Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008934.1 Hibiscus syriacus cultivar Beakdansim tig00112250_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: 151386
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:8226 original size:60 final size:60
Alignment explanation
Indices: 8158--8275 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
8148 AGCCTAAGGA
8158 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
1 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
8218 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAG
1 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAG
8276 GAGTTTTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (60 bp):
AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
Found at i:9990 original size:6 final size:6
Alignment explanation
Indices: 9974--10003 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9964 TTAATCATAT
*
9974 GAATAA TAATAA GAATAA GAATAA GAATAA
1 GAATAA GAATAA GAATAA GAATAA GAATAA
10004 TGAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (6 bp):
GAATAA
Found at i:11553 original size:22 final size:21
Alignment explanation
Indices: 11525--11583 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
11515 AGTCGAGGGT
*
11525 TACATAGGTCGTTCAGGACATA
1 TACATAGGTCCTTC-GGACATA
* *
11547 TACATAGGTCTTTCGG-GATA
1 TACATAGGTCCTTCGGACATA
11567 TACATGAGGTCCTTCGG
1 TACAT-AGGTCCTTCGG
11584 GACAAATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (21 bp):
TACATAGGTCCTTCGGACATA
Found at i:11582 original size:21 final size:20
Alignment explanation
Indices: 11525--11585 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
11515 AGTCGAGGGT
* *
11525 TACATAGGTCGTTCAGGACATA
1 TACATAGGTCCTTC-GG-GATA
*
11547 TACATAGGTCTTTCGGGATA
1 TACATAGGTCCTTCGGGATA
11567 TACATGAGGTCCTTCGGGA
1 TACAT-AGGTCCTTCGGGA
11586 CAAATTTCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.23
21 14 0.40
22 13 0.37
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (20 bp):
TACATAGGTCCTTCGGGATA
Found at i:14961 original size:70 final size:70
Alignment explanation
Indices: 14848--14988 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
14838 CTCCATTTCT
* *
14848 AAGGTGAGACTTGGTAAACTGGTTATTTCTTAATTTTTAAGCTTAGTTTTGATTCTTAGAGTGTT
1 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
14913 AAAAA
66 AAAAA
14918 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
1 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
14983 AAAAA
66 AAAAA
14988 A
1 A
14989 GCTTAATAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (70 bp):
AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
AAAAA
Found at i:16910 original size:22 final size:22
Alignment explanation
Indices: 16866--16911 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
16856 AGTCGAGGGT
**
16866 TACATAGGTCCTTCAGGTCATA
1 TACATAGGTCCTTCAGGAAATA
*
16888 TACATAGGTCCTTCGGGAAATA
1 TACATAGGTCCTTCAGGAAATA
16910 TA
1 TA
16912 TGAGGTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
TACATAGGTCCTTCAGGAAATA
Found at i:19877 original size:33 final size:33
Alignment explanation
Indices: 19840--19906 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19830 ATCCAATCTC
19840 ATCACACAATCATCTTCACCATGAAATTGTGGT
1 ATCACACAATCATCTTCACCATGAAATTGTGGT
19873 ATCACACAATCATCTTCACCATGAAATTGTGGT
1 ATCACACAATCATCTTCACCATGAAATTGTGGT
19906 A
1 A
19907 CCAAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (33 bp):
ATCACACAATCATCTTCACCATGAAATTGTGGT
Found at i:20580 original size:33 final size:33
Alignment explanation
Indices: 20543--20606 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
20533 ATCCAATCTC
20543 ATCACACAATCATCTTCACCATGAAATTGTGGT
1 ATCACACAATCATCTTCACCATGAAATTGTGGT
20576 ATCACACAATCATCTTCACCATGAAATTGTG
1 ATCACACAATCATCTTCACCATGAAATTGTG
20607 ATACCAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (33 bp):
ATCACACAATCATCTTCACCATGAAATTGTGGT
Found at i:21064 original size:698 final size:699
Alignment explanation
Indices: 19723--21797 Score: 3437
Period size: 698 Copynumber: 3.0 Consensus size: 699
19713 ATGCATGTAC
*
19723 AATTAATTTTAATCATCATACATGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
1 AATTAATTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
19788 CATCAATTCTTCAAGATCACTAAACCTCCTTAAACCCTAATCATCCAATCTCATCACACAATCAT
66 CATCAATTCTTCAAGATCACTAAACCTCCTTAAA-CCTAATCATCCAATCTCATCACACAATCAT
19853 CTTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGGTACCAAATAATAG
130 CTTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGGTACCAAATAATAG
*
19918 AGAATTTCATGTAGATTAATTCTCTATTTAATAGCTAAACTCAAAAATCAACTATATAGCTAAAA
195 AGAATTTCATGTAGATTAATTCTCTATCTAATAGCTAAACTCAAAAATCAACTATATAGCT---A
* *
19983 AATCAAAATAAAAATCCTTACCTTCGAGAACTTGTAAATTCGACCTTGAAGAAAAAAGAAGCTGA
257 AATCAAAATAAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGA
20048 TAATGGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATT
322 TAATGGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATT
20113 AATTGAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTAC
387 AATTGAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTAC
20178 AAATGCCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGA
452 AAATGCCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGA
* * *
20243 CTTTCGGATTTGGCCATGAAATTTTCAAAATTTGCATTTTAGTCACTAAAATTCCACTATTTCAG
517 CTTTCGAATTTGGTCATGAAATTTTCAAAATTTGCATTTTAGTCACTAAAATTCCACTGTTTCAG
* * * *
20308 TCAAATTTGAACAATTGCACTATTCTGAACCAAATTTTTCTGATCTAAAATATGAAAATAATATT
582 TCAAATATGAACAATTGCACTGTTCTGAGCCAAATTTCTCTGATCTAAAATATGAAAATAATATT
*
20373 TCCAACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTCGATTTGATCCG
647 TCCAACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTCGATTCGATCCG
20426 AATTAATTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
1 AATTAATTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
20491 CATCAATTCTTCAAGATCACTAAACCTCCTTAAACCTTAATCATCCAATCTCATCACACAATCAT
66 CATCAATTCTTCAAGATCACTAAACCTCCTTAAACC-TAATCATCCAATCTCATCACACAATCAT
* *
20556 CTTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGATACCAAATGATAG
130 CTTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGGTACCAAATAATAG
20621 AGAATTTCATGTAGATTAATTCTCTATCTAATAGCTAAACTCAAAAATCAACTATATAGCT-AAT
195 AGAATTTCATGTAGATTAATTCTCTATCTAATAGCTAAACTCAAAAATCAACTATATAGCTAAAT
*
20685 -AAAATCAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGATAA
260 CAAAATAAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGATAA
20749 TGGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATTAAT
325 TGGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATTAAT
*
20814 TGAATTTACTATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTACAAA
390 TGAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTACAAA
* * *
20879 TGTCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGAAGAATCAACTTAGCTTTGACTT
455 TGCCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGACTT
* * * * *
20944 TCGAATTTGGTCATGAAATTTTTAAAATTTACATTTTAGTCACTAAAATTCTAGTGTTTCGGTCA
520 TCGAATTTGGTCATGAAATTTTCAAAATTTGCATTTTAGTCACTAAAATTCCACTGTTTCAGTCA
*
21009 AATATGAACAATTGCACTGTTCTGAGCCAAATTTCTCTGATCTAAAATATGAAAATAATTTTTCC
585 AATATGAACAATTGCACTGTTCTGAGCCAAATTTCTCTGATCTAAAATATGAAAATAATATTTCC
*
21074 AACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTTGATTCGATCCG
650 AACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTCGATTCGATCCG
*
21124 AATTATTTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
1 AATTAATTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
21189 CATCAATTCTTCAAGATCACTAAACCTCCTTAAACC----C-T--AA--TCAT--C-C-A--ATC
66 CATCAATTCTTCAAGATCACTAAACCTCCTTAAACCTAATCATCCAATCTCATCACACAATCATC
*
21239 -T---C-----------G--TCACACAATCATCTTCACCATGAAATTTTGGTACCAAATAATAGA
131 TTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGGTACCAAATAATAGA
* * *
21287 GAATTTCATGTAGATTAATTCTCTATCTAATAGTTAAACTAAAAAATCAAGTATATAGCTTAAAA
196 GAATTTCATGTAGATTAATTCTCTATCTAATAGCTAAACTCAAAAATCAACTATATAGC-T---A
21352 AATCAAAATAAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGA
257 AATCAAAATAAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGA
* * *
21417 TAATGGCTTAATTTTACTGATTATTCTAGTATATAAAAGATAAAACACATGACAATTTTTTAATT
322 TAATGGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATT
21482 AATTGAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTAC
387 AATTGAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTAC
*
21547 AAATGCCATTGTATTATCTTCTATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGA
452 AAATGCCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGA
* * * *
21612 CTTTCGAATTTGGTCATGAAATTTTCAAAATTTGCATTTTAGTTAATTAAATTCCACTGTTTCCG
517 CTTTCGAATTTGGTCATGAAATTTTCAAAATTTGCATTTTAGTCACTAAAATTCCACTGTTTCAG
*
21677 TCAAATATGAAAAATTGCACTGTT-TAGAGCCAAATTTCTCTGATCTAAAATATGAAAATAATAT
582 TCAAATATGAACAATTGCACTGTTCT-GAGCCAAATTTCTCTGATCTAAAATATGAAAATAATAT
* *
21741 TTCCAACCATTTTATAACCTCCTTCAAATTTTTGTAAAATTCCGATTCGATCCG
646 TTCCAACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTCGATTCGATCCG
21795 AAT
1 AAT
21798 ATTCGATTTC
Statistics
Matches: 1309, Mismatches: 55, Indels: 48
0.93 0.04 0.03
Matches are distributed among these distances:
665 98 0.07
666 1 0.00
667 1 0.00
670 4 0.00
671 418 0.32
678 1 0.00
681 1 0.00
682 3 0.00
684 1 0.00
685 1 0.00
686 1 0.00
688 4 0.00
690 2 0.00
692 1 0.00
693 1 0.00
698 517 0.39
699 3 0.00
702 2 0.00
703 249 0.19
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (699 bp):
AATTAATTTTAATCATCATACACGCTTTAGAAATAATCACTAACATCAAAAACATAAAAATCCTT
CATCAATTCTTCAAGATCACTAAACCTCCTTAAACCTAATCATCCAATCTCATCACACAATCATC
TTCACCATGAAATTGTGGTATCACACAATCATCTTCACCATGAAATTGTGGTACCAAATAATAGA
GAATTTCATGTAGATTAATTCTCTATCTAATAGCTAAACTCAAAAATCAACTATATAGCTAAATC
AAAATAAAAATCCTTACCTTGGAGAACTTGTAAATTCGACCTTGAAGAAGAAAGAAGCTGATAAT
GGCTTAATTTTATTGATTATTCTAGTATATAAAAGATAAAATACATGGCAATTTTTTAATTAATT
GAATTTAATATTCAATTAATGAGAATTCTCAAAAATACCCTTAATAAATCTTGAAAATTACAAAT
GCCATTGTATTATCTTCCATTAAAATATTCCTTGGTTAAAGATGAATCAACTTGGCTTTGACTTT
CGAATTTGGTCATGAAATTTTCAAAATTTGCATTTTAGTCACTAAAATTCCACTGTTTCAGTCAA
ATATGAACAATTGCACTGTTCTGAGCCAAATTTCTCTGATCTAAAATATGAAAATAATATTTCCA
ACCATTTTCTAACCTCCTTCAAATTTTTGTAAAATTTCGATTCGATCCG
Found at i:22857 original size:16 final size:15
Alignment explanation
