Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008592.1 Hibiscus syriacus cultivar Beakdansim tig00111541_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: 876692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 3 of 4
Found at i:573757 original size:29 final size:30
Alignment explanation
Indices: 573723--573842 Score: 77
Period size: 29 Copynumber: 4.0 Consensus size: 30
573713 CTTGTTCTAT
573723 TAAAAAATATTTAATAAATAAAAATAAAAA
1 TAAAAAATATTTAATAAATAAAAATAAAAA
* * *
573753 TAAAAGATATATTTAAGTGATTATAAATATAAAA
1 TAAAA-A-ATATTTAA-TAAATAAAAATA-AAAA
* * * *
573787 T---ATATATTT-TTATATTAAAATAAAAA
1 TAAAAAATATTTAATAAATAAAAATAAAAA
* * *
573813 TGAAATATATTTAATAAGTAAAAAATAAAA
1 TAAAAAATATTTAATAAAT-AAAAATAAAA
573843 TATATATTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 17
0.68 0.14 0.17
Matches are distributed among these distances:
26 5 0.07
27 7 0.10
29 14 0.21
30 8 0.12
31 11 0.16
32 8 0.12
33 9 0.13
34 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (30 bp):
TAAAAAATATTTAATAAATAAAAATAAAAA
Found at i:573807 original size:27 final size:28
Alignment explanation
Indices: 573747--573851 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
573737 TAAATAAAAA
* *
573747 TAAAA-ATAAAAGATATA-TTTAAGTGAT
1 TAAAATATAAAATATATATTTTAA-TAAT
*
573774 TATAAATATAAAATATATATTTTTAT-AT
1 TA-AAATATAAAATATATATTTTAATAAT
* *
573802 TAAAATA-AAAATGAAATATATTTAATAAG
1 TAAAATATAAAAT-ATATAT-TTTAATAAT
*
573831 TAAAAAATAAAATATATATTT
1 TAAAATATAAAATATATATTT
573852 AAGATATATA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
26 5 0.08
27 12 0.19
28 14 0.22
29 24 0.38
30 9 0.14
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
TAAAATATAAAATATATATTTTAATAAT
Found at i:573864 original size:27 final size:28
Alignment explanation
Indices: 573749--573866 Score: 86
Period size: 29 Copynumber: 4.2 Consensus size: 28
573739 AATAAAAATA
* *
573749 AAAATAAAAGATATATTTAAG-TGATTAT
1 AAAATAAAATATATATTTAAGAT-AGTAT
**
573777 AAATATAAAATATATATTT-TTATA-T-T
1 AAA-ATAAAATATATATTTAAGATAGTAT
* *
573803 AAAATAAAAATGAAATATATTTAATA-AGTAA
1 AAAAT-AAAAT---ATATATTTAAGATAGTAT
573834 AAAATAAAATATATATTTAAGATA-TAT
1 AAAATAAAATATATATTTAAGATAGTAT
573861 AAAATA
1 AAAATA
573867 TTGTTAATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
25 2 0.03
26 9 0.12
27 20 0.27
28 5 0.07
29 24 0.33
30 8 0.11
31 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (28 bp):
AAAATAAAATATATATTTAAGATAGTAT
Found at i:576967 original size:12 final size:12
Alignment explanation
Indices: 576952--576976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
576942 TAATTGAAAT
576952 TTGAAATTAACA
1 TTGAAATTAACA
576964 TTGAAATTAACA
1 TTGAAATTAACA
576976 T
1 T
576977 CACTAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTGAAATTAACA
Found at i:590289 original size:20 final size:21
Alignment explanation
Indices: 590259--590298 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
590249 TTAAAACTAA
590259 ATTTCATGTA-TACAATTGCAT
1 ATTTCATGTATTAC-ATTGCAT
590280 ATTT-ATGTATTACATTGCA
1 ATTTCATGTATTACATTGCA
590299 GAATGGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTTCATGTATTACATTGCAT
Found at i:603768 original size:37 final size:36
Alignment explanation
Indices: 603696--603769 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
603686 TTAGGAAAAT
*
603696 ATTTATATATTTTCTTTAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
* *
603732 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATT-AAAATCATAAA
603769 A
1 A
603770 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 21 0.64
38 4 0.12
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
Found at i:604327 original size:30 final size:29
Alignment explanation
Indices: 604278--604338 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
604268 GCAACCTCTT
*
604278 GATAAGTTTAACTTCTTGATATAATTTTC
1 GATAAGTTTAACCTCTTGATATAATTTTC
*
604307 GATAAGTTGTAACCTCTTGATATGATTTTC
1 GATAAGTT-TAACCTCTTGATATAATTTTC
604337 GA
1 GA
604339 CAAATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (29 bp):
GATAAGTTTAACCTCTTGATATAATTTTC
Found at i:606600 original size:23 final size:24
Alignment explanation
Indices: 606570--606625 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
606560 CGTGTTCATA
606570 AACATGTTCGATTAACAT-TTA-TG
1 AACATGTTCGATTAA-ATGTTATTG
*
606593 AACATGTTC-ATTTAATGTTATTG
1 AACATGTTCGATTAAATGTTATTG
606616 AACATGTTCG
1 AACATGTTCG
606626 TTTACGTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 7 0.24
23 20 0.69
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (24 bp):
AACATGTTCGATTAAATGTTATTG
Found at i:606828 original size:36 final size:36
Alignment explanation
Indices: 606788--606863 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
606778 AGGTTATGAT
* *
606788 CGAG-TTAGTAAACAAGCT-TATAAATGAGTCAATAAA
1 CGAGTTTA-TAAA-AAGCTCTATAAACGAGCCAATAAA
* *
606824 CGAGTTTATAAAAGGGTCTATAAACGAGCCAATAAA
1 CGAGTTTATAAAAAGCTCTATAAACGAGCCAATAAA
606860 CGAG
1 CGAG
606864 CTCGTTCGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 3 0.09
36 28 0.82
37 3 0.09
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (36 bp):
CGAGTTTATAAAAAGCTCTATAAACGAGCCAATAAA
Found at i:606834 original size:12 final size:12
Alignment explanation
Indices: 606806--606863 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
606796 TAAACAAGCT
*
606806 TATAAATGAGTC
1 TATAAACGAGTC
* *
606818 AATAAACGAGTT
1 TATAAACGAGTC
* *
606830 TATAAAAGGGTC
1 TATAAACGAGTC
*
606842 TATAAACGAGCC
1 TATAAACGAGTC
*
606854 AATAAACGAG
1 TATAAACGAG
606864 CTCGTTCGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (12 bp):
TATAAACGAGTC
Found at i:606846 original size:24 final size:24
Alignment explanation
Indices: 606796--606852 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
606786 ATCGAGTTAG
* *
606796 TAAACAAGCTTATAAATGAGTCAA
1 TAAACGAGCTTATAAAAGAGTCAA
* * *
606820 TAAACGAGTTTATAAAAGGGTCTA
1 TAAACGAGCTTATAAAAGAGTCAA
606844 TAAACGAGC
1 TAAACGAGC
606853 CAATAAACGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (24 bp):
TAAACGAGCTTATAAAAGAGTCAA
Found at i:609738 original size:34 final size:34
Alignment explanation
Indices: 609692--609759 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
609682 ATGAAACAGA
* *
609692 AGAGGTGATGAACATGAGCTGAAATTCTATCTCC
1 AGAGATGATGAACATGAGCTGAAATTATATCTCC
609726 AGAGATGATGAACATGAGCTGAAATTATATCTCC
1 AGAGATGATGAACATGAGCTGAAATTATATCTCC
609760 TTGATGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (34 bp):
AGAGATGATGAACATGAGCTGAAATTATATCTCC
Found at i:614660 original size:20 final size:20
Alignment explanation
Indices: 614635--614723 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 20
614625 TAATTGAAAA
*
614635 TCGCGTTGCGCTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
** **
614655 TCGCGTTGCG---TTGAAAA
1 TCGCGTTGCGATTTTCCATT
*
614672 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
614692 TCGCTTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
614712 TCGCGTTGCGAT
1 TCGCGTTGCGAT
614724 AGTCTACAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
17 12 0.22
20 43 0.78
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:614681 original size:37 final size:38
Alignment explanation
Indices: 614610--614704 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 38
614600 ATTCGCGTTG
* *
614610 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTC
1 CATTTCGCGTTGCG---ATTGAAAATCGCATTGCGATTTTC
614651 CATTTCGCGTTGCG-TTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATTGAAAATCGCATTGCGATTTTC
*
614688 CATTTCGCTTTGCGATT
1 CATTTCGCGTTGCGATT
614705 TTCCATTTCG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
37 34 0.68
38 2 0.04
41 14 0.28
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (38 bp):
CATTTCGCGTTGCGATTGAAAATCGCATTGCGATTTTC
Found at i:614745 original size:22 final size:22
Alignment explanation
Indices: 614715--614830 Score: 166
Period size: 22 Copynumber: 5.4 Consensus size: 22
614705 TTCCATTTCG
614715 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * * **
614737 CGTTACGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
614756 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
614778 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
614800 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
614822 CGTTGCGAT
1 CGTTGCGAT
614831 TTTCCAAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.11
20 5 0.06
21 5 0.06
22 62 0.77
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:614765 original size:41 final size:41
Alignment explanation
Indices: 614697--614852 Score: 197
Period size: 41 Copynumber: 3.7 Consensus size: 41
614687 CCATTTCGCT
*
614697 TTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTTGTCG
1 TTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGTCG
*
614739 TTACGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCG
1 TTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCG
* * **
614780 TTGCGATAGTCTACAGTTGTCGTTGCGATAGTCTACAGTTGTCG
1 TTGCGAT--TTTCCAAAT-TCGTTGCGATAGTCTACAGTTGTCG
*
614824 TTGCGATTTTCCAAATTCGTTGTGATAGT
1 TTGCGATTTTCCAAATTCGTTGCGATAGT
614853 TAAAAAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 42 0.43
42 16 0.16
43 8 0.08
44 32 0.33
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (41 bp):
TTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCG
Found at i:615604 original size:19 final size:19
Alignment explanation
Indices: 615580--615647 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
615570 CAACGATTTT
615580 TCGCAACGAATTTGAAAAA
1 TCGCAACGAATTTGAAAAA
** **
615599 TCGCAACGACAACTGTAGACTA
1 TCGCAACGA-ATTTG-A-AAAA
615621 TCGCAACGAATTTGAAAAA
1 TCGCAACGAATTTGAAAAA
615640 TCGCAACG
1 TCGCAACG
615648 CGAAATGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 19 0.50
20 4 0.11
21 4 0.11
22 11 0.29
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGAAAAA
Found at i:618401 original size:21 final size:21
Alignment explanation
Indices: 618375--618553 Score: 229
Period size: 21 Copynumber: 8.6 Consensus size: 21
618365 GTTTCTAGAT
* ** *
618375 TCGCAACGCGAACTTCAAATA
1 TCGCAATGCGAACTTGGACTA
618396 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
618417 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
618438 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
618459 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
618480 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
618500 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
618521 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
618542 TCGCAATGCGAA
1 TCGCAATGCGAA
618554 TATGTAAATC
Statistics
Matches: 138, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.12
21 122 0.88
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:618534 original size:62 final size:62
Alignment explanation
Indices: 618394--618593 Score: 314
Period size: 62 Copynumber: 3.2 Consensus size: 62
618384 GAACTTCAAA
* * * *
618394 TATCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TGGACTATCGCAACGCGA-ACTTCGAC
1 TATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATA-GTCGAC
618457 TATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
1 TATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
618519 TATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
1 TATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
*
618581 TATCGCATTGCGA
1 TATCGCAATGCGA
618594 TTTATTCCAA
Statistics
Matches: 130, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
62 91 0.70
63 39 0.30
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (62 bp):
TATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
Found at i:618592 original size:21 final size:21
Alignment explanation
Indices: 618394--618594 Score: 127
Period size: 21 Copynumber: 9.7 Consensus size: 21
618384 GAACTTCAAA
* *
618394 TATCGCAATGCGA-ACTTGGAC
1 TATCGCAATGCGATA-GTCGAC
* *
618415 TATCGCAATGCGA-ACTTGGAC
1 TATCGCAATGCGATA-GTCGAC
* *
618436 TATCGCAACGCGA-ACTTCGAC
1 TATCGCAATGCGATA-GTCGAC
* *
618457 TATCGCAATGCGA-ACTTGGAC
1 TATCGCAATGCGATA-GTCGAC
618478 TATCGCAATGCGAATA-T-GTA-
1 TATCGCAATGCG-ATAGTCG-AC
*
618498 AATCGCAATGCGATAGTCGAC
1 TATCGCAATGCGATAGTCGAC
* *
618519 TATCGCAATGCGA-ACTTGGAC
1 TATCGCAATGCGATA-GTCGAC
618540 TATCGCAATGCGAATA-T-GTA-
1 TATCGCAATGCG-ATAGTCG-AC
*
618560 AATCGCAATGCGATAGTCGAC
1 TATCGCAATGCGATAGTCGAC
*
618581 TATCGCATTGCGAT
1 TATCGCAATGCGAT
618595 TTATTCCAAT
Statistics
Matches: 156, Mismatches: 11, Indels: 26
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.04
20 29 0.19
21 117 0.75
22 2 0.01
23 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (21 bp):
TATCGCAATGCGATAGTCGAC
Found at i:619235 original size:6 final size:6
Alignment explanation
Indices: 619224--619249 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
619214 TCCGTCTCGA
619224 GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GT
619250 AATGGTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
GTCGTG
Found at i:619255 original size:6 final size:6
Alignment explanation
Indices: 619246--619270 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
619236 GTCGTGGTCG
619246 TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA T
619271 ACATGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGTAA
Found at i:619448 original size:21 final size:21
Alignment explanation
Indices: 619386--619459 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
619376 TTGGAATAAA
* *
619386 TCGCAATGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
619406 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCGAAGT
619428 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
619449 TCGCGTTGCGA
1 TCGCATTGCGA
619460 ATCTGGAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 45 0.96
22 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:620437 original size:41 final size:41
Alignment explanation
Indices: 620380--620461 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
620370 AACTAGTACG
*
620380 TCTAATCTAACAATCAGTT-AGTTTAATGGGATTAGACACTA
1 TCTAATCTAACAATCAGTTGA-TTTAATGAGATTAGACACTA
620421 TCTAATCTAACAATCAGTTGATTTAATGAGATTAGACACTA
1 TCTAATCTAACAATCAGTTGATTTAATGAGATTAGACACTA
620462 GATTCCTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (41 bp):
TCTAATCTAACAATCAGTTGATTTAATGAGATTAGACACTA
Found at i:621420 original size:3 final size:3
Alignment explanation
Indices: 621412--621447 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
621402 CTTCCTCTTC
621412 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
621448 CACTTTAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:626491 original size:18 final size:19
Alignment explanation
Indices: 626464--626503 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
626454 AAATAGAAAT
626464 AAAATATTAAA-AATAATAA
1 AAAATATTAAACAA-AATAA
626483 AAAAT-TTAAACAAAATAA
1 AAAATATTAAACAAAATAA
626501 AAA
1 AAA
626504 TACAAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATATTAAACAAAATAA
Found at i:627576 original size:22 final size:22
Alignment explanation
Indices: 627551--627599 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
627541 GAAATTATTT
627551 AAATTATTTACGTTTATGTGTA
1 AAATTATTTACGTTTATGTGTA
*
627573 AAATGATTTACGTTTATGTGTA
1 AAATTATTTACGTTTATGTGTA
627595 AAATT
1 AAATT
627600 TTATTGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (22 bp):
AAATTATTTACGTTTATGTGTA
Found at i:629737 original size:4 final size:4
Alignment explanation
Indices: 629728--629760 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
629718 AATCATGCAT
629728 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
629761 TATTACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:632379 original size:121 final size:120
Alignment explanation
Indices: 632202--632431 Score: 381
Period size: 121 Copynumber: 1.9 Consensus size: 120
632192 AACATATTAA
* *
632202 TATTTTTTAATAAATTATTTTTTATCGATTTATCAACATTTCATAAACACGCATAAATAAATAAT
1 TATTTTTTAATAAACTATTTTTTATCGATTTATCAACATTTCATAAACACACATAAATAAATAAT
** *
632267 CTTAAAATTATTTT-TTTATAATCATGTATCAAATAAGAATTTATAACATAACAG
66 CTTAAAATTATTTTCAATATAATCATGCATCAAATAAGAATTTATAACATAACAG
*
632321 TATTTTTTAATAAACTATTTTTATTATCGATTTATCAACATTTCATATACACACATAAATAAATA
1 TATTTTTTAATAAACTA-TTTT-TTATCGATTTATCAACATTTCATAAACACACATAAATAAATA
632386 ATCTTAAAATTATTTTCAATATAATCATGCATCAAATAAGAATTTA
64 ATCTTAAAATTATTTTCAATATAATCATGCATCAAATAAGAATTTA
632432 ATCATATATT
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
119 16 0.16
120 4 0.04
121 56 0.55
122 26 0.25
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (120 bp):
TATTTTTTAATAAACTATTTTTTATCGATTTATCAACATTTCATAAACACACATAAATAAATAAT
CTTAAAATTATTTTCAATATAATCATGCATCAAATAAGAATTTATAACATAACAG
Found at i:632700 original size:24 final size:24
Alignment explanation
Indices: 632673--632719 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
632663 AAACGTATTA
*
632673 TAAAAAGAACTTT-TAAAAGTAATG
1 TAAAAAGAA-TTTATAAAAATAATG
*
632697 TAAAAATAATTTATAAAAATAAT
1 TAAAAAGAATTTATAAAAATAAT
632720 TTCTATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (24 bp):
TAAAAAGAATTTATAAAAATAATG
Found at i:632715 original size:13 final size:13
Alignment explanation
Indices: 632697--632721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
632687 AAAAGTAATG
632697 TAAAAATAATTTA
1 TAAAAATAATTTA
632710 TAAAAATAATTT
1 TAAAAATAATTT
632722 CTATGAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATAATTTA
Found at i:634696 original size:28 final size:29
Alignment explanation
Indices: 634636--634688 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
634626 GGGTTGGGGG
*
634636 ATTT-TTTTTAAGTATTTTTAATATAATA
1 ATTTATTTTTAAGTATTTTCAATATAATA
634664 ATTTATTTTTAAGT-TTTTCAA-ATAA
1 ATTTATTTTTAAGTATTTTCAATATAA
634689 AATCTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
29 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (29 bp):
ATTTATTTTTAAGTATTTTCAATATAATA
Found at i:635206 original size:377 final size:377
Alignment explanation
Indices: 634502--635255 Score: 1357
Period size: 377 Copynumber: 2.0 Consensus size: 377
634492 TTGTTGTCCT
*
634502 CACCCAATTCTAATATTAGGTAATACTATAAAAGGAGGGGGAATGGAGGGAGGGAGGGCTAAGGG
1 CACCCAATTCTAATAATAGGTAATACTATAAAAGGAGGGGGAATGGAGGGAGGGAGGGCTAAGGG
*
634567 GCTAAGGGAATGGGGGACGGGAGGCAGAGGAAAGGGTGCCAGGCAGAGGGCGAGGGAGGGGGTTG
66 GCTAAGGGAATGGGGGACGGGAGGCAGAGGAAAGGGTGCCAGGCAGAGGGCGAGGGAGAGGGTTG
634632 GGGGATTTTTTTTAAGTATTTTTAATATAATAATTTATTTTTAAGTTTTTCAAATAAAATCTTTA
131 GGGGATTTTTTTTAAGTATTTTTAATATAATAATTTATTTTTAAGTTTTTCAAATAAAATCTTTA
634697 AAATTATCATAATATGGTATGTATTATTTAACTGAATTTTTTAACAGTCGTTACGATCAAAACAC
196 AAATTATCATAATATGGTATGTATTATTTAACTGAATTTTTTAACAGTCGTTACGATCAAAACAC
*
634762 TTAAAATGATAACGTTTATAGCATCAAACATTTAAATTGACTAAAAAATAATTCAGACACCTAAA
261 TTAAAATGATAACGTTTATAACATCAAACATTTAAATTGACTAAAAAATAATTCAGACACCTAAA
634827 T-AAAAAACGATATAATTTATACATTTATTTTTGTATCGAAACTAAAAGATA
326 TAAAAAAACGATATAATTTATACATTTATTTTTGTATCGAAACTAAAAGATA
634878 CACCCAATTCTAATAATAGGTAATACTATAAAAGGAGGGGGAATGGAGGGAGGGAGGGCTAAGGG
1 CACCCAATTCTAATAATAGGTAATACTATAAAAGGAGGGGGAATGGAGGGAGGGAGGGCTAAGGG
* *
634943 GCTAAGGGAATGGGGGATGGGAGGCAGAGGAAAGGGTTCCAGGCAGAGGGCGAGGGAGAGGGTTG
66 GCTAAGGGAATGGGGGACGGGAGGCAGAGGAAAGGGTGCCAGGCAGAGGGCGAGGGAGAGGGTTG
* * *
635008 GGGGATTTTTTTCTAAGTATTTTTTATATAATAATTTATTTTTAAGTTTTTCAAATAAATTTTTT
131 GGGGATTTTTTT-TAAGTATTTTTAATATAATAATTTATTTTTAAGTTTTTCAAATAAAATCTTT
* *
635073 AAAATTATCATAATATGGTATGTATTATTTAACTGAATTTTTTAACAGTCGTTACGATCGAAATA
195 AAAATTATCATAATATGGTATGTATTATTTAACTGAATTTTTTAACAGTCGTTACGATCAAAACA
* * *
635138 CTTAAAATGATAACGTTTATAACATCAAACATTTAAATTGACTAAAAAATAATTTAGATACTTAA
260 CTTAAAATGATAACGTTTATAACATCAAACATTTAAATTGACTAAAAAATAATTCAGACACCTAA
* *
635203 ATAAAAAAATGATATAATTTATACATTTATTTTTGTATCGAAAGTAAAAGATA
325 ATAAAAAAACGATATAATTTATACATTTATTTTTGTATCGAAACTAAAAGATA
635256 ATAAAAAATA
Statistics
Matches: 361, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
376 138 0.38
377 175 0.48
378 48 0.13
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (377 bp):
CACCCAATTCTAATAATAGGTAATACTATAAAAGGAGGGGGAATGGAGGGAGGGAGGGCTAAGGG
GCTAAGGGAATGGGGGACGGGAGGCAGAGGAAAGGGTGCCAGGCAGAGGGCGAGGGAGAGGGTTG
GGGGATTTTTTTTAAGTATTTTTAATATAATAATTTATTTTTAAGTTTTTCAAATAAAATCTTTA
AAATTATCATAATATGGTATGTATTATTTAACTGAATTTTTTAACAGTCGTTACGATCAAAACAC
TTAAAATGATAACGTTTATAACATCAAACATTTAAATTGACTAAAAAATAATTCAGACACCTAAA
TAAAAAAACGATATAATTTATACATTTATTTTTGTATCGAAACTAAAAGATA
Found at i:639389 original size:2 final size:2
Alignment explanation
Indices: 639382--639411 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
639372 ATTTTAATCA
639382 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
639412 TAGGGGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:641573 original size:2 final size:2
Alignment explanation
Indices: 641566--641620 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
641556 TGGTTCGTGC
641566 AT AT AT AT 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 AT AT AT AT
641608 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
641621 ACCGTTGCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:642500 original size:2 final size:2
Alignment explanation
Indices: 642495--642519 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
642485 TTATATACTT
642495 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 T
642520 TTTATCAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:648983 original size:2 final size:2
Alignment explanation
Indices: 648978--649005 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
648968 AGAGCTTTTA
648978 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
649006 CAAAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:651794 original size:128 final size:128
Alignment explanation
Indices: 651647--651912 Score: 319
Period size: 128 Copynumber: 2.1 Consensus size: 128
651637 CAAAAATAAA
* *
651647 AATAAATAAACAAACATAAACGAAC-GAATTACCGAACGTTTACGAACA-TAAATGAACGGA-CG
1 AATAAATAAACAAACATAAACGAACAG-ATTACCAAACGTTCACGAA-AGTAAATGAA-GGATCG
* * *
651709 -GTCTCTTT-GTTAGTGCTCGTTCATTTAATTAAAC-AGACATAAAATCTCATTCATGTTCGCCC
63 AG-CCCTTTCGTGA-TGCTCGTTCATTTAATTAAACGA-ACATAAAATCTCATTCATATTCGCCC
651771 ATTT
125 ATTT
* * *
651775 AATAAATAAACAAGCATAAACGAACAGATTACCAAACGTTCATGAAAGTAAATGAATGATCGAGC
1 AATAAATAAACAAACATAAACGAACAGATTACCAAACGTTCACGAAAGTAAATGAAGGATCGAGC
* * * * *
651840 CCTTTCGTGATGTTCGTTCATTTAATTAAACGAACATAAAATTTTATTCATATTCGTCCGTTT
66 CCTTTCGTGATGCTCGTTCATTTAATTAAACGAACATAAAATCTCATTCATATTCGCCCATTT
651903 AATAAATAAA
1 AATAAATAAA
651913 TCGCGGTTAG
Statistics
Matches: 119, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
127 3 0.03
128 110 0.92
129 6 0.05
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (128 bp):
AATAAATAAACAAACATAAACGAACAGATTACCAAACGTTCACGAAAGTAAATGAAGGATCGAGC
CCTTTCGTGATGCTCGTTCATTTAATTAAACGAACATAAAATCTCATTCATATTCGCCCATTT
Found at i:671534 original size:6 final size:6
Alignment explanation
Indices: 671523--671547 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
671513 AGCAACACCT
671523 GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA G
671548 CCCGTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:676674 original size:22 final size:22
Alignment explanation
Indices: 676644--676705 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
676634 AGGTCTCCGG
* *
676644 TCCTCATCTCTACTCTAGCGCA
1 TCCTTATCTCTACTCTAGCACA
* *
676666 TCCTTATCTTTACTCTAGTACA
1 TCCTTATCTCTACTCTAGCACA
676688 T-CTCTATCTCTACTCTAG
1 TCCT-TATCTCTACTCTAG
676706 AGATGAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.19, C:0.34, G:0.06, T:0.40
Consensus pattern (22 bp):
TCCTTATCTCTACTCTAGCACA
Found at i:676824 original size:21 final size:22
Alignment explanation
Indices: 676799--676852 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
676789 TTAATTTTAC
*
676799 AAATATAAAAAAAAT-CAGAAA
1 AAATATAAAAAAAATCCAAAAA
**
676820 AAATA-CGAAAAAATCCAAAAA
1 AAATATAAAAAAAATCCAAAAA
676841 AAATATAAAAAA
1 AAATATAAAAAA
676853 TAATATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (22 bp):
AAATATAAAAAAAATCCAAAAA
Found at i:676910 original size:15 final size:16
Alignment explanation
Indices: 676885--676917 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
676875 TAAATGTATT
676885 TTTATATATATTATAA
1 TTTATATATATTATAA
*
676901 TTTA-ATATATTTTAA
1 TTTATATATATTATAA
676916 TT
1 TT
676918 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATATTATAA
Found at i:678227 original size:12 final size:12
Alignment explanation
Indices: 678210--678280 Score: 88
Period size: 12 Copynumber: 5.9 Consensus size: 12
678200 CGGCGGCGGC
*
678210 GGCGGTGGTGGT
1 GGCGGTGGTGGA
678222 GGCGGTGGTGGA
1 GGCGGTGGTGGA
* *
678234 GGTGGGGGTGGA
1 GGCGGTGGTGGA
678246 GGCGGTGGTGGA
1 GGCGGTGGTGGA
* *
678258 GGTGGGGGTGGA
1 GGCGGTGGTGGA
*
678270 GGCGGCGGTGG
1 GGCGGTGGTGG
678281 GGGTGACCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.06, C:0.07, G:0.70, T:0.17
Consensus pattern (12 bp):
GGCGGTGGTGGA
Found at i:678249 original size:24 final size:24
Alignment explanation
Indices: 678216--678285 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
678206 CGGCGGCGGT
*
678216 GGTGGTGGCGGTGGTGGAGGTGGG
1 GGTGGAGGCGGTGGTGGAGGTGGG
678240 GGTGGAGGCGGTGGTGGAGGTGGG
1 GGTGGAGGCGGTGGTGGAGGTGGG
* *
678264 GGTGGAGGCGGCGGTGGGGGTG
1 GGTGGAGGCGGTGGTGGAGGTG
678286 ACCTCATCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.06, C:0.06, G:0.71, T:0.17
Consensus pattern (24 bp):
GGTGGAGGCGGTGGTGGAGGTGGG
Found at i:678285 original size:6 final size:6
Alignment explanation
Indices: 678228--678285 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
678218 TGGTGGCGGT
* * * * * *
678228 GGTGGA GGTGGG GGTGGA GGCGGT GGTGGA GGTGGG GGTGGA GGCGGC
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
*
678276 GGTGGG GGTG
1 GGTGGA GGTG
678286 ACCTCATCGG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.07, C:0.05, G:0.72, T:0.16
Consensus pattern (6 bp):
GGTGGA
Found at i:679665 original size:46 final size:46
Alignment explanation
Indices: 679596--679694 Score: 173
Period size: 46 Copynumber: 2.2 Consensus size: 46
679586 TGCTTAGTCA
*
679596 CTTGAATTTTGATGTTAGCGAGGAAACTAAATAAAAGTGATCACAT
1 CTTGAATTTTGACGTTAGCGAGGAAACTAAATAAAAGTGATCACAT
*
679642 CTTGAATTTTGACGTTAGTGAGGAAACTAAATAAAAGTGATCACAT
1 CTTGAATTTTGACGTTAGCGAGGAAACTAAATAAAAGTGATCACAT
679688 CTT-AATT
1 CTTGAATT
679695 AAATAAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 4 0.08
46 47 0.92
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (46 bp):
CTTGAATTTTGACGTTAGCGAGGAAACTAAATAAAAGTGATCACAT
Found at i:686260 original size:25 final size:26
Alignment explanation
Indices: 686232--686292 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
686222 TATTTTCTTG
* * *
686232 TTATTATATCT-TACAAAAATTATAA
1 TTATTATATCTATAAAAAAAATAGAA
*
686257 TTATTATATTTAATAAAAAAAATAGAA
1 TTATTATATCT-ATAAAAAAAATAGAA
686284 TTATTATAT
1 TTATTATAT
686293 GATTGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
27 20 0.67
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
TTATTATATCTATAAAAAAAATAGAA
Found at i:703926 original size:20 final size:20
Alignment explanation
Indices: 703884--703928 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
703874 TTGATCTCGA
* *
703884 ATCAGTTGGTTTCGAGTCGG
1 ATCAATTGGTTTCGAGTCAG
703904 ATCAATTGGTTTCG-GTTCAG
1 ATCAATTGGTTTCGAG-TCAG
703924 ATCAA
1 ATCAA
703929 GCTTTAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (20 bp):
ATCAATTGGTTTCGAGTCAG
Found at i:711268 original size:30 final size:30
Alignment explanation
Indices: 711234--711293 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
711224 TGACAAAATA
711234 TTTTTCCTTCGTCAACTTGAACCTCCACTG
1 TTTTTCCTTCGTCAACTTGAACCTCCACTG
*
711264 TTTTTCCTTTGTCAACTTGAACCTCCACTG
1 TTTTTCCTTCGTCAACTTGAACCTCCACTG
711294 ACTTTGTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTTTCCTTCGTCAACTTGAACCTCCACTG
Found at i:720359 original size:24 final size:24
Alignment explanation
Indices: 720332--720443 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 24
720322 ATTTGAATTA
* *
720332 TGATATGATATTTGACATGGATTC
1 TGATATGATACTTGACATGGATTT
*
720356 TGATATGATA-TCTGACATGGATTA
1 TGATATGATACT-TGACATGGATTT
* * *
720380 TGATCTGATACTTGACTTGAATTT
1 TGATATGATACTTGACATGGATTT
* **
720404 TGATCTGATACTTGATTTGGATTT
1 TGATATGATACTTGACATGGATTT
720428 TGATATGATACTTGAC
1 TGATATGATACTTGAC
720444 CTGATTTATG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 75 0.97
25 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACATGGATTT
Found at i:720425 original size:48 final size:47
Alignment explanation
Indices: 720297--720443 Score: 150
Period size: 48 Copynumber: 3.0 Consensus size: 47
720287 CTCCCTACTC
* * * *
720297 ACATGAATATTTTATCTGATTTTCGATTTGAATTATGATATGATATTTG
1 ACATGAAT-TTTGATCTGATATT-GATTTGGATTATGATATGATACTTG
* * * ** *
720346 ACATGGATTCTGATATGATATCTGACATGGATTATGATCTGATACTTG
1 ACATGAATTTTGATCTGATAT-TGATTTGGATTATGATATGATACTTG
* *
720394 ACTTGAATTTTGATCTGATACTTGATTTGGATTTTGATATGATACTTG
1 ACATGAATTTTGATCTGATA-TTGATTTGGATTATGATATGATACTTG
720442 AC
1 AC
720444 CTGATTTATG
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
48 69 0.88
49 9 0.12
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (47 bp):
ACATGAATTTTGATCTGATATTGATTTGGATTATGATATGATACTTG
Found at i:729784 original size:45 final size:46
Alignment explanation
Indices: 729715--729806 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
729705 TCGGGTACCA
729715 TTTTTGCCACAAACTATTGGGGTATTTGGAAGGAACGAAATGAAGC
1 TTTTTGCCACAAACTATTGGGGTATTTGGAAGGAACGAAATGAAGC
729761 TTTTTG-C-CAAACTATTTGGGGTATTTGGAAGGAACGAAATGAAGC
1 TTTTTGCCACAAACTA-TTGGGGTATTTGGAAGGAACGAAATGAAGC
729806 T
1 T
729807 ACCTTCAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 7 0.16
45 32 0.71
46 6 0.13
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (46 bp):
TTTTTGCCACAAACTATTGGGGTATTTGGAAGGAACGAAATGAAGC
Found at i:731510 original size:33 final size:34
Alignment explanation
Indices: 731435--731669 Score: 171
Period size: 34 Copynumber: 6.7 Consensus size: 34
731425 GAAAATACGT
* ** *
731435 ATATAATATATATGGTTTTTAAAACACTTTTAAA
1 ATATATTATATATAATTTTTAAAACATTTTTAAA
*
731469 A-ACTATATATTATATATATTTTCAAAACATTTTTAAA
1 ATA-TAT-TA-TATATA-ATTTTTAAAACATTTTTAAA
*
731506 ATATA-TA-ATATAATTTTTGAAAAACATTTTAAAA
1 ATATATTATATATAATTTTT--AAAACATTTTTAAA
* * *
731540 ATATATAATATATAATTTTGAAAAACATTTTGAAA
1 ATATATTATATATAATTTT-TAAAACATTTTTAAA
* * *
731575 ACATA-TATATATAATTTTTAGAGCATTTTTGAAA
1 ATATATTATATATAATTTTTAAAACATTTTT-AAA
731609 ACTTATATATAATATATAATTTTTTTTAAAACATTTTTAAA
1 A--TATAT-T-ATATATAA---TTTTTAAAACATTTTTAAA
731650 A-A-A-T-TATATAATTTTTAAAA
1 ATATATTATATATAATTTTTAAAA
731670 GAAGATTTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 42
0.73 0.08 0.19
Matches are distributed among these distances:
30 9 0.06
32 5 0.03
33 21 0.13
34 37 0.23
35 23 0.14
36 18 0.11
37 21 0.13
38 3 0.02
39 8 0.05
41 4 0.02
42 14 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATTATATATAATTTTTAAAACATTTTTAAA
Found at i:731535 original size:34 final size:34
Alignment explanation
Indices: 731455--731725 Score: 175
Period size: 35 Copynumber: 7.8 Consensus size: 34
731445 TATGGTTTTT
* * *
731455 AAAACACTTTTAAAAACTATATATTATATATATTTT-C
1 AAAACA-TTTTTAAAA-TATATAATATA-AT-TTTTGA
731492 AAAACATTTTTAAAATATATAATATAATTTTTGA
1 AAAACATTTTTAAAATATATAATATAATTTTTGA
* *
731526 AAAACATTTTAAAAATATATAATATATAATTTTGA
1 AAAACATTTTTAAAATATATAATATA-ATTTTTGA
* *
731561 AAAACATTTTGAAAACATATATATATAATTTTT--
1 AAAACATTTTTAAAATATATA-ATATAATTTTTGA
* * **
731594 AGAGCATTTTTGAAAACTTATATATAATATATAATTTTTTTT
1 AAAACATTTTT--AAA---ATATAT-A-ATATAA-TTTTTGA
* *
731636 AAAACATTTTTAAAA-A-ATTATATAATTTTTAA
1 AAAACATTTTTAAAATATATAATATAATTTTTGA
* *
731668 AAGAAGATTTTTAAAA-AT-T-AT-TAGTTTTTTGA
1 AA-AACATTTTTAAAATATATAATATA-ATTTTTGA
*
731700 AAAACATTTTTGAAAATTTAT-ATATA
1 AAAACATTTTT-AAAATATATAATATA
731726 GTATATAGTT
Statistics
Matches: 193, Mismatches: 22, Indels: 40
0.76 0.09 0.16
Matches are distributed among these distances:
31 10 0.05
32 21 0.11
33 33 0.17
34 30 0.16
35 48 0.25
36 14 0.07
37 7 0.04
38 5 0.03
39 8 0.04
40 8 0.04
42 9 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (34 bp):
AAAACATTTTTAAAATATATAATATAATTTTTGA
Found at i:731665 original size:31 final size:30
Alignment explanation
Indices: 731621--731723 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 30
731611 TTATATATAA
731621 TATATAATTTTTTTTAAAACATTTTTAAAAAAT
1 TATATAA--TTTTTTAAAACATTTTT-AAAAAT
* *
731654 TATATAATTTTTAAAAGAAGATTTTTAAAAAT
1 TATATAATTTTT-TAA-AACATTTTTAAAAAT
* *
731686 TAT-TAGTTTTTTGAAAAACATTTTTGAAAATT
1 TATATAATTTTTT--AAAACATTTTT-AAAAAT
731718 TATATA
1 TATATA
731724 TAGTATATAG
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
31 20 0.34
32 21 0.36
33 17 0.29
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
TATATAATTTTTTAAAACATTTTTAAAAAT
Found at i:731684 original size:32 final size:33
Alignment explanation
Indices: 731636--731723 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 33
731626 AATTTTTTTT
731636 AAAACATTTTTAAAAAATTATATA-ATTTTTAA
1 AAAACATTTTTAAAAAATTATATAGATTTTTAA
* * *
731668 AAGAAGATTTTT-AAAAATTAT-TAGTTTTTTGA
1 AA-AACATTTTTAAAAAATTATATAGATTTTTAA
* *
731700 AAAACATTTTTGAAAATTTATATA
1 AAAACATTTTTAAAAAATTATATA
731724 TAGTATATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
31 10 0.21
32 27 0.57
33 10 0.21
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (33 bp):
AAAACATTTTTAAAAAATTATATAGATTTTTAA
Found at i:731773 original size:19 final size:19
Alignment explanation
Indices: 731721--731775 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
731711 GAAAATTTAT
731721 ATATAGTATATAGTTTTTAAA
1 ATATA-TATATAG-TTTTAAA
* * *
731742 A-AAATAAACAGTTTTAAA
1 ATATATATATAGTTTTAAA
731760 ATATATATATAGTTTT
1 ATATATATATAGTTTT
731776 TATTTATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 8 0.30
19 16 0.59
20 2 0.07
21 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (19 bp):
ATATATATATAGTTTTAAA
Found at i:731789 original size:13 final size:13
Alignment explanation
Indices: 731771--731796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
731761 TATATATATA
731771 GTTTTTATTTATT
1 GTTTTTATTTATT
731784 GTTTTTATTTATT
1 GTTTTTATTTATT
731797 ATTATTCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:733157 original size:16 final size:15
Alignment explanation
Indices: 733136--733172 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
733126 TACTATTTTC
733136 TTTTTTTCATTATCAT
1 TTTTTTTCATTAT-AT
*
733152 TTTTTTTCTTTATAT
1 TTTTTTTCATTATAT
733167 TTTTTT
1 TTTTTT
733173 AAAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTCATTATAT
Found at i:733254 original size:12 final size:13
Alignment explanation
Indices: 733185--733251 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 13
733175 AAAAATCCAA
733185 TTTTTATTTATCATT
1 TTTTTATTT-T-ATT
*
733200 TTTTTCTATTTA-T
1 TTTTTAT-TTTATT
733213 TTTTTATTTTATT
1 TTTTTATTTTATT
733226 TTTAAGCTTATTTTATT
1 TTT----TTATTTTATT
733243 TTTTTATTT
1 TTTTTATTT
733252 ATTCTTTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
12 4 0.09
13 17 0.39
14 1 0.02
15 7 0.16
16 2 0.05
17 13 0.30
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:736761 original size:23 final size:24
Alignment explanation
Indices: 736735--736779 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
736725 AGCATACCCA
*
736735 AAACCATGAAT-AGCAGTGTTACC
1 AAACCATGAATCAACAGTGTTACC
736758 AAACCATGAATCAACAGTGTTA
1 AAACCATGAATCAACAGTGTTA
736780 TAAAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
AAACCATGAATCAACAGTGTTACC
Found at i:737998 original size:17 final size:19
Alignment explanation
Indices: 737978--738014 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
737968 ATTTCTAATT
737978 TTTAAAAATT-TA-AATAG
1 TTTAAAAATTATATAATAG