
Found at i:173827 original size:968 final size:968
Alignment explanation
Indices: 171952--173885 Score: 3868
Period size: 968 Copynumber: 2.0 Consensus size: 968
171942 GCAAACACCA
171952 CCAACAGCTCATGCCCATACCCTGCAACGCCCATTACTCCATTAGCAAGGATACACATAATTAAA
1 CCAACAGCTCATGCCCATACCCTGCAACGCCCATTACTCCATTAGCAAGGATACACATAATTAAA
172017 GAGGAAGCAGAAAACAAAAGCAGTTCTCGAGGCCATCGGGAAGAGCGGTTTTCATCATCAACAAA
66 GAGGAAGCAGAAAACAAAAGCAGTTCTCGAGGCCATCGGGAAGAGCGGTTTTCATCATCAACAAA
172082 AAGAAGGGAGCTTGAAAGAAAGGCGGGGGGCATTCATTACAAGAGGAAAGGAGGAGAAAAACAAA
131 AAGAAGGGAGCTTGAAAGAAAGGCGGGGGGCATTCATTACAAGAGGAAAGGAGGAGAAAAACAAA
172147 GATAAGAGGGGTAACCATTTCGAGCAGAAGGAGTCAGTGATCAATTGGAGAACAAGCAAAGAACA
196 GATAAGAGGGGTAACCATTTCGAGCAGAAGGAGTCAGTGATCAATTGGAGAACAAGCAAAGAACA
172212 TTAGAGCAGGGAAAGAAGGATACCAATAGAGAGCTCACGAACAGCAGAGCACGGAACCAAAAAAA
261 TTAGAGCAGGGAAAGAAGGATACCAATAGAGAGCTCACGAACAGCAGAGCACGGAACCAAAAAAA
172277 ACCAACAGAGGAGGGGATTTTTCGGTAACAACAAGGGGGTTCTTGAATGGAAAGCAGTGTAACTG
326 ACCAACAGAGGAGGGGATTTTTCGGTAACAACAAGGGGGTTCTTGAATGGAAAGCAGTGTAACTG
172342 GAGAAGGATTCCCCCGTATTCGAAAGCAATGTGAACAGGGGATCCTTCCATGATTTTACAGAGGA
391 GAGAAGGATTCCCCCGTATTCGAAAGCAATGTGAACAGGGGATCCTTCCATGATTTTACAGAGGA
172407 ATGAAAGGCTAGAAATCATTTTTAAAGTTTATTTTCCCGATTTCTTCATAAGCTTTTTTTCGTTT
456 ATGAAAGGCTAGAAATCATTTTTAAAGTTTATTTTCCCGATTTCTTCATAAGCTTTTTTTCGTTT
172472 TTTTTACAATCATTCTAAAAAATGAAGAGCTCTAAAAAACTAGTGAAATGCCATTCAAAACTATC
521 TTTTTACAATCATTCTAAAAAATGAAGAGCTCTAAAAAACTAGTGAAATGCCATTCAAAACTATC
172537 ATCAGCAACAACCCGACAACACAAGCAAAGCAAGCAATAAAACCCACTTTCGTATTTAAGGTATT
586 ATCAGCAACAACCCGACAACACAAGCAAAGCAAGCAATAAAACCCACTTTCGTATTTAAGGTATT
172602 TCTCTGGGTACATCTTGAACAAACAAAAGGCATTGGTAAGTTCACGAGGTAAATGCTATTATCTT
651 TCTCTGGGTACATCTTGAACAAACAAAAGGCATTGGTAAGTTCACGAGGTAAATGCTATTATCTT
172667 TATTCGTTTCGATTCCATGTGTGTGGTGTGTGTGTGACTTGTTTCAAAATAAACTAAATAGATTG
716 TATTCGTTTCGATTCCATGTGTGTGGTGTGTGTGTGACTTGTTTCAAAATAAACTAAATAGATTG
172732 AGGCGAGGGAGTAATGAATACCTGTTAATTGAGTCTTCGTTGGAGAGAACGCTCGGTAGCGTTGG
781 AGGCGAGGGAGTAATGAATACCTGTTAATTGAGTCTTCGTTGGAGAGAACGCTCGGTAGCGTTGG
172797 TCGCGGAGAGGAGTCGAGGCTTTCGACTGTTTTGGGTTTTAGAGAAGTTTGGGGTTCAGGAAAGC
846 TCGCGGAGAGGAGTCGAGGCTTTCGACTGTTTTGGGTTTTAGAGAAGTTTGGGGTTCAGGAAAGC
172862 TTAGGCTCATTTTGGGATTAACCAGTCGGTTTAGATGGGTCACGAAGTGGTCTGGGTG
911 TTAGGCTCATTTTGGGATTAACCAGTCGGTTTAGATGGGTCACGAAGTGGTCTGGGTG
172920 CCAACAGCTCATGCCCATACCCTGCAACGCCCATTACTCCATTAGCAAGGATACACATAATTAAA
1 CCAACAGCTCATGCCCATACCCTGCAACGCCCATTACTCCATTAGCAAGGATACACATAATTAAA
172985 GAGGAAGCAGAAAACAAAAGCAGTTCTCGAGGCCATCGGGAAGAGCGGTTTTCATCATCAACAAA
66 GAGGAAGCAGAAAACAAAAGCAGTTCTCGAGGCCATCGGGAAGAGCGGTTTTCATCATCAACAAA
173050 AAGAAGGGAGCTTGAAAGAAAGGCGGGGGGCATTCATTACAAGAGGAAAGGAGGAGAAAAACAAA
131 AAGAAGGGAGCTTGAAAGAAAGGCGGGGGGCATTCATTACAAGAGGAAAGGAGGAGAAAAACAAA
173115 GATAAGAGGGGTAACCATTTCGAGCAGAAGGAGTCAGTGATCAATTGGAGAACAAGCAAAGAACA
196 GATAAGAGGGGTAACCATTTCGAGCAGAAGGAGTCAGTGATCAATTGGAGAACAAGCAAAGAACA
173180 TTAGAGCAGGGAAAGAAGGATACCAATAGAGAGCTCACGAACAGCAGAGCACGGAACCAAAAAAA
261 TTAGAGCAGGGAAAGAAGGATACCAATAGAGAGCTCACGAACAGCAGAGCACGGAACCAAAAAAA
173245 ACCAACAGAGGAGGGGATTTTTCGGTAACAACAAGGGGGTTCTTGAATGGAAAGCAGTGTAACTG
326 ACCAACAGAGGAGGGGATTTTTCGGTAACAACAAGGGGGTTCTTGAATGGAAAGCAGTGTAACTG
173310 GAGAAGGATTCCCCCGTATTCGAAAGCAATGTGAACAGGGGATCCTTCCATGATTTTACAGAGGA
391 GAGAAGGATTCCCCCGTATTCGAAAGCAATGTGAACAGGGGATCCTTCCATGATTTTACAGAGGA
173375 ATGAAAGGCTAGAAATCATTTTTAAAGTTTATTTTCCCGATTTCTTCATAAGCTTTTTTTCGTTT
456 ATGAAAGGCTAGAAATCATTTTTAAAGTTTATTTTCCCGATTTCTTCATAAGCTTTTTTTCGTTT
173440 TTTTTACAATCATTCTAAAAAATGAAGAGCTCTAAAAAACTAGTGAAATGCCATTCAAAACTATC
521 TTTTTACAATCATTCTAAAAAATGAAGAGCTCTAAAAAACTAGTGAAATGCCATTCAAAACTATC
173505 ATCAGCAACAACCCGACAACACAAGCAAAGCAAGCAATAAAACCCACTTTCGTATTTAAGGTATT
586 ATCAGCAACAACCCGACAACACAAGCAAAGCAAGCAATAAAACCCACTTTCGTATTTAAGGTATT
173570 TCTCTGGGTACATCTTGAACAAACAAAAGGCATTGGTAAGTTCACGAGGTAAATGCTATTATCTT
651 TCTCTGGGTACATCTTGAACAAACAAAAGGCATTGGTAAGTTCACGAGGTAAATGCTATTATCTT
173635 TATTCGTTTCGATTCCATGTGTGTGGTGTGTGTGTGACTTGTTTCAAAATAAACTAAATAGATTG
716 TATTCGTTTCGATTCCATGTGTGTGGTGTGTGTGTGACTTGTTTCAAAATAAACTAAATAGATTG
173700 AGGCGAGGGAGTAATGAATACCTGTTAATTGAGTCTTCGTTGGAGAGAACGCTCGGTAGCGTTGG
781 AGGCGAGGGAGTAATGAATACCTGTTAATTGAGTCTTCGTTGGAGAGAACGCTCGGTAGCGTTGG
173765 TCGCGGAGAGGAGTCGAGGCTTTCGACTGTTTTGGGTTTTAGAGAAGTTTGGGGTTCAGGAAAGC
846 TCGCGGAGAGGAGTCGAGGCTTTCGACTGTTTTGGGTTTTAGAGAAGTTTGGGGTTCAGGAAAGC
173830 TTAGGCTCATTTTGGGATTAACCAGTCGGTTTAGATGGGTCACGAAGTGGTCTGGG
911 TTAGGCTCATTTTGGGATTAACCAGTCGGTTTAGATGGGTCACGAAGTGGTCTGGG
173886 GTGAGTTTCG
Statistics
Matches: 966, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
968 966 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (968 bp):
CCAACAGCTCATGCCCATACCCTGCAACGCCCATTACTCCATTAGCAAGGATACACATAATTAAA
GAGGAAGCAGAAAACAAAAGCAGTTCTCGAGGCCATCGGGAAGAGCGGTTTTCATCATCAACAAA
AAGAAGGGAGCTTGAAAGAAAGGCGGGGGGCATTCATTACAAGAGGAAAGGAGGAGAAAAACAAA
GATAAGAGGGGTAACCATTTCGAGCAGAAGGAGTCAGTGATCAATTGGAGAACAAGCAAAGAACA
TTAGAGCAGGGAAAGAAGGATACCAATAGAGAGCTCACGAACAGCAGAGCACGGAACCAAAAAAA
ACCAACAGAGGAGGGGATTTTTCGGTAACAACAAGGGGGTTCTTGAATGGAAAGCAGTGTAACTG
GAGAAGGATTCCCCCGTATTCGAAAGCAATGTGAACAGGGGATCCTTCCATGATTTTACAGAGGA
ATGAAAGGCTAGAAATCATTTTTAAAGTTTATTTTCCCGATTTCTTCATAAGCTTTTTTTCGTTT
TTTTTACAATCATTCTAAAAAATGAAGAGCTCTAAAAAACTAGTGAAATGCCATTCAAAACTATC
ATCAGCAACAACCCGACAACACAAGCAAAGCAAGCAATAAAACCCACTTTCGTATTTAAGGTATT
TCTCTGGGTACATCTTGAACAAACAAAAGGCATTGGTAAGTTCACGAGGTAAATGCTATTATCTT
TATTCGTTTCGATTCCATGTGTGTGGTGTGTGTGTGACTTGTTTCAAAATAAACTAAATAGATTG
AGGCGAGGGAGTAATGAATACCTGTTAATTGAGTCTTCGTTGGAGAGAACGCTCGGTAGCGTTGG
TCGCGGAGAGGAGTCGAGGCTTTCGACTGTTTTGGGTTTTAGAGAAGTTTGGGGTTCAGGAAAGC
TTAGGCTCATTTTGGGATTAACCAGTCGGTTTAGATGGGTCACGAAGTGGTCTGGGTG
Found at i:176631 original size:21 final size:21
Alignment explanation
Indices: 176605--176702 Score: 128
Period size: 21 Copynumber: 4.7 Consensus size: 21
176595 TAGTCGTACC
176605 AAAGACGAGAAGACCGTTCAT
1 AAAGACGAGAAGACCGTTCAT
176626 AAAGACGAGAAGACCGTTCAT
1 AAAGACGAGAAGACCGTTCAT
* *
176647 AAAGATGAGAAGACCATTCAT
1 AAAGACGAGAAGACCGTTCAT
* *
176668 AGAGAC-ATGAAGACCCTTCAT
1 AAAGACGA-GAAGACCGTTCAT
176689 AAAGAC-ATGAAGAC
1 AAAGACGA-GAAGAC
176703 TACATCACAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
20 1 0.01
21 69 0.99
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAGACGAGAAGACCGTTCAT
Found at i:176972 original size:7 final size:6
Alignment explanation
Indices: 176944--176978 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
176934 TAACACCTCG
176944 TGCATT TGCATT TGCATT TGCATTT TGCA-T TGCAT
1 TGCATT TGCATT TGCATT TGCA-TT TGCATT TGCAT
176979 GTATTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGCATT
Found at i:179353 original size:24 final size:24
Alignment explanation
Indices: 179319--179365 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
179309 GAAAAGATTA
* *
179319 AAAAAATGAAATGAAAAAGAAAAT
1 AAAAAAGGAAAAGAAAAAGAAAAT
*
179343 AAAAAAGGAAAAGAAAGAGAAAA
1 AAAAAAGGAAAAGAAAAAGAAAA
179366 ATTGAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAAAAGGAAAAGAAAAAGAAAAT
Found at i:179389 original size:16 final size:16
Alignment explanation
Indices: 179359--179388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
179349 GGAAAAGAAA
179359 GAGAAAAATTGAAAAT
1 GAGAAAAATTGAAAAT
179375 GAGAAAAA-TGAAAA
1 GAGAAAAATTGAAAA
179389 AAAGAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (16 bp):
GAGAAAAATTGAAAAT
Found at i:180937 original size:127 final size:123
Alignment explanation
Indices: 180651--180956 Score: 468
Period size: 124 Copynumber: 2.4 Consensus size: 123
180641 AAGTTGTGAT
* * *
180651 ATGTTGGGGCACGAATGAACCCACATCATGTTGAGAAGACAAGATTCAGACCAAGGAGGCATTAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAG-AGAAAAGATTCAGACCAAGGAGGCATGAA
* * **
180716 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGATTCCCGTACCAGTATAAGATA
65 GAATGAGCCTTACAATTTGAGGTATAGGGGCATTTTGAGGCCCGTACCAGTATAAGATA
*
180775 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACTAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGA-GAAAAGATTCAGACCAAGGAGGCATGAA
180840 GAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGTACCAGTATAAGATA
65 GAATGAGCCTTACAATTTGAGGT-ATAGGGGCATTTTG--AGGCCCGTACCAGTATAAGATA
* *
180902 ATGTTGGGGCACGACTGAACCCACATCATGATGAGAAAATAAGATTCAGACCAAG
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGAGAA-AAGATTCAGACCAAG
180957 AAGTTATTGA
Statistics
Matches: 166, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
123 1 0.01
124 82 0.49
125 12 0.07
126 2 0.01
127 69 0.42
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (123 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGAGAAAAGATTCAGACCAAGGAGGCATGAAG
AATGAGCCTTACAATTTGAGGTATAGGGGCATTTTGAGGCCCGTACCAGTATAAGATA
Found at i:181724 original size:36 final size:36
Alignment explanation
Indices: 181678--181943 Score: 281
Period size: 36 Copynumber: 7.4 Consensus size: 36
181668 AGCAAAGTCA
*
181678 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGA-ATAGTGAAGCAAACC
* * *
181714 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACT
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
*
181750 ATCCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* * * *
181786 ATCTGAAGCCTTCACCGGAGAATAGGGAAGCAATCA
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
*
181822 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* *
181858 ATCAT-AAGTCTTCACC-AGAGAGTAGTGAAGCAAACC
1 ATC-TGAAGCCTTCACCGA-AGAATAGTGAAGCAAACC
* * * *
181894 ATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCC
1 ATCTGAAGCCTTCACCGAAGAA-TAGTGAAGCA-AACC
* *
181931 ATTTTAAGCCTTC
1 ATCTGAAGCCTTC
181944 TCAGAAGAGT
Statistics
Matches: 202, Mismatches: 20, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
35 6 0.03
36 179 0.89
37 17 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
Found at i:181766 original size:72 final size:72
Alignment explanation
Indices: 181676--181943 Score: 310
Period size: 72 Copynumber: 3.7 Consensus size: 72
181666 GGAGCAAAGT
* *
181676 CAATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGT
1 CAATCCTAAGCCTTCACCGAAGA-ATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGT
181740 GAAGCAAA
65 GAAGCAAA
* * *
181748 CTATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGGG
1 CAATCCTAAGCCTTCACCGAAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTG
*
181813 AAGCAAT
66 AAGCAAA
* * * *
181820 CAAT-CTGAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGTCTTCACCAGAGAGTAG
1 CAATCCT-AAGCCTTCACCGAAGAATAGTGAAGCAAACCATC-TGAAGCCTTCACCGGAGAATAG
181883 TGAAGCAAA
64 TGAAGCAAA
* * * * * * *
181892 CCATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 CAATCCTAAGCCTTCACCGAAGAA-TAGTGAAGCA-AACCATCTGAAGCCTTC
181944 TCAGAAGAGT
Statistics
Matches: 169, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
71 6 0.04
72 149 0.88
73 14 0.08
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (72 bp):
CAATCCTAAGCCTTCACCGAAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTG
AAGCAAA
Found at i:181924 original size:108 final size:108
Alignment explanation
Indices: 181678--181943 Score: 354
Period size: 108 Copynumber: 2.5 Consensus size: 108
181668 AGCAAAGTCA
* * * *
181678 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGAA
* * *
181743 GCAAACTATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
181786 ATCTGAAGCCTTCACCGGAGAA-TAGGGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGA
1 ATCTTAAGCCTTCACC-GAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGA
* *
181850 AGCAAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAACC
65 AGCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
181894 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCA-ATCCATCTGAAGCCTTC
181944 TCAGAAGAGT
Statistics
Matches: 134, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
107 3 0.02
108 114 0.85
109 17 0.13
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGAA
GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:182395 original size:51 final size:51
Alignment explanation
Indices: 182325--182731 Score: 494
Period size: 51 Copynumber: 7.8 Consensus size: 51
182315 AAGATTATTT
* *
182325 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
182376 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATGT-TC
* *
182429 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
** * *
182481 GAGTTTTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* *
182532 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * *
182583 GAGTTCTATACTCCTTAAAGAATGAATGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
* * ** *
182636 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATGT-TC
* * * *
182689 TGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
182732 TTGAAGATTG
Statistics
Matches: 317, Mismatches: 27, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
51 174 0.55
52 13 0.04
53 54 0.17
54 76 0.24
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:182877 original size:55 final size:53
Alignment explanation
Indices: 182708--183043 Score: 349
Period size: 53 Copynumber: 6.2 Consensus size: 53
182698 TACTCCCTAG
* *
182708 AGAAATAGGGAGC-GA-ACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACA-CGA-TTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
182761 AGAAATAGGGAGCAGACACGATCGTTGAAGATTATGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * * *
182814 AGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
182869 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGG
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
182922 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * * *
182977 AGGAATAAGGAGCAGACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGA
1 AGAAATAGGGAGCAGACACGATTGTT--GAAGATTGT-GAGTCT-TATACTCTCTGA
*
183031 AGAAAGAGGGAGC
1 AGAAATAGGGAGC
183044 GAACCCGTAG
Statistics
Matches: 242, Mismatches: 32, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
53 122 0.50
54 35 0.14
55 85 0.35
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (53 bp):
AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
Found at i:182884 original size:108 final size:108
Alignment explanation
Indices: 182731--182996 Score: 374
Period size: 108 Copynumber: 2.5 Consensus size: 108
182721 GAACCCATTT
* *
182731 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* * *
182794 ATGGGTCTTATACTCTCTGAAGATATAGGGGGGAGACACGATA
66 ATGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
182837 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* * * * *
182902 GTGAGTCTTATACTCTCTGGAGAAATAGGGAGTAGACCCGATT
66 ATGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
182945 GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACG
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACG
182997 TTTTCAAAAG
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
106 11 0.08
107 1 0.01
108 128 0.91
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (108 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
ATGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
Found at i:183008 original size:108 final size:106
Alignment explanation
Indices: 182697--183042 Score: 346
Period size: 108 Copynumber: 3.2 Consensus size: 106
182687 TCTGAGTTCC
* *
182697 ATACTCCCT-AGAGAAATAGGGAGCGAACCC-ATTTGTTGAAGATTG-T-GGGTCTTATACTCTC
1 ATACTCCCTGA-AGAAATAGGGAGAG-ACCCGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTC
* *
182758 TGAAGAAATAGGGAGCAGACACG-ATCGTTGAAGATTATGGGTCTT
63 TGAAGAAATAGGGAGCAGACACGTAT--TAGAAGATTATGAGTCTT
* * * * *
182803 ATACTCTCTGAAGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTG
1 ATACTCCCTGAAGAAATA-GGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * *
182868 AAGAAATAGGGGGCAGACGCG-ATTGATGAAGATTGTGAGTCTT
65 AAGAAATAGGGAGCAGACACGTATT-A-GAAGATTATGAGTCTT
* * *
182911 ATACTCTCTGGAGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTG
1 ATACTCCCTGAAGAAATAGGGAG-AGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * * * *
182976 AAGGAATAAGGAGCAGACACGTTTTCAAAAGATTTTCGAGT-TCT
65 AAGAAATAGGGAGCAGACACGTATT-AGAAGATTAT-GAGTCT-T
*
183020 ATACTCCCTGAAGAAAGAGGGAG
1 ATACTCCCTGAAGAAATAGGGAG
183043 CGAACCCGTA
Statistics
Matches: 200, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
106 30 0.15
107 12 0.06
108 130 0.65
109 28 0.14
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (106 bp):
ATACTCCCTGAAGAAATAGGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
AGAAATAGGGAGCAGACACGTATTAGAAGATTATGAGTCTT
Found at i:187556 original size:22 final size:22
Alignment explanation
Indices: 187528--187571 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
187518 TTCATCATTG
187528 AAATCAGTTTTGAGGCTTTTAA
1 AAATCAGTTTTGAGGCTTTTAA
187550 AAATCAGTTTTGAGGCTTTTAA
1 AAATCAGTTTTGAGGCTTTTAA
187572 GTAACAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
AAATCAGTTTTGAGGCTTTTAA
Found at i:199829 original size:14 final size:15
Alignment explanation
Indices: 199797--199831 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
199787 ATACTTTTCT
199797 TTAATAAAATATTTTA
1 TTAATAAAATA-TTTA
199813 TTAATAAAATA-TTA
1 TTAATAAAATATTTA
199827 TTAAT
1 TTAAT
199832 GATTTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
16 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATAAAATATTTA
Done.