Indices: 22836--22866 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
22826 TATAATATTG
22836 AAACTTGAACTCAAAA
1 AAACTTGAACT-AAAA
22852 AAACTTGAACTAAAA
1 AAACTTGAACTAAAA
22867 GAAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.16, G:0.06, T:0.19
Consensus pattern (15 bp):
AAACTTGAACTAAAA
Found at i:38640 original size:3 final size:3
Alignment explanation
Indices: 38632--38695 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
38622 CAAAAAATTG
* * **
38632 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38676 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
38696 CGAAAAAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 45 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:39107 original size:46 final size:45
Alignment explanation
Indices: 38895--39353 Score: 216
Period size: 46 Copynumber: 10.5 Consensus size: 45
38885 TCTACGGGTG
* ** *
38895 ACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGC-TGG-TATCTAAAGGTGATA
* * * *
38942 ACACGGTTCCTACGTGATAAGGACG-GCTGGTTATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGG-TATCTAAAGGTGATA
* * *
38985 ACACGGCTCCTACGTGATGAGGAGATCTGG--TCT---GGGGATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTATCTAAAGGTGATA
* * ** *
39025 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGG-TATCTAAAGGTGATA
* * * *
39071 ACATGGTTCCTACGTGATGAGGACG-GCTGGATATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGG-TATCTAAAGGTGATA
* * * *
39114 ACACGGCTCCTACGTGATGAAGAGATCTGG--TCT---GGGGAATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTATCTAAAGGTG-ATA
* * * ** *
39155 ACACAGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGG-TATCTAAAGGTGATA
* * *
39201 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGG-TATCTAAAGGTGATA
* * * *
39244 ACACGCCTCCTACGTGATGAGGAGATCTGG--TCT---GGGGAATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTATCTAAAGGTG-ATA
* * ** *
39285 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGG-TATCTAAAGGTGATA
* *
39331 ACACGGTTCCTACGTGATAAGGA
1 ACACGGCTCCTACGTGATGAGGA
39354 CGGCTGACCA
Statistics
Matches: 321, Mismatches: 59, Indels: 65
0.72 0.13 0.15
Matches are distributed among these distances:
38 6 0.02
40 38 0.12
41 57 0.18
42 3 0.01
43 80 0.25
44 6 0.02
45 12 0.04
46 89 0.28
47 29 0.09
48 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (45 bp):
ACACGGCTCCTACGTGATGAGGAGAGCTGGTATCTAAAGGTGATA
Found at i:39169 original size:41 final size:41
Alignment explanation
Indices: 38844--39314 Score: 229
Period size: 43 Copynumber: 10.9 Consensus size: 41
38834 GTTTTGTTGG
* * * ** *
38844 TGGGGACGACACTGCTCATACGCAATGAAGAGGTCTGGTCATC
1 TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC
* *
38887 TACGGG-TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATC
1 T-GGGGATGACACGGCTCCTACGTGATGAAGAGATC-TGG--ATC
* * * *
38931 TAAAGGTGATAACACGGTTCCTACGTGAT-AAG-GACGGCTGGTTATC
1 T---GGGGATGACACGGCTCCTACGTGATGAAGAGA--TCTGG--ATC
** * *
38977 TATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGG-TC
1 TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGGATC
* *
39017 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATC
1 TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC
* * * * * *
39060 TAAAGGTGATAACATGGTTCCTACGTGATGAGGACG-GCTGGATATC
1 T---GGGGATGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATC
** *
39106 TATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGG-TC
1 TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGGATC
* * *
39146 TGGGGAATGACACAGCTCATACGTGATGAAGAGTTCTGGCCATC
1 TGGGG-ATGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC
* * * * *
39190 TAAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATC
1 T---GGGGATGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATC
** * * *
39236 TATGGTTGACACGCCTCCTACGTGATGAGGAGATCTGG-TC
1 TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGGATC
* *
39276 TGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGGGG-ATGACACGGCTCCTACGTGATGAAGAGATCTGG
39315 CCATCTAAAG
Statistics
Matches: 323, Mismatches: 78, Indels: 56
0.71 0.17 0.12
Matches are distributed among these distances:
40 44 0.14
41 57 0.18
42 2 0.01
43 103 0.32
44 16 0.05
45 3 0.01
46 74 0.23
47 24 0.07
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (41 bp):
TGGGGATGACACGGCTCCTACGTGATGAAGAGATCTGGATC
Found at i:39217 original size:130 final size:130
Alignment explanation
Indices: 38893--39359 Score: 846
Period size: 130 Copynumber: 3.6 Consensus size: 130
38883 CATCTACGGG
*
38893 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
1 TGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
38958 ATAAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGG-
65 ATAAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGA
39022 A
130 A
*
39023 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* * *
39088 TGAGGACGGCTGGATATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGAA
66 TAAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGAA
*
39153 TGACACAGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* *
39218 TGAGGACGGCTGGTTATCTATGGTTGACACGCCTCCTACGTGATGAGGAGATCTGGTCTGGGGAA
66 TAAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGAA
39283 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
39348 TAAGGACGGCTG
66 TAAGGACGGCTG
39360 ACCATCTAAA
Statistics
Matches: 324, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
129 95 0.29
130 229 0.71
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (130 bp):
TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
TAAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGAA
Found at i:39512 original size:26 final size:27
Alignment explanation
Indices: 39471--39521 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
39461 AGACAAAATT
39471 TTGTTTCAAAGGAAAC-GACTCAAAGA
1 TTGTTTCAAAGGAAACTGACTCAAAGA
*
39497 TTGTTT-AAAGGAAAACTGTCTCAAA
1 TTGTTTCAAAGG-AAACTGACTCAAA
39522 TGAGACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 10 0.45
27 7 0.32
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (27 bp):
TTGTTTCAAAGGAAACTGACTCAAAGA
Found at i:39591 original size:40 final size:40
Alignment explanation
Indices: 39545--39624 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
39535 GTTTTAATAG
*
39545 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
*
39585 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
39625 CGAGAGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:39680 original size:32 final size:32
Alignment explanation
Indices: 39637--39704 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
39627 AGAGACAAAA
*
39637 TTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* *
39669 TTTTTTTTCAAAAGAAACAATCTCAAAGATTT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGATTT
39701 TTTT
1 TTTT
39705 ACAAAATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (32 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:39756 original size:62 final size:63
Alignment explanation
Indices: 39674--39820 Score: 176
Period size: 63 Copynumber: 2.3 Consensus size: 63
39664 GATTTTTTTT
* *
39674 TTTCAAAAGAAACA-ATCTCAAAGATTTTTT-TACA-AAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAACAGA-CTCAAAGATTTTTTCAAAAGAAATTGTCTCAA-AGAGACAAAACTTTG
* ** * *
39736 TTTC-AAAGTAAATAGACTCAAAGATTTTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTG
1 TTTCAAAAG-AAACAGACTCAAAGATTTTTTCAAAAGAAATTGTCTCAAAGAGACAAAACTTTG
39799 TTTCAAAAGAAACAGACTCAAA
1 TTTCAAAAGAAACAGACTCAAA
39821 TGATGGATCT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
61 4 0.06
62 22 0.31
63 32 0.44
64 14 0.19
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (63 bp):
TTTCAAAAGAAACAGACTCAAAGATTTTTTCAAAAGAAATTGTCTCAAAGAGACAAAACTTTG
Found at i:40078 original size:65 final size:67
Alignment explanation
Indices: 40009--40202 Score: 223
Period size: 67 Copynumber: 2.9 Consensus size: 67
39999 ATTTACTTCA
* * * * * *
40009 AAAAGAAACGGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTTAAAGATTTTT-T
1 AAAAGAAACGATCTCAAGAGAGACAAAATT-ATGTTTCAAAAGAAACAAACTCAAAGATTTTTGT
40071 TTC
65 TTC
** * *
40074 AAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTGTT
1 AAAAGAAACGATCTCAAGAGAGACAAAATTATGTTTCAAAAGAAACAAACTCAAAGATTTTTGTT
40139 TC
66 TC
* * * * *
40141 AAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 AAAAGAAACGATCTCAAGAGAGACAAAATTATGTTTCAAAAGAAACAAACTCAAAGATTTTT
40203 CAAAAGAAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
64 1 0.01
65 28 0.25
66 21 0.19
67 63 0.56
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (67 bp):
AAAAGAAACGATCTCAAGAGAGACAAAATTATGTTTCAAAAGAAACAAACTCAAAGATTTTTGTT
TC
Found at i:40154 original size:67 final size:66
Alignment explanation
Indices: 40060--40202 Score: 250
Period size: 67 Copynumber: 2.2 Consensus size: 66
40050 AAACAGATTT
* *
40060 AAAGATTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCAAAAGAAACAAACT
1 AAAGATTTTTTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCAAAAGAAACAAACT
40125 C
66 C
*
40126 AAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCCAAAGAAACAAAC
1 AAAGATTTTT-TTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCAAAAGAAACAAAC
40191 TC
65 TC
40193 AAAGATTTTT
1 AAAGATTTTT
40203 CAAAAGAAAC
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 10 0.14
67 63 0.86
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.32
Consensus pattern (66 bp):
AAAGATTTTTTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCAAAAGAAACAAACT
C
Found at i:40159 original size:29 final size:30
Alignment explanation
Indices: 40102--40297 Score: 149
Period size: 29 Copynumber: 6.6 Consensus size: 30
40092 AGAGACAAAA
40102 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
40132 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
*
40169 TTTTGTTTCCAAAGAAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
40198 --TT-TTTCAAAAGAAAC-GACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
40224 ATTT-ATTCAAAAGGAACAAACTCCAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
40253 TTTT-ATTCAAAAGGAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
40281 TTTT-TTTCAAGAGAAAC
1 TTTTGTTTCAAAAGAAAC
40298 TGTCTCAAGA
Statistics
Matches: 136, Mismatches: 19, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
25 9 0.07
26 12 0.09
27 2 0.01
28 27 0.20
29 35 0.26
30 21 0.15
31 2 0.01
32 1 0.01
33 2 0.01
34 2 0.01
35 1 0.01
36 2 0.01
37 20 0.15
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:40657 original size:36 final size:35
Alignment explanation
Indices: 40563--40659 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 35
40553 TTAAGATATA
* * **
40563 GTCTCAAATGAGACCAAATTTGTTTTTATAGAAATT
1 GTCTCAAGTGAGA-CAAATTTGTTTTTAGAGAAAAC
*
40599 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAA-TTTGTTTTTAGAGAAAAC
*
40634 GATCTCAAGTGAGATCAACTTTGTTT
1 G-TCTCAAGTGAGA-CAAATTTGTTT
40660 AATGTGAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
35 10 0.20
36 38 0.75
37 3 0.06
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (35 bp):
GTCTCAAGTGAGACAAATTTGTTTTTAGAGAAAAC
Found at i:40779 original size:105 final size:101
Alignment explanation
Indices: 40599--40831 Score: 290
Period size: 105 Copynumber: 2.3 Consensus size: 101
40589 TATAGAAATT
* *
40599 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
* *
40664 TGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 TGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
40701 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
40765 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
40806 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
40832 AAAATTCTCA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
101 5 0.04
102 21 0.18
103 2 0.02
104 4 0.04
105 77 0.68
106 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:40998 original size:96 final size:95
Alignment explanation
Indices: 40822--40998 Score: 205
Period size: 96 Copynumber: 1.9 Consensus size: 95
40812 AGCGAGACGC
* **
40822 AATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATGTCTCAAGCGAGACGTAATTTGTTTTAAA
1 AATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATATCTCAAGCGAGACAAAATTTGTTTTAAA
******
40887 GAGAATGTTGTCTCAAGCGAGACAAAATAA
66 GAGAAAACACCCTCAAGCGAGACAAAATAA
* *
40917 AATTTGTTTTTAAAATTCTCAAAATTTGTGGGAAAATATCTCAAGTGAGACAAAAATTT-TGTTT
1 AATTTG-TTTTAAAATTCTCAAAATTTGTGGAAAAATATCTCAAGCGAGAC-AAAATTTGT-TTT
*
40981 CAAGA-AAAACACCCTCAA
63 AAAGAGAAAACACCCTCAA
40999 AGGCGATAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
95 6 0.09
96 49 0.73
97 12 0.18
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (95 bp):
AATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATATCTCAAGCGAGACAAAATTTGTTTTAAA
GAGAAAACACCCTCAAGCGAGACAAAATAA
Found at i:41288 original size:4 final size:4
Alignment explanation
Indices: 41272--41317 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
41262 ATGCAAATTT
*
41272 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
41317 T
1 T
41318 TTTCTCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:41302 original size:18 final size:17
Alignment explanation
Indices: 41274--41309 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
41264 GCAAATTTTA
41274 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
41291 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
41309 T
1 T
41310 ATGTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:42547 original size:11 final size:11
Alignment explanation
Indices: 42533--42569 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
42523 TTTTTTTTAT
42533 TTTTGCTTTGA
1 TTTTGCTTTGA
* *
42544 TTTTTCTTTGT
1 TTTTGCTTTGA
42555 TTTTGCTTTGA
1 TTTTGCTTTGA
42566 TTTT
1 TTTT
42570 TTTCTCTCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.05, C:0.08, G:0.14, T:0.73
Consensus pattern (11 bp):
TTTTGCTTTGA
Found at i:42547 original size:22 final size:22
Alignment explanation
Indices: 42522--42572 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
42512 TTTGCTGCCC
42522 TTTTTTTTTATTTTTGCTTTGA
1 TTTTTTTTTATTTTTGCTTTGA
* *
42544 TTTTTCTTTGTTTTTGCTTTGA
1 TTTTTTTTTATTTTTGCTTTGA
42566 TTTTTTT
1 TTTTTTT
42573 CTCTCTGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTATTTTTGCTTTGA
Found at i:42548 original size:12 final size:12
Alignment explanation
Indices: 42531--42570 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
42521 CTTTTTTTTT
42531 ATTTTTGCTTTG
1 ATTTTTGCTTTG
42543 ATTTTT-CTTTG
1 ATTTTTGCTTTG
42554 -TTTTTGCTTTG
1 ATTTTTGCTTTG
42565 ATTTTT
1 ATTTTT
42571 TTCTCTCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.19
11 10 0.38
12 11 0.42
ACGTcount: A:0.07, C:0.07, G:0.12, T:0.72
Consensus pattern (12 bp):
ATTTTTGCTTTG
Found at i:42598 original size:12 final size:12
Alignment explanation
Indices: 42581--42628 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 12
42571 TTCTCTCTGC
42581 TCTTTGTTTTTT
1 TCTTTGTTTTTT
*
42593 TCTTTGCTCTTTTC
1 TCTTTG-T-TTTTT
*
42607 TCTTTG-ATTTT
1 TCTTTGTTTTTT
42618 TCTTTGTTTTT
1 TCTTTGTTTTT
42629 GATTGGATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 9 0.31
12 9 0.31
13 1 0.03
14 10 0.34
ACGTcount: A:0.02, C:0.15, G:0.08, T:0.75
Consensus pattern (12 bp):
TCTTTGTTTTTT
Found at i:42600 original size:19 final size:22
Alignment explanation
Indices: 42560--42604 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
42550 TTTGTTTTTG
42560 CTTTGATTTTTTTCTCTCTGCT
1 CTTTGATTTTTTTCTCTCTGCT
42582 CTTTG-TTTTTTTCT-T-TGCT
1 CTTTGATTTTTTTCTCTCTGCT
42601 CTTT
1 CTTT
42605 TCTCTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 9 0.39
22 5 0.22
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.69
Consensus pattern (22 bp):
CTTTGATTTTTTTCTCTCTGCT
Found at i:43314 original size:46 final size:45
Alignment explanation
Indices: 43221--43311 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
43211 ATAAATGCAG
* * * *
43221 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGAAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAAGAAA
43266 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCC-CAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGG-CCTCAAAGAGA-AGAA
43312 TGTCAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 11 0.28
46 23 0.59
47 5 0.13
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAAGAAA
Found at i:45794 original size:31 final size:32
Alignment explanation
Indices: 45738--45799 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
45728 TGACAAAATG
45738 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
45770 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
45800 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:48945 original size:18 final size:18
Alignment explanation
Indices: 48924--48964 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48914 TTTTTCTATC
48924 TTCTGTTTTTT-TTTTGTT
1 TTCTGTTTTTTCTTTT-TT
48942 TTCT-TTTTTTCCTTTTTT
1 TTCTGTTTTTT-CTTTTTT
48960 TTCTG
1 TTCTG
48965 AACCCCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (18 bp):
TTCTGTTTTTTCTTTTTT
Found at i:49450 original size:3 final size:3
Alignment explanation
Indices: 49442--49505 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
49432 CAAAAAATTG
* * **
49442 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49486 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
49506 CGAAAAAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 45 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:52277 original size:22 final size:22
Alignment explanation
Indices: 52249--52302 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
52239 TTACTTAAAG
52249 TTGCATTCATATAACATTGAAA
1 TTGCATTCATATAACATTGAAA
52271 TTGCATTCATATAACATTGAAA
1 TTGCATTCATATAACATTGAAA
52293 TTGCATTCAT
1 TTGCATTCAT
52303 TTCTCTCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (22 bp):
TTGCATTCATATAACATTGAAA
Found at i:52504 original size:12 final size:12
Alignment explanation
Indices: 52487--52514 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52477 TTGCATCTAC
52487 GTACGTACGTAT
1 GTACGTACGTAT
52499 GTACGTACGTAT
1 GTACGTACGTAT
52511 GTAC
1 GTAC
52515 ATATGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (12 bp):
GTACGTACGTAT
Found at i:52530 original size:12 final size:12
Alignment explanation
Indices: 52515--52602 Score: 68
Period size: 12 Copynumber: 7.2 Consensus size: 12
52505 ACGTATGTAC
*
52515 ATATGTACATAT
1 ATATGTACGTAT
52527 ATATGTACGTAT
1 ATATGTACGTAT
** *
52539 ATACATACGTAC
1 ATATGTACGTAT
* *
52551 GTATGTACCTAT
1 ATATGTACGTAT
* *
52563 ATATGTATGTGT
1 ATATGTACGTAT
*
52575 ACGTATGTACCTAT
1 A--TATGTACGTAT
*
52589 ATATGTATGTAT
1 ATATGTACGTAT
52601 AT
1 AT
52603 GTGTGTGCGT
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
12 47 0.84
14 9 0.16
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (12 bp):
ATATGTACGTAT
Found at i:52576 original size:26 final size:26
Alignment explanation
Indices: 52547--52598 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52537 ATATACATAC
52547 GTACGTATGTACCTATATATGTATGT
1 GTACGTATGTACCTATATATGTATGT
52573 GTACGTATGTACCTATATATGTATGT
1 GTACGTATGTACCTATATATGTATGT
52599 ATATGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
GTACGTATGTACCTATATATGTATGT
Found at i:52615 original size:10 final size:10
Alignment explanation
Indices: 52602--52686 Score: 107
Period size: 10 Copynumber: 8.5 Consensus size: 10
52592 TGTATGTATA
52602 TGTGTGTGCG
1 TGTGTGTGCG
* *
52612 TGTGTGCGTG
1 TGTGTGTGCG
* *
52622 TGTGCGTGTG
1 TGTGTGTGCG
* *
52632 TGCGTGTGTG
1 TGTGTGTGCG
*
52642 CGTGTGTGCG
1 TGTGTGTGCG
52652 TGTGTGTGCG
1 TGTGTGTGCG
52662 TGTGTGTGCG
1 TGTGTGTGCG
52672 TGTGTGTGCG
1 TGTGTGTGCG
52682 TGTGT
1 TGTGT
52687 ATGTAAATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 65 1.00
ACGTcount: A:0.00, C:0.11, G:0.49, T:0.40
Consensus pattern (10 bp):
TGTGTGTGCG
Found at i:52616 original size:8 final size:8
Alignment explanation
Indices: 52603--52686 Score: 118
Period size: 8 Copynumber: 10.8 Consensus size: 8
52593 GTATGTATAT
52603 GTGTGTGC
1 GTGTGTGC
52611 GTGTGTGC
1 GTGTGTGC
52619 GTGTGTGC
1 GTGTGTGC
52627 GTGTGTGC
1 GTGTGTGC
52635 GTGTGTGC
1 GTGTGTGC
52643 GTGTGTGC
1 GTGTGTGC
52651 GTGTGT--
1 GTGTGTGC
* *
52657 GTGCGTGT
1 GTGTGTGC
* *
52665 GTGTGCGT
1 GTGTGTGC
52673 GTGTGTGC
1 GTGTGTGC
52681 GTGTGT
1 GTGTGT
52687 ATGTAAATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
6 5 0.07
8 64 0.93
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (8 bp):
GTGTGTGC
Found at i:52704 original size:16 final size:16
Alignment explanation
Indices: 52685--52739 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
52675 GTGTGCGTGT
* *
52685 GTATGTAAATATGTAC
1 GTATGTAAGTATATAC
** *
52701 GTATGTCCGTATTTAC
1 GTATGTAAGTATATAC
*
52717 GTATGTATGTATATAC
1 GTATGTAAGTATATAC
52733 GTATGTA
1 GTATGTA
52740 TGTACATATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (16 bp):
GTATGTAAGTATATAC
Found at i:52705 original size:8 final size:8
Alignment explanation
Indices: 52694--52739 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
52684 TGTATGTAAA
52694 TATGTACG
1 TATGTACG
*
52702 TATGTCCG
1 TATGTACG
*
52710 TATTTACG
1 TATGTACG
*
52718 TATGTATG
1 TATGTACG
*
52726 TATATACG
1 TATGTACG
52734 TATGTA
1 TATGTA
52740 TGTACATATG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (8 bp):
TATGTACG
Found at i:52740 original size:16 final size:16
Alignment explanation
Indices: 52714--52767 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
52704 TGTCCGTATT
*
52714 TACGTATGTATGTATA
1 TACGTATGTATGTACA
52730 TACGTATGTATGTACA
1 TACGTATGTATGTACA
* * *
52746 TATGTACGTATATACA
1 TACGTATGTATGTACA
52762 TACGTA
1 TACGTA
52768 CATACGTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (16 bp):
TACGTATGTATGTACA
Found at i:52768 original size:16 final size:16
Alignment explanation
Indices: 52714--52778 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 16
52704 TGTCCGTATT
* *
52714 TACGTATGTATGTATA
1 TACGTACGTATGTACA
*
52730 TACGTATGTATGTACA
1 TACGTACGTATGTACA
* *
52746 TATGTACGTATATACA
1 TACGTACGTATGTACA
* *
52762 TACGTACATACGTACA
1 TACGTACGTATGTACA
52778 T
1 T
52779 GTACCTGTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (16 bp):
TACGTACGTATGTACA
Found at i:52820 original size:14 final size:14
Alignment explanation
Indices: 52801--52830 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52791 ACGTACCTAC
*
52801 GTACCTGTGTGTGT
1 GTACCTATGTGTGT
52815 GTACCTATGTGTGT
1 GTACCTATGTGTGT
52829 GT
1 GT
52831 GCGCGCGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.33, T:0.43
Consensus pattern (14 bp):
GTACCTATGTGTGT
Found at i:52872 original size:8 final size:10
Alignment explanation
Indices: 52825--52887 Score: 85
Period size: 10 Copynumber: 6.5 Consensus size: 10
52815 GTACCTATGT
52825 GTGTGTGCGC
1 GTGTGTGCGC
* *
52835 GCGTGCGCGC
1 GTGTGTGCGC
*
52845 GTGTGCGCGC
1 GTGTGTGCGC
52855 GTGTGTGCGC
1 GTGTGTGCGC
52865 GTG-G-GCGC
1 GTGTGTGCGC
52873 GTGTGTGCGC
1 GTGTGTGCGC
52883 GTGTG
1 GTGTG
52888 CGGGTGAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.15
9 2 0.04
10 38 0.81
ACGTcount: A:0.00, C:0.24, G:0.52, T:0.24
Consensus pattern (10 bp):
GTGTGTGCGC
Found at i:52898 original size:18 final size:18
Alignment explanation
Indices: 52827--52966 Score: 86
Period size: 18 Copynumber: 7.8 Consensus size: 18
52817 ACCTATGTGT
* * *
52827 GTGTGCGCGCGTGCGCGC
1 GTGTGCGGGTGTGTGCGC
52845 GTGTGCGCGCGTGTGTGCGC
1 GTGTGCG-G-GTGTGTGCGC
* *
52865 GTGGGCGCGTGTGTGCGC
1 GTGTGCGGGTGTGTGCGC
* **
52883 GTGTGCGGGTGAGTGCTT
1 GTGTGCGGGTGTGTGCGC
* * * * * *
52901 ATGTGTGTGTGTGCGTGT
1 GTGTGCGGGTGTGTGCGC
*
52919 GTGTGCGGGTGTAT--GC
1 GTGTGCGGGTGTGTGCGC
* *
52935 GTGTGCGTGTGTGTGCGT
1 GTGTGCGGGTGTGTGCGC
*
52953 GTGTGCGTGTGTGT
1 GTGTGCGGGTGTGT
52967 CCGTGTGTAT
Statistics
Matches: 92, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
16 13 0.14
18 65 0.71
20 14 0.15
ACGTcount: A:0.02, C:0.16, G:0.50, T:0.31
Consensus pattern (18 bp):
GTGTGCGGGTGTGTGCGC
Found at i:52918 original size:8 final size:8
Alignment explanation
Indices: 52857--52965 Score: 65
Period size: 8 Copynumber: 12.9 Consensus size: 8
52847 GTGCGCGCGT
*
52857 GTGTGCGC
1 GTGTGTGC
* *
52865 GTGGGCGC
1 GTGTGTGC
52873 GTGTGTGC
1 GTGTGTGC
*
52881 GCGTGTGC
1 GTGTGTGC
*
52889 GGGTGAGTGC
1 --GTGTGTGC
* * *
52899 TTATGTGT
1 GTGTGTGC
52907 GTGTGTGC
1 GTGTGTGC
52915 GTGTGTGTGC
1 --GTGTGTGC
*
52925 GGGTGTATGC
1 --GTGTGTGC
* *
52935 GTGTGCGT
1 GTGTGTGC
52943 GTGTGTGC
1 GTGTGTGC
52951 GTGTGTGC
1 GTGTGTGC
52959 GTGTGTG
1 GTGTGTG
52966 TCCGTGTGTA
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
8 55 0.71
10 22 0.29
ACGTcount: A:0.03, C:0.13, G:0.50, T:0.34
Consensus pattern (8 bp):
GTGTGTGC
Found at i:52920 original size:10 final size:10
Alignment explanation
Indices: 52823--52974 Score: 75
Period size: 10 Copynumber: 15.6 Consensus size: 10
52813 GTGTACCTAT
52823 GTGTGTGTGC
1 GTGTGTGTGC
* * *
52833 GCGCGTGCGC
1 GTGTGTGTGC
* *
52843 GCGTGTGCGC
1 GTGTGTGTGC
*
52853 GCGTGTGTGC
1 GTGTGTGTGC
* * *
52863 GCGTGGGCGC
1 GTGTGTGTGC
*
52873 GTGTGTGCGC
1 GTGTGTGTGC
* *
52883 GTGTGCGGGTGA
1 GTGT--GTGTGC
* *
52895 GTGCT-TATGT
1 GTG-TGTGTGC
52905 GTGTGTGTGC
1 GTGTGTGTGC
52915 GTGTGTGTGC
1 GTGTGTGTGC
52925 G-G-GTGT--
1 GTGTGTGTGC
* *
52931 ATGCGTGTGC
1 GTGTGTGTGC
52941 GTGTGTGTGC
1 GTGTGTGTGC
52951 --GTGTGTGC
1 GTGTGTGTGC
*
52959 GTGTGTGTCC
1 GTGTGTGTGC
52969 GTGTGT
1 GTGTGT
52975 ATTAAGAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
7 1 0.01
8 16 0.14
9 2 0.02
10 85 0.77
12 6 0.05
13 1 0.01
ACGTcount: A:0.02, C:0.16, G:0.49, T:0.32
Consensus pattern (10 bp):
GTGTGTGTGC
Found at i:52923 original size:36 final size:36
Alignment explanation
Indices: 52883--52957 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
52873 GTGTGTGCGC
* *
52883 GTGTGCGGGTG-AGTGCTTATGTGTGTGTGTGCGTGT
1 GTGTGCGGGTGTA-TGCGTATGCGTGTGTGTGCGTGT
*
52919 GTGTGCGGGTGTATGCGTGTGCGTGTGTGTGCGTGT
1 GTGTGCGGGTGTATGCGTATGCGTGTGTGTGCGTGT
52955 GTG
1 GTG
52958 CGTGTGTGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.04, C:0.09, G:0.49, T:0.37
Consensus pattern (36 bp):
GTGTGCGGGTGTATGCGTATGCGTGTGTGTGCGTGT
Found at i:52971 original size:18 final size:18
Alignment explanation
Indices: 52935--52974 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
52925 GGGTGTATGC
*
52935 GTGTGCGTGTGTGTGCGT
1 GTGTGCGTGTGTGTCCGT
52953 GTGTGCGTGTGTGTCCGT
1 GTGTGCGTGTGTGTCCGT
52971 GTGT
1 GTGT
52975 ATTAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.12, G:0.47, T:0.40
Consensus pattern (18 bp):
GTGTGCGTGTGTGTCCGT
Found at i:52972 original size:16 final size:16
Alignment explanation
Indices: 52919--52973 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
52909 GTGTGCGTGT
* * *
52919 GTGTGCGGGTGTATGC
1 GTGTGCGTGTGTGTCC
*
52935 GTGTGCGTGTGTGTGCGT
1 GTGTGCGTGTGTGT-C-C
52953 GTGTGCGTGTGTGTCC
1 GTGTGCGTGTGTGTCC
52969 GTGTG
1 GTGTG
52974 TATTAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 17 0.53
17 1 0.03
18 14 0.44
ACGTcount: A:0.02, C:0.13, G:0.49, T:0.36
Consensus pattern (16 bp):
GTGTGCGTGTGTGTCC
Found at i:53686 original size:13 final size:14
Alignment explanation
Indices: 53657--53689 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
53647 ATATTTAAGT
53657 TAATATATATATATA
1 TAAT-TATATATATA
53672 TAATTATAT-TATA
1 TAATTATATATATA
53685 TAATT
1 TAATT
53690 CGAGTCACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATATATATA
Found at i:53954 original size:39 final size:39
Alignment explanation
Indices: 53911--54016 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
53901 TTTAAAAAAT
53911 AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTAAG
*
53950 AATTTAGAACGTT-ATGGTGTCAA-AATTTAAGAAATTAAG
1 AATTTAGAACGTTAAT-GTG-AAATAATTTAAGAAATTAAG
* * *
53989 ATTTTAGAATGTTAGA-GTAAAATAATTT
1 AATTTAGAACGTTA-ATGTGAAATAATTT
54017 GAGGATTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
38 4 0.07
39 50 0.88
40 2 0.04
41 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.36
Consensus pattern (39 bp):
AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTAAG
Found at i:54044 original size:12 final size:12
Alignment explanation
Indices: 54027--54063 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
54017 GAGGATTATG
54027 AATAAAATAAAA
1 AATAAAATAAAA
54039 AATAAAATAAAA
1 AATAAAATAAAA
54051 TAA-AAAATAAAA
1 -AATAAAATAAAA
54063 A
1 A
54064 GTATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 21 0.88
13 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:54049 original size:17 final size:17
Alignment explanation
Indices: 54027--54062 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
54017 GAGGATTATG
54027 AATAAAATAAAAAATAA
1 AATAAAATAAAAAATAA
54044 AATAAAATAAAAAATAA
1 AATAAAATAAAAAATAA
54061 AA
1 AA
54063 AGTATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAATAAAAAATAA
Found at i:54472 original size:32 final size:31
Alignment explanation
Indices: 54398--54475 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
54388 AGTTAACTCG
* * **
54398 AGTGACTACATATTAATTAAATAAAAATGAA
1 AGTGACTATATCTTAATTAAATAAAAAAAAA
54429 AGTGA-TCATATCTTAATTAAATAAAAACAAAA
1 AGTGACT-ATATCTTAATTAAATAAAAA-AAAA
54461 AGTGACTATATCTTA
1 AGTGACTATATCTTA
54476 TGTTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 23 0.57
32 15 0.38
33 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (31 bp):
AGTGACTATATCTTAATTAAATAAAAAAAAA
Found at i:60555 original size:92 final size:92
Alignment explanation
Indices: 60393--60562 Score: 227
Period size: 92 Copynumber: 1.8 Consensus size: 92
60383 TGGAAAATCA
* * *
60393 AAATGAAATGTTGAGAAAGGAGTTAGAGCTTTCAAAAATAAAATCTGAAAACTTTGAAAAAGAAA
1 AAATGAAATCTTGAGAAAGGAGTTAGAACTCTCAAAAATAAAATCTGAAAACTTTGAAAAAGAAA
*
60458 TTTTCAAATTAAACAAACTTCTTCTAG
66 ATTTCAAATTAAACAAACTTCTTCTAG
* * * *
60485 AAATGAAATCTTGA-AGAAGGATTTAGAACTCTCAAAAATGAAATTTG-AAAGTATTGAAAAAGA
1 AAATGAAATCTTGAGA-AAGGAGTTAGAACTCTCAAAAATAAAATCTGAAAACT-TTGAAAAAGA
*
60548 AAATTTCAATTTAAA
64 AAATTTCAAATTAAA
60563 AGATAAGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 5 0.07
92 62 0.93
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.28
Consensus pattern (92 bp):
AAATGAAATCTTGAGAAAGGAGTTAGAACTCTCAAAAATAAAATCTGAAAACTTTGAAAAAGAAA
ATTTCAAATTAAACAAACTTCTTCTAG
Found at i:64481 original size:21 final size:21
Alignment explanation
Indices: 64455--64494 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64445 CCCCCTTTGA
*
64455 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
64476 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
64495 CTGGGGTTCT
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:68806 original size:2 final size:2
Alignment explanation
Indices: 68799--68824 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68789 TCTTACGTTG
68799 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68825 GTACTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72054 original size:13 final size:12
Alignment explanation
Indices: 72045--72083 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 12
72035 CAAAAATATC
72045 TTTTAAAAATAA
1 TTTTAAAAATAA
72057 TTTTAAAAAAATAA
1 TTTT--AAAAATAA
72071 TTTTAAAAGATAA
1 TTTTAAAA-ATAA
72084 AAAATTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTTTAAAAATAA
Found at i:72066 original size:14 final size:14
Alignment explanation
Indices: 72049--72078 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
72039 AATATCTTTT
72049 AAAAATAATTTTAA
1 AAAAATAATTTTAA
72063 AAAAATAATTTTAA
1 AAAAATAATTTTAA
72077 AA
1 AA
72079 GATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATAATTTTAA
Found at i:73820 original size:3 final size:3
Alignment explanation
Indices: 73814--73840 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
73804 ATAATAATAA
73814 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
73841 AAATACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:75084 original size:23 final size:23
Alignment explanation
Indices: 75052--75100 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
75042 GAAATGTGAG
75052 ATTTTCATGGGAATGTAATTCAC
1 ATTTTCATGGGAATGTAATTCAC
*
75075 ATTTTTATGGGAATGTAATTCAC
1 ATTTTCATGGGAATGTAATTCAC
75098 ATT
1 ATT
75101 CCCATTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (23 bp):
ATTTTCATGGGAATGTAATTCAC
Found at i:75449 original size:35 final size:36
Alignment explanation
Indices: 75408--75480 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
75398 CATTAAACCT
*
75408 TTTTAT-ATTTTAATTTTATAAAAAATATATATAAA
1 TTTTATAATTTAAATTTTATAAAAAATATATATAAA
* *
75443 TTTTATAAATTTAAATTTTTTAAAATATATATATAAA
1 TTTTAT-AATTTAAATTTTATAAAAAATATATATAAA
75480 T
1 T
75481 ATTTTTTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 6 0.18
37 27 0.82
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTTATAATTTAAATTTTATAAAAAATATATATAAA
Found at i:75662 original size:20 final size:17
Alignment explanation
Indices: 75620--75671 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 17
75610 ATACAATATT
75620 TCTAATAATCTT-ATTC
1 TCTAATAATCTTAATTC
75636 TCTAATAATCTTACATTC
1 TCTAATAATCTTA-ATTC
75654 TCACTAATAATCTTAATT
1 T--CTAATAATCTTAATT
75672 TTCGTGAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 12 0.38
18 5 0.16
19 3 0.09
20 12 0.38
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (17 bp):
TCTAATAATCTTAATTC
Found at i:76001 original size:2 final size:2
Alignment explanation
Indices: 75996--76022 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75986 ATATTATTCT
75996 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 T
76023 TAGTTGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77266 original size:30 final size:30
Alignment explanation
Indices: 77227--77506 Score: 234
Period size: 30 Copynumber: 9.5 Consensus size: 30
77217 TTGCCACCGG
* *
77227 TCACTCTTCCTCCTGTTGTAAAACCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
* * * *
77257 TCACACTTCCTCCGGTCGTCAAGCCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
* * ** * *
77287 TCACTCTTCCTCCTGCAGTGAAGCCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
*
77317 TCACACTTCCTCCAGTTGTAAGACCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
* *
77347 TCACACTTCCTCCAG-TG--AAGCCACCAGT
1 TCACACTTCCTCCAGTTGTAAAACCACCA-A
* * ** *
77375 TGA-ACTCCCTCCAAATGTTAAACCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
77404 TCACACTTCCTCCAGTTGTAAAACCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
* *
77434 TCACACTTCCTCCAG-TG--AAGCCACCAGT
1 TCACACTTCCTCCAGTTGTAAAACCACCA-A
* * ** *
77462 TGA-ACTCCCTCCAACTGTTAAACCACCAA
1 TCACACTTCCTCCAGTTGTAAAACCACCAA
*
77491 TCACGCTTCCTCCAGT
1 TCACACTTCCTCCAGT
77507 AACAATTCCT
Statistics
Matches: 198, Mismatches: 42, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
27 33 0.17
28 8 0.04
29 8 0.04
30 149 0.75
ACGTcount: A:0.28, C:0.39, G:0.10, T:0.23
Consensus pattern (30 bp):
TCACACTTCCTCCAGTTGTAAAACCACCAA
Found at i:77418 original size:87 final size:87
Alignment explanation
Indices: 77227--77506 Score: 377
Period size: 87 Copynumber: 3.2 Consensus size: 87
77217 TTGCCACCGG
* * * * *
77227 TCACTCTTCCTCCTGTTGTAAAACCACCAATCACACTTCCTCCGGTCGTCAAGCCACCA-AT-CA
1 TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGT-G--AAGCCACCAGTTGAA
** * *
77290 CTCTTCCTCCTGCA-GTGAAGCCACCAA
63 CTC--CCTCC-AAATGTTAAACCACCAA
*
77317 TCACACTTCCTCCAGTTGTAAGACCACCAATCACACTTCCTCCAGTGAAGCCACCAGTTGAACTC
1 TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGTGAAGCCACCAGTTGAACTC
77382 CCTCCAAATGTTAAACCACCAA
66 CCTCCAAATGTTAAACCACCAA
77404 TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGTGAAGCCACCAGTTGAACTC
1 TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGTGAAGCCACCAGTTGAACTC
*
77469 CCTCCAACTGTTAAACCACCAA
66 CCTCCAAATGTTAAACCACCAA
*
77491 TCACGCTTCCTCCAGT
1 TCACACTTCCTCCAGT
77507 AACAATTCCT
Statistics
Matches: 174, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
86 1 0.01
87 125 0.72
88 1 0.01
89 5 0.03
90 42 0.24
ACGTcount: A:0.28, C:0.39, G:0.10, T:0.23
Consensus pattern (87 bp):
TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGTGAAGCCACCAGTTGAACTC
CCTCCAAATGTTAAACCACCAA
Found at i:77458 original size:57 final size:58
Alignment explanation
Indices: 77227--77506 Score: 248
Period size: 57 Copynumber: 4.8 Consensus size: 58
77217 TTGCCACCGG
* * * *
77227 TCACTCTTCCTCCTGTTGTAAAACCACCAATCACACTTCCTCCGGTCGTCAAGCCACCAA
1 TCACACTTCCTCCAGCTGTAAAACCACCAATCACACTTCCTCCAGT-GT-AAGCCACCAA
* * * * *
77287 TCACTCTTCCTCCTGCAGTGAAGCCACCAATCACACTTCCTCCAGTTGTAAGACCACCAA
1 TCACACTTCCTCCAGCTGTAAAACCACCAATCACACTTCCTCCAG-TGTAAG-CCACCAA
* * * * * *
77347 TCACACTTCCTCCAG-TG--AAGCCACCAGTTGA-ACTCCCTCCAAATGTTAAACCACCAA
1 TCACACTTCCTCCAGCTGTAAAACCACCA-ATCACACTTCCTCC-AGTG-TAAGCCACCAA
* *
77404 TCACACTTCCTCCAGTTGTAAAACCACCAATCACACTTCCTCCAGTG-AAGCCACCAGT
1 TCACACTTCCTCCAGCTGTAAAACCACCAATCACACTTCCTCCAGTGTAAGCCACCA-A
* * * * *
77462 TGA-ACTCCCTCCAACTGTTAAACCACCAATCACGCTTCCTCCAGT
1 TCACACTTCCTCCAGCTGTAAAACCACCAATCACACTTCCTCCAGT
77507 AACAATTCCT
Statistics
Matches: 184, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
57 86 0.47
58 10 0.05
59 9 0.05
60 78 0.42
61 1 0.01
ACGTcount: A:0.28, C:0.39, G:0.10, T:0.23
Consensus pattern (58 bp):
TCACACTTCCTCCAGCTGTAAAACCACCAATCACACTTCCTCCAGTGTAAGCCACCAA
Found at i:77557 original size:72 final size:71
Alignment explanation
Indices: 77440--77577 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 71
77430 CCAATCACAC
77440 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAACTGTTAAACCACCAATCACGCTTCCTCCA
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAACTGTTAAACCACCAATCACGCTTCC-CCA
77505 GTAACAA
65 GTAACAA
* ** * *
77512 TTCCTCCGGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCGCCAATTACGCTTCCCCAG
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAACTGTTAAACCACCAATCACGCTTCCCCAG
77577 T
66 T
77578 TGGACTACCT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 5 0.08
72 56 0.92
ACGTcount: A:0.25, C:0.37, G:0.14, T:0.24
Consensus pattern (71 bp):
TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAACTGTTAAACCACCAATCACGCTTCCCCAG
TAACAA
Found at i:77589 original size:44 final size:44
Alignment explanation
Indices: 77529--77712 Score: 138
Period size: 45 Copynumber: 4.1 Consensus size: 44
77519 GGTGAAGCCA
* * * * * *
77529 CCAGTTGAACTCCCTCCAGTTGTTAAACCGCCAATTACGCTTCC
1 CCAGTTGAACTACCTCCAGCTCTAAAACCACCAATTACACTTCC
*
77573 CCAGTTGGACTACCTCCAGCTCTAAAACCACCAATTACACTTCC
1 CCAGTTGAACTACCTCCAGCTCTAAAACCACCAATTACACTTCC
* * * * ** *
77617 TCC-GGTG-ACTGTTCCTCCAGTTGTAAAGTCACCAATTACACTCCC
1 -CCAGTTGAAC--TACCTCCAGCTCTAAAACCACCAATTACACTTCC
* * * **
77662 TCCGGTAGAACTCCCTCCAGCTCTAAAACCACCTGTTACACTTCC
1 -CCAGTTGAACTACCTCCAGCTCTAAAACCACCAATTACACTTCC
77707 TCCAGT
1 -CCAGT
77713 GACTGTTCCT
Statistics
Matches: 110, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
43 2 0.02
44 40 0.36
45 64 0.58
46 2 0.02
47 2 0.02
ACGTcount: A:0.24, C:0.37, G:0.12, T:0.26
Consensus pattern (44 bp):
CCAGTTGAACTACCTCCAGCTCTAAAACCACCAATTACACTTCC
Found at i:77650 original size:45 final size:45
Alignment explanation
Indices: 77585--77724 Score: 167
Period size: 45 Copynumber: 3.1 Consensus size: 45
77575 AGTTGGACTA
77585 CCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGTGACTGTT
1 CCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGTGACTGTT
* * ** * *
77630 CCTCCAGTTGTAAAGTCACCAATTACACTCCCTCCGGTAGAAC--TC
1 CCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGT-G-ACTGTT
** *
77675 CCTCCAGCTCTAAAACCACCTGTTACACTTCCTCCAGTGACTGTT
1 CCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGTGACTGTT
77720 CCTCC
1 CCTCC
77725 GGTGACGGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 70 0.92
46 1 0.01
47 2 0.03
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.26
Consensus pattern (45 bp):
CCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGTGACTGTT
Found at i:77723 original size:15 final size:15
Alignment explanation
Indices: 77703--77736 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
77693 CCTGTTACAC
*
77703 TTCCTCCAGTGACTG
1 TTCCTCCAGTGACGG
*
77718 TTCCTCCGGTGACGG
1 TTCCTCCAGTGACGG
77733 TTCC
1 TTCC
77737 CCCTGTACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.35, G:0.24, T:0.32
Consensus pattern (15 bp):
TTCCTCCAGTGACGG
Found at i:78195 original size:20 final size:20
Alignment explanation
Indices: 78167--78280 Score: 84
Period size: 20 Copynumber: 5.5 Consensus size: 20
78157 TGCTCTCTCC
78167 ACACACGCACGCACGCACCA
1 ACACACGCACGCACGCACCA
* * *
78187 ACGCACGCACCCACGCACCC
1 ACACACGCACGCACGCACCA
* * * *
78207 ACGCACGCGCACACACACGCA
1 ACACACGCACGCACGCAC-CA
* * *
78228 CACACACGCACGCGCACACAA
1 -ACACACGCACGCACGCACCA
* *
78249 ACACACACACGCACGCGCGCA
1 ACACACGCACGCACGCAC-CA
78270 CACACACGCAC
1 -ACACACGCAC
78281 ACGCACACGC
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 46 0.64
21 3 0.04
22 23 0.32
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (20 bp):
ACACACGCACGCACGCACCA
Found at i:78213 original size:12 final size:12
Alignment explanation
Indices: 78166--78525 Score: 204
Period size: 12 Copynumber: 29.5 Consensus size: 12
78156 TTGCTCTCTC
78166 CACACACGCACG
1 CACACACGCACG
*
78178 CACGCAC-CAACG
1 CACACACGC-ACG
* *
78190 CACGCACCCACG
1 CACACACGCACG
*
78202 CACCCACGCACG
1 CACACACGCACG
* *
78214 CGCACACACACG
1 CACACACGCACG
78226 CACACACACGCACG
1 --CACACACGCACG
* ** *
78240 CGCACACAAACA
1 CACACACGCACG
78252 CACACACGCACGCG
1 CACACACGCA--CG
* *
78266 CGCACACACACG
1 CACACACGCACG
* *
78278 CACACGCACACG
1 CACACACGCACG
* *
78290 CACACGCACACG
1 CACACACGCACG
* *
78302 CACACGCACACG
1 CACACACGCACG
* *
78314 CACACGCACACG
1 CACACACGCACG
* *
78326 CACACGCACACG
1 CACACACGCACG
* *
78338 CACACGCACACG
1 CACACACGCACG
*
78350 CACACACGCATGTG
1 CACACACGCA--CG
* *
78364 CACACACACACA
1 CACACACGCACG
* *
78376 CACGCACGCTCG
1 CACACACGCACG
* * * *
78388 CGCGCACACACA
1 CACACACGCACG
78400 CACACACGCACTCG
1 CACACACGCA--CG
* *
78414 CACACGCACACG
1 CACACACGCACG
*
78426 CACACGCGCACG
1 CACACACGCACG
*
78438 CACACGCGCACG
1 CACACACGCACG
* * * *
78450 CGCGCACACACA
1 CACACACGCACG
78462 CACACACGCA--
1 CACACACGCACG
** *
78472 CACACAAACACA
1 CACACACGCACG
78484 CACACACGCACG
1 CACACACGCACG
*
78496 CACGCACGCACG
1 CACACACGCACG
*
78508 CACGCACGCACG
1 CACACACGCACG
78520 CACACA
1 CACACA
78526 TTTTTTATTG
Statistics
Matches: 280, Mismatches: 56, Indels: 24
0.78 0.16 0.07
Matches are distributed among these distances:
10 8 0.03
11 1 0.00
12 232 0.83
13 1 0.00
14 38 0.14
ACGTcount: A:0.33, C:0.49, G:0.16, T:0.01
Consensus pattern (12 bp):
CACACACGCACG
Found at i:78475 original size:18 final size:18
Alignment explanation
Indices: 78210--78524 Score: 242
Period size: 18 Copynumber: 17.2 Consensus size: 18
78200 CGCACCCACG
*
78210 CACGCGCACACACACGCA
1 CACGCACACACACACGCA
* *
78228 CA--CACACGCACGCGCA
1 CACGCACACACACACGCA
**
78244 CACAAACACACACACGCA
1 CACGCACACACACACGCA
* *
78262 CGCGCGCACACACACGCA
1 CACGCACACACACACGCA
*
78280 CACGCACACGCACACGCA
1 CACGCACACACACACGCA
*
78298 CACGCACACGCACACGCA
1 CACGCACACACACACGCA
*
78316 CACGCACACGCACACGCA
1 CACGCACACACACACGCA
*
78334 CACGCACACGCACACGCACA
1 CACGCACACACACACG--CA
*
78354 CACGCATGTGCACACACACACA
1 CACGCA----CACACACACGCA
* * * *
78376 CACGCACGCTCGCGCGCA
1 CACGCACACACACACGCA
78394 CA--CACACACACACGCA
1 CACGCACACACACACGCA
* *
78410 CTCGCACACGCACACGCA
1 CACGCACACACACACGCA
* *
78428 CACGCGCACGCACACGCGCA
1 CA--CGCACACACACACGCA
* * *
78448 CGCGCGCACACACACACA
1 CACGCACACACACACGCA
* *
78466 CACGCACACACAAACACA
1 CACGCACACACACACGCA
* * *
78484 CACACACGCACGCACGCA
1 CACGCACACACACACGCA
* *
78502 CGCACGCACGCACGCACGCA
1 --CACGCACACACACACGCA
78522 CAC
1 CAC
78525 ATTTTTTATT
Statistics
Matches: 239, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
16 24 0.10
18 160 0.67
20 39 0.16
22 8 0.03
24 8 0.03
ACGTcount: A:0.33, C:0.49, G:0.17, T:0.01
Consensus pattern (18 bp):
CACGCACACACACACGCA
Found at i:78490 original size:6 final size:6
Alignment explanation
Indices: 78206--78474 Score: 244
Period size: 6 Copynumber: 45.5 Consensus size: 6
78196 CCCACGCACC
* * **
78206 CACGCA CGCGCA CA--CA CACGCA CA--CA CACGCA CGCGCA CACAAA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
78250 CACACA CACGCA CGCGCG CACACA CACGCA CACGCA CACGCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
78298 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * ** * * * * *
78346 CACGCA CACACG CATGTG CACACA CACACA CACG-- CACGCT CGCGCG
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
78392 CACACA CACACA CACGCA CTCGCA CACGCA CACGCA CACGCG CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
78440 CACGCGCA CGCGCG CACACA CACACA CACGCA CAC
1 CA--CGCA CACGCA CACGCA CACGCA CACGCA CAC
78475 ACAAACACAC
Statistics
Matches: 215, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
4 12 0.06
6 198 0.92
8 5 0.02
ACGTcount: A:0.33, C:0.49, G:0.17, T:0.01
Consensus pattern (6 bp):
CACGCA
Found at i:88448 original size:17 final size:17
Alignment explanation
Indices: 88426--88469 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
88416 ATGTAAAAAT
88426 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
88443 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
88460 AAATATTTAA
1 AAATATTTAA
88470 TCAAGTAGTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:93844 original size:2 final size:2
Alignment explanation
Indices: 93837--93870 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93827 AAATGTGTTA
93837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93871 CGCATCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94435 original size:39 final size:39
Alignment explanation
Indices: 94349--94440 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
94339 ATTATCACTC
*
94349 TAACATTCTAAAATCCTAATTTCTTAAATTTTGGCACAA
1 TAACATTCTAAATTCCTAATTTCTTAAATTTTGGCACAA
* * * *
94388 TAATATTCTAAATTCTTAATTTCTTAAATTATT-TCACAT
1 TAACATTCTAAATTCCTAATTTCTTAAATT-TTGGCACAA
94427 TAACATTCTAAATT
1 TAACATTCTAAATT
94441 ATTTTTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 44 0.96
40 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (39 bp):
TAACATTCTAAATTCCTAATTTCTTAAATTTTGGCACAA
Found at i:94721 original size:18 final size:20
Alignment explanation
Indices: 94692--94741 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
94682 AATATAATTT
*
94692 TATATATATTAACTTA-AAA
1 TATATTTATTAACTTATAAA
94711 TAT-TTTATTAACTTATTAAA
1 TATATTTATTAACTTA-TAAA
94731 TATATTTATTA
1 TATATTTATTA
94742 TTAACTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 11 0.41
19 3 0.11
20 6 0.22
21 7 0.26
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATTTATTAACTTATAAA
Found at i:94740 original size:26 final size:28
Alignment explanation
Indices: 94711--94768 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 28
94701 TAACTTAAAA
94711 TATTTTATTAACTT-A-TT-AAATATATT
1 TATTTTATTAACTTAATTTAAAATAT-TT
94737 TA--TTATTAACTTAATTTAAAATATTT
1 TATTTTATTAACTTAATTTAAAATATTT
94763 TATTTT
1 TATTTT
94769 TATTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
24 10 0.37
25 1 0.04
26 8 0.30
27 6 0.22
28 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTTTATTAACTTAATTTAAAATATTT
Found at i:94747 original size:24 final size:25
Alignment explanation
Indices: 94700--94762 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
94690 TTTATATATA
*
94700 TTAACTTAAAATA-TT-TTATTAAC
1 TTAATTTAAAATATTTATTATTAAC
94723 TT-A-TTAAATATATTTATTATTAAC
1 TTAATTTAAA-ATATTTATTATTAAC
94747 TTAATTTAAAATATTT
1 TTAATTTAAAATATTT
94763 TATTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 4 0.11
24 10 0.29
25 7 0.20
26 5 0.14
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAATTTAAAATATTTATTATTAAC
Found at i:99324 original size:35 final size:35
Alignment explanation
Indices: 99285--99354 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
99275 TGGTATGTTG
*
99285 TAATTTTCACGAGGACCATCTTCTTAAGTATGTAA
1 TAATTTTCACGAGGACCATCTTCATAAGTATGTAA
* *
99320 TAATTTTCATGAGGACCATCTTCATGAGTATGTAA
1 TAATTTTCACGAGGACCATCTTCATAAGTATGTAA
99355 CAATAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (35 bp):
TAATTTTCACGAGGACCATCTTCATAAGTATGTAA
Found at i:103333 original size:42 final size:42
Alignment explanation
Indices: 103271--103352 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
103261 AAGGCCTTAT
* * *
103271 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
* *
103313 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
103353 TAAATTGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:103848 original size:214 final size:215
Alignment explanation
Indices: 103073--103917 Score: 1389
Period size: 215 Copynumber: 4.0 Consensus size: 215
103063 CTCTCTTTTG
* *
103073 AAGGCTTA-AAATTACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAA-G
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
103136 ACTTATAAATTGTGAAATTTTGAAAATCAC-TTCTTCGTTTTTAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
* * *
103200 ATCATTTT-TCATTTT-AAATAC-TTGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGA
131 GTCATTTTCTCATTTTCAAATTCATT-TGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAA
*
103262 AGGCCTTATCATCTTGCTCTA
195 AGGACTTATCATCTTGCTCTA
103283 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
103348 ATTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
*
103413 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCAAA
131 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAAA
103478 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
*
103498 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTGCTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
103563 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTTCTTGAAAA
66 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
* * *
103628 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAG
131 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAAA
*
103693 GGACTTATCATCTTGCTCGA
196 GGACTTATCATCTTGCTCTA
* * * *
103713 ATGGCTTATAGATGA-CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGA
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
103777 ACTTATAAATTGTGATATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTGGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
*
103842 GTCATTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAA
131 GTCATTTTCTCA-TTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAA
103907 AGGACTTATCA
195 AGGACTTATCA
103918 ATTTTGGAAA
Statistics
Matches: 593, Mismatches: 35, Indels: 9
0.93 0.05 0.01
Matches are distributed among these distances:
210 8 0.01
211 52 0.09
212 29 0.05
213 39 0.07
214 125 0.21
215 338 0.57
216 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (215 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAAA
GGACTTATCATCTTGCTCTA
Found at i:111499 original size:17 final size:19
Alignment explanation
Indices: 111477--111516 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
111467 CGTTTTTGTC
111477 ATTTTAAATAAAA-AATA-
1 ATTTTAAATAAAACAATAT
*
111494 ATTTTAATTAAAACAATAT
1 ATTTTAAATAAAACAATAT
111513 ATTT
1 ATTT
111517 AGGTCGCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTAAATAAAACAATAT
Found at i:116735 original size:21 final size:21
Alignment explanation
Indices: 116711--116758 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
116701 TTCCCTTATT
116711 TATTCATTCGATTTTGAATTC
1 TATTCATTCGATTTTGAATTC
116732 TATTCATTCGATTTTGAATTC
1 TATTCATTCGATTTTGAATTC
*
116753 AATTCA
1 TATTCA
116759 ATCATGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (21 bp):
TATTCATTCGATTTTGAATTC
Found at i:117625 original size:68 final size:67
Alignment explanation
Indices: 117517--117680 Score: 267
Period size: 67 Copynumber: 2.4 Consensus size: 67
117507 TGAGTGAGAG
117517 ATGGGTCACACACGTATCA-GAACATACATGCACTAGCCCCACATTTTTCAAGTACCTCTGGTGA
1 ATGGGTCACACACGTATCAGGAACATACATGCACTAGCCCCACATTTTTCAAGTACCTCTGGT-A
117581 AAC
65 AAC
* *
117584 ATGGGTCACACACGTATCAGGAACATACATTCACTAGCCCCACATTTTTCAAGTACCTCTGGTAT
1 ATGGGTCACACACGTATCAGGAACATACATGCACTAGCCCCACATTTTTCAAGTACCTCTGGTAA
117649 AC
66 AC
* * *
117651 ATGGGTCACATACGTATTAGGAACGTACAT
1 ATGGGTCACACACGTATCAGGAACATACAT
117681 CCGACTAATC
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
67 49 0.54
68 42 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (67 bp):
ATGGGTCACACACGTATCAGGAACATACATGCACTAGCCCCACATTTTTCAAGTACCTCTGGTAA
AC
Found at i:119326 original size:281 final size:282
Alignment explanation
Indices: 118819--119387 Score: 1079
Period size: 281 Copynumber: 2.0 Consensus size: 282
118809 GAATTCAATT
*
118819 AATTTAGGGATTAAATGTAAAATTAGGCATAAGATGGAGGCTCTAATATTAATACTAATTAACTA
1 AATTAAGGGATTAAATGTAAAATTAGGCATAAGATGGAGGCTCTAATATTAATACTAATTAACTA
118884 TATTAATTATGCGATCTAAATAAATTAAAACTCCAGGGACTAAATCAAAAGGAATTTAAATTTAA
66 TATTAATTATGCGATCTAAATAAATTAAAACTCCAGGGACTAAATCAAAAGGAATTTAAATTTAA
118949 AAGGTAAACTTAAAAATATGGTAATCTAAATTAGGACCAAAATGCAAGATAGCAAATTAAGGCAC
131 AAGGTAAACTTAAAAATATGGTAATCTAAATTAGGACCAAAATGCAAGATAGCAAATTAAGGCAC
*
119014 TCAATAAAAAAAATTGAAACATGCATACGTATTCAC-GGATTAAAATAAAATAAACATAAACTAA
196 TCAATAAAAAAAATTGAAACATGCATACGTATTCACGGGATTAAAATAAAATAAACAGAAACTAA
119078 AGTACAATAATTAAAGAACT-A
261 AGTACAATAATTAAAGAACTAA
119099 AATTAAGGGATTAAATGTAAAATTAGGCATAAGATGGAGGCTCTAATATTAATACTAATTAACTA
1 AATTAAGGGATTAAATGTAAAATTAGGCATAAGATGGAGGCTCTAATATTAATACTAATTAACTA
*
119164 TATTAATTATTCGATCTAAATAAATTAAAAGCTCCAGGGACTAAATCAAAAGGAATTTAAATTTA
66 TATTAATTATGCGATCTAAATAAATTAAAA-CTCCAGGGACTAAATCAAAAGGAATTTAAATTTA
119229 AAAGGTAAACTTAAAAATATGGTAATCTAAATTAGGACCAAAATGCAAGATAGCAAATTAAGGCA
130 AAAGGTAAACTTAAAAATATGGTAATCTAAATTAGGACCAAAATGCAAGATAGCAAATTAAGGCA
119294 CTCAATAAAAAAAATTGAAACATGCATACGTATTCACGGGATTAAAATAAAATAAACAGAAACTA
195 CTCAATAAAAAAAATTGAAACATGCATACGTATTCACGGGATTAAAATAAAATAAACAGAAACTA
*
119359 AAGTACAATAATTAAAGGACTAA
260 AAGTACAATAATTAAAGAACTAA
119382 AATTAA
1 AATTAA
119388 ATTGATAAAA
Statistics
Matches: 282, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
280 93 0.33
281 136 0.48
282 46 0.16
283 7 0.02
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.27
Consensus pattern (282 bp):
AATTAAGGGATTAAATGTAAAATTAGGCATAAGATGGAGGCTCTAATATTAATACTAATTAACTA
TATTAATTATGCGATCTAAATAAATTAAAACTCCAGGGACTAAATCAAAAGGAATTTAAATTTAA
AAGGTAAACTTAAAAATATGGTAATCTAAATTAGGACCAAAATGCAAGATAGCAAATTAAGGCAC
TCAATAAAAAAAATTGAAACATGCATACGTATTCACGGGATTAAAATAAAATAAACAGAAACTAA
AGTACAATAATTAAAGAACTAA
Found at i:119638 original size:4 final size:4
Alignment explanation
Indices: 119629--119654 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
119619 TTTGAACATA
119629 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
119655 CAAGTTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:126647 original size:16 final size:16
Alignment explanation
Indices: 126628--126737 Score: 102
Period size: 16 Copynumber: 7.1 Consensus size: 16
126618 AATAAAAAGA
*
126628 AAATACAATCAAAAAC
1 AAATGCAATCAAAAAC
* *
126644 AAATTCAATCTAAAAC
1 AAATGCAATCAAAAAC
* *
126660 AAATGCAAACTAAAAC
1 AAATGCAATCAAAAAC
* *
126676 AAATTCAATCTAAAAC
1 AAATGCAATCAAAAAC
126692 AAATGCAAT-AAAAA-
1 AAATGCAATCAAAAAC
**
126706 AGCT-CAAT-AAAAAC
1 AAATGCAATCAAAAAC
*
126720 AAATGCAATCAATAAC
1 AAATGCAATCAAAAAC
126736 AA
1 AA
126738 GTTTAACTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
13 9 0.12
14 4 0.05
15 8 0.10
16 57 0.73
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (16 bp):
AAATGCAATCAAAAAC
Found at i:126678 original size:32 final size:31
Alignment explanation
Indices: 126639--126727 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 31
126629 AATACAATCA
126639 AAAACAAATTCAATCTAAAACAAATGCAAACT
1 AAAACAAATTCAATCTAAAACAAATGCAAA-T
126671 AAAACAAATTCAATCTAAAACAAATGC-AAT
1 AAAACAAATTCAATCTAAAACAAATGCAAAT
** *
126701 AAAA-AAGCTCAAT-AAAAACAAATGCAA
1 AAAACAAATTCAATCTAAAACAAATGCAA
126728 TCAATAACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 11 0.21
29 8 0.15
30 5 0.09
31 2 0.04
32 27 0.51
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (31 bp):
AAAACAAATTCAATCTAAAACAAATGCAAAT
Found at i:127440 original size:16 final size:16
Alignment explanation
Indices: 127419--127470 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
127409 GTTATGCAAT
**
127419 AACAAATTCAATCTAA
1 AACAAATTCAATAAAA
*
127435 AACAAATGCAATAAAA
1 AACAAATTCAATAAAA
* *
127451 AACAAACTCAATAACA
1 AACAAATTCAATAAAA
127467 AACA
1 AACA
127471 CATTAGCAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.15
Consensus pattern (16 bp):
AACAAATTCAATAAAA
Found at i:127614 original size:33 final size:33
Alignment explanation
Indices: 127565--127655 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 33
127555 TTATAATAAC
*
127565 AATATGTATATAATAGTAGGCAGTATGCATGAAT
1 AATATGTA-ATAATAGTATGCAGTATGCATGAAT
* *
127599 AATATGTAATAATAGTATGAAGTATGCATGAGT
1 AATATGTAATAATAGTATGCAGTATGCATGAAT
*
127632 AATATGTAATAATAATATGCAGTA
1 AATATGTAATAATAGTATGCAGTA
127656 CCAATATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
33 44 0.85
34 8 0.15
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (33 bp):
AATATGTAATAATAGTATGCAGTATGCATGAAT
Found at i:127617 original size:26 final size:26
Alignment explanation
Indices: 127588--127717 Score: 111
Period size: 26 Copynumber: 4.7 Consensus size: 26
127578 TAGTAGGCAG
127588 TATGCATGAATAATATGTAATAATAGTATGAA
1 TATGCATGAATAATATG---TAATA--AT-AA
*
127620 GTATGCATGAGTAATATGTAATAATAA
1 -TATGCATGAATAATATGTAATAATAA
** * *
127647 TATGCA-GTACCAATATGCAATAACAA
1 TATGCATG-AATAATATGTAATAATAA
127673 TATGCATGAATAATATGTAATAA-AA
1 TATGCATGAATAATATGTAATAATAA
*
127698 CTATGCATGAAGAATATGTA
1 -TATGCATGAATAATATGTA
127718 TTAACAAGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
25 3 0.04
26 56 0.66
27 3 0.04
28 2 0.02
30 5 0.06
33 16 0.19
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (26 bp):
TATGCATGAATAATATGTAATAATAA
Found at i:127647 original size:13 final size:13
Alignment explanation
Indices: 127631--127704 Score: 62
Period size: 13 Copynumber: 5.7 Consensus size: 13
127621 TATGCATGAG
*
127631 TAATATGTAATAA
1 TAATATGCAATAA
* *
127644 TAATATGCAGTAC
1 TAATATGCAATAA
*
127657 CAATATGCAATAA
1 TAATATGCAATAA
*
127670 CAATATGC-ATGAA
1 TAATATGCAAT-AA
*
127683 TAATATGTAATAA
1 TAATATGCAATAA
127696 -AACTATGCA
1 TAA-TATGCA
127705 TGAAGAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
12 4 0.08
13 43 0.88
14 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (13 bp):
TAATATGCAATAA
Found at i:129572 original size:15 final size:15
Alignment explanation
Indices: 129554--129698 Score: 84
Period size: 15 Copynumber: 9.7 Consensus size: 15
129544 CAGCTGGTTT
129554 AGGTTCATTAATTTC
1 AGGTTCATTAATTTC
*
129569 AGGTTCATTAATTTT
1 AGGTTCATTAATTTC
*
129584 GGGTTCATTAATTT-
1 AGGTTCATTAATTTC
* * **
129598 ATGGCTCAGCT-GGTTC
1 A-GGTTCA-TTAATTTC
* *
129614 TGATTCATTAATTTC
1 AGGTTCATTAATTTC
*
129629 AAGTTCATTAATTT-
1 AGGTTCATTAATTTC
*
129643 TGAGTTCATTAATTTC
1 AG-GTTCATTAATTTC
* * *
129659 TA-GCTCAACT-AGTTC
1 -AGGTTC-ATTAATTTC
*
129674 TGGTTCATTAATTTC
1 AGGTTCATTAATTTC
129689 AGGTTCATTA
1 AGGTTCATTA
129699 TGTTCAGACC
Statistics
Matches: 93, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
14 3 0.03
15 87 0.94
16 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (15 bp):
AGGTTCATTAATTTC
Found at i:129591 original size:30 final size:29
Alignment explanation
Indices: 129555--129698 Score: 121
Period size: 30 Copynumber: 4.8 Consensus size: 29
129545 AGCTGGTTTA
*
129555 GGTTCATTAATTTCAGGTTCATTAATTTT
1 GGTTCATTAATTTCAGGTTCATTAATTCT
* * **
129584 GGGTTCATTAATTT-ATGGCTCAGCTGGTTCT
1 -GGTTCATTAATTTCA-GGTTCA-TTAATTCT
* * *
129615 GATTCATTAATTTCAAGTTCATTAATTTT
1 GGTTCATTAATTTCAGGTTCATTAATTCT
* * *
129644 GAGTTCATTAATTTCTA-GCTCAACTAGTTCT
1 G-GTTCATTAATTTC-AGGTTC-ATTAATTCT
129675 GGTTCATTAATTTCAGGTTCATTA
1 GGTTCATTAATTTCAGGTTCATTA
129699 TGTTCAGACC
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
29 10 0.11
30 65 0.74
31 13 0.15
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (29 bp):
GGTTCATTAATTTCAGGTTCATTAATTCT
Found at i:129621 original size:60 final size:60
Alignment explanation
Indices: 129543--129698 Score: 233
Period size: 60 Copynumber: 2.6 Consensus size: 60
129533 TATCATTACT
* *
129543 TCAGCTGGTT-TAGGTTCATTAATTTCAGGTTCATTAATTTTGGGTTCATTAATTTATGGC
1 TCAGCTGGTTCT-GGTTCATTAATTTCAGGTTCATTAATTTTGAGTTCATTAATTTATAGC
* * *
129603 TCAGCTGGTTCTGATTCATTAATTTCAAGTTCATTAATTTTGAGTTCATTAATTTCTAGC
1 TCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTAATTTTGAGTTCATTAATTTATAGC
* *
129663 TCAACTAGTTCTGGTTCATTAATTTCAGGTTCATTA
1 TCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTA
129699 TGTTCAGACC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 85 0.99
61 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (60 bp):
TCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTAATTTTGAGTTCATTAATTTATAGC
Found at i:130434 original size:19 final size:19
Alignment explanation
Indices: 130410--130463 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
130400 ATTCATTGAT
130410 TTCATGCAAAACATATATA
1 TTCATGCAAAACATATATA
*
130429 TTCATGC-AAACAAATA-A
1 TTCATGCAAAACATATATA
*
130446 TTCTAT-CACAACATATAT
1 TTC-ATGCAAAACATATAT
130464 TCTATCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.17
18 17 0.59
19 7 0.24
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (19 bp):
TTCATGCAAAACATATATA
Found at i:130465 original size:17 final size:16
Alignment explanation
Indices: 130424--130471 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
130414 TGCAAAACAT
130424 ATATATTC-ATGCAAAC
1 ATATATTCTAT-CAAAC
*
130440 AAATAATTCTATCACAAC
1 ATAT-ATTCTATCA-AAC
130458 ATATATTCTATCAA
1 ATATATTCTATCAA
130472 TAAACTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 8 0.30
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (16 bp):
ATATATTCTATCAAAC
Found at i:130528 original size:17 final size:18
Alignment explanation
Indices: 130503--130562 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
130493 AACATATTAG
130503 AACATATATTCTAT-AAT
1 AACATATATTCTATCAAT
*
130520 AATATATATTCTATGC-A-
1 AACATATATTCTAT-CAAT
130537 AACATATATTCTATCAAT
1 AACATATATTCTATCAAT
130555 AAACATAT
1 -AACATAT
130563 CATTACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 27 0.75
18 1 0.03
19 7 0.19
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (18 bp):
AACATATATTCTATCAAT
Found at i:130888 original size:2 final size:2
Alignment explanation
Indices: 130883--130907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
130873 TATACTAAAC
130883 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 A
130908 CATTTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:134511 original size:16 final size:16
Alignment explanation
Indices: 134480--134523 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
134470 GTTTTTAGGA
*
134480 AGATAACCAA-GCCAT
1 AGATACCCAATGCCAT
134495 AGATACCCAATGCCAT
1 AGATACCCAATGCCAT
134511 AGATACCCAATGC
1 AGATACCCAATGC
134524 AAAAGATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.16
Consensus pattern (16 bp):
AGATACCCAATGCCAT
Found at i:134530 original size:16 final size:16
Alignment explanation
Indices: 134495--134530 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
134485 ACCAAGCCAT
* *
134495 AGATACCCAATGCCAT
1 AGATACCCAATGCAAA
134511 AGATACCCAATGCAAA
1 AGATACCCAATGCAAA
134527 AGAT
1 AGAT
134531 CAATCAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.17
Consensus pattern (16 bp):
AGATACCCAATGCAAA
Found at i:139064 original size:13 final size:13
Alignment explanation
Indices: 139048--139095 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
139038 CATTAATGTT
139048 AAATAATAAAATA
1 AAATAATAAAATA
*
139061 AAATAAAAAAATTA
1 AAATAATAAAA-TA
* *
139075 AAAAAATAAATATT
1 AAATAATAAA-ATA
139089 AAATAAT
1 AAATAAT
139096 GATTAAATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 10 0.36
14 17 0.61
15 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:140407 original size:23 final size:22
Alignment explanation
Indices: 140365--140651 Score: 102
Period size: 24 Copynumber: 12.5 Consensus size: 22
140355 ATATATTATA
**
140365 TTTTCAAAATCATA-TAATATG
1 TTTTCAAAAAAATATTAATATG
140386 TTTTCAAAAAAATATTACATATG
1 TTTTCAAAAAAATATTA-ATATG
*
140409 TTTTTCAAAAACTATATATATTATATG
1 -TTTTCAAAAA--A-ATAT-TAATATG
* ** *
140436 TTTTCAAAACTATATAACAATATA
1 TTTTCAAAA--AAATATTAATATG
140460 TTTTCAAAAACTATATATT-ATATG
1 TTTTCAAAAA--A-ATATTAATATG
*** *
140484 TTTTTTTAAAACTATATAATATG
1 TTTTCAAAAAAATAT-TAATATG
*
140507 TTTTCAAAAAACTA-TACTATATG
1 TTTTCAAAAAAATATTA--ATATG
* ** ** *
140530 TTTTTAAAATTATGCT-ATATA
1 TTTTCAAAAAAATATTAATATG
140551 TTTTCAAAAACTATATATT-ATATG
1 TTTTCAAAAA--A-ATATTAATATG
*** *
140575 TTTTTTTAAAACTATATAATATG
1 TTTTCAAAAAAATAT-TAATATG
* *
140598 TTTTCAAAAACTATACT-ATATG
1 TTTTCAAAAA-AATATTAATATG
* * *
140620 TTTTTAAAAACTATATT-ATATA
1 TTTTCAAAAA-AATATTAATATG
140642 TTTTCAAAAA
1 TTTTCAAAAA
140652 CCATATATTA
Statistics
Matches: 198, Mismatches: 45, Indels: 45
0.69 0.16 0.16
Matches are distributed among these distances:
21 32 0.16
22 40 0.20
23 48 0.24
24 51 0.26
25 6 0.03
26 10 0.05
27 9 0.05
28 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (22 bp):
TTTTCAAAAAAATATTAATATG
Found at i:140558 original size:91 final size:91
Alignment explanation
Indices: 140361--140661 Score: 369
Period size: 91 Copynumber: 3.3 Consensus size: 91
140351 TATAATATAT
* *** *
140361 TATATTTTCAAAATC-ATATA--ATATGTTTTCAAAAAAATAT-TACATATGTTTTTCAAAAACT
1 TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATA-ATATG-TTTTCAAAAACT
* * * *
140422 ATATATATTATATGTTTTCAAAACTATATAACAA
64 ATA-CTA-TATGT-TTTTAAAAAC--TAT-ACTA
140456 TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATAATATGTTTTCAAAAAACTA
1 TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATAATATGTTTTC-AAAAACTA
* *
140521 TACTATATGTTTTT-AAAATTATGCTA
65 TACTATATGTTTTTAAAAACTATACTA
140547 TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATAATATGTTTTCAAAAACTAT
1 TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATAATATGTTTTCAAAAACTAT
*
140612 ACTATATGTTTTTAAAAACTATATTA
66 ACTATATGTTTTTAAAAACTATACTA
*
140638 TATATTTTCAAAAACCATATATTA
1 TATATTTTCAAAAACTATATATTA
140662 CTTTTTTGAC
Statistics
Matches: 186, Mismatches: 14, Indels: 16
0.86 0.06 0.07
Matches are distributed among these distances:
90 22 0.12
91 90 0.48
92 3 0.02
94 4 0.02
95 18 0.10
96 9 0.05
97 7 0.04
98 31 0.17
99 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (91 bp):
TATATTTTCAAAAACTATATATTATATGTTTTTTTAAAACTATATAATATGTTTTCAAAAACTAT
ACTATATGTTTTTAAAAACTATACTA
Found at i:141601 original size:56 final size:55
Alignment explanation
Indices: 141533--141638 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 55
141523 TGTAGAAATG
* *
141533 CAAGTACACATCTTTCTATAGATTCTGATGATGTTCATGGGCCAACTGGAACCTGA
1 CAAGTACACATCTTCCTATAGAATCTGATGATGTTCATGGGCCAA-TGGAACCTGA
*
141589 CAAGTTCACATCTTCCTATAGAATCTGATGATGTTCATGGGCCAATGGAA
1 CAAGTACACATCTTCCTATAGAATCTGATGATGTTCATGGGCCAATGGAA
141639 TCTGCTATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 5 0.11
56 42 0.89
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
CAAGTACACATCTTCCTATAGAATCTGATGATGTTCATGGGCCAATGGAACCTGA
Found at i:141640 original size:27 final size:27
Alignment explanation
Indices: 141556--141642 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
141546 TTCTATAGAT
141556 TCTGATGATGTTCATGGGCCAACTGGAA
1 TCTGATGATGTTCATGGGCCAA-TGGAA
* * * *** * *
141584 CCTGA-CAAGTTCACATCTTCCTATAGAA
1 TCTGATGATGTT--CATGGGCCAATGGAA
141612 TCTGATGATGTTCATGGGCCAATGGAA
1 TCTGATGATGTTCATGGGCCAATGGAA
141639 TCTG
1 TCTG
141643 CTATAGCCAT
Statistics
Matches: 40, Mismatches: 16, Indels: 7
0.63 0.25 0.11
Matches are distributed among these distances:
27 18 0.45
28 12 0.30
29 10 0.25
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
TCTGATGATGTTCATGGGCCAATGGAA
Found at i:142234 original size:61 final size:61
Alignment explanation
Indices: 142139--142262 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 61
142129 GACTTTTGAG
*
142139 CTAATCAGTTATAAGGAGGTATATAAGGAGCCTTAGTTCTATTGTAGTTTCTTGATTTGTT
1 CTAATCAGTTATAAGGAGGTATATAAGGAGCCTTAGTTCTATTGTAGTTTCTGGATTTGTT
*
142200 CTAATCAGTTATATGG-GGATATATAAGGAGCCTTAGTTCTATTGTAGTTTCTGGATTTGTT
1 CTAATCAGTTATAAGGAGG-TATATAAGGAGCCTTAGTTCTATTGTAGTTTCTGGATTTGTT
142261 CT
1 CT
142263 CTTTTCGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (61 bp):
CTAATCAGTTATAAGGAGGTATATAAGGAGCCTTAGTTCTATTGTAGTTTCTGGATTTGTT
Found at i:148274 original size:29 final size:29
Alignment explanation
Indices: 148237--148301 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
148227 AATCATGATA
*
148237 AATGCTCTAAGCTATCAAGAAAGGATTTC
1 AATGCTCTAAGCTATCAAGAAAGCATTTC
148266 AATGCTCTAAGCTATCAAGAAAGCATTTC
1 AATGCTCTAAGCTATCAAGAAAGCATTTC
148295 AATGCTC
1 AATGCTC
148302 CATCATAGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (29 bp):
AATGCTCTAAGCTATCAAGAAAGCATTTC
Found at i:149445 original size:22 final size:21
Alignment explanation
Indices: 149390--149446 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
149380 TTGGGAGAGG
149390 GTATCGATACCATATGAATGA
1 GTATCGATACCATATGAATGA
*
149411 GTATCAATACCATATGAATGA
1 GTATCGATACCATATGAATGA
149432 GTATTCGATACCATA
1 GTA-TCGATACCATA
149447 AGACATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATATGAATGA
Found at i:150198 original size:23 final size:21
Alignment explanation
Indices: 150160--150204 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
150150 TGATCAGAAG
*
150160 ATATGAGAAATGATATGAGAT
1 ATATGAGAAAAGATATGAGAT
*
150181 ATATGAGAGAAAGTATATGTGAT
1 ATATGAGA-AAAG-ATATGAGAT
150204 A
1 A
150205 AGCTATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
ATATGAGAAAAGATATGAGAT
Found at i:150454 original size:18 final size:18
Alignment explanation
Indices: 150431--150504 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
150421 GTTCTTAAGG
*
150431 AGTGGTCATTTGAGACAT
1 AGTGGTCATTCGAGACAT
150449 AGTGGTCATTCGAGACAT
1 AGTGGTCATTCGAGACAT
*
150467 AGTGGTCCTTC-AGGACAT
1 AGTGGTCATTCGA-GACAT
* * *
150485 AGTTGTCCTTCGGGACAT
1 AGTGGTCATTCGAGACAT
150503 AG
1 AG
150505 GTTATTCGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.02
18 49 0.98
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (18 bp):
AGTGGTCATTCGAGACAT
Found at i:151089 original size:6 final size:6
Alignment explanation
Indices: 150736--151085 Score: 598
Period size: 6 Copynumber: 58.8 Consensus size: 6
150726 TTAAATGAAT
*
150736 TAATGA TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
150784 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
150832 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
150880 TAATGG T-ATGG TAA-GG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
150926 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
150974 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
* * * * * *
151022 TAATGG TAATGG TAATGA TAATGA TAATGA TAATGA T-ATGA TAATGA
1 TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG TAATGG
* *
151069 TAATGA TAATGA TAATG
1 TAATGG TAATGG TAATG
151086 ATAAGGAAGT
Statistics
Matches: 339, Mismatches: 2, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
5 15 0.04
6 324 0.96
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (6 bp):
TAATGG
Found at i:151103 original size:11 final size:12
Alignment explanation
Indices: 151037--151108 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 12
151027 GTAATGGTAA
* *
151037 TGATAATGATAA
1 TGATAAGGATAG
*
151049 TGATAATGATA-
1 TGATAAGGATAG
* *
151060 TGATAATGATAA
1 TGATAAGGATAG
* *
151072 TGATAATGATAA
1 TGATAAGGATAG
151084 TGATAAGGA-AG
1 TGATAAGGATAG
*
151095 TGATTAGGATAG
1 TGATAAGGATAG
151107 TG
1 TG
151109 TTGAGATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
11 20 0.36
12 35 0.64
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
TGATAAGGATAG
Done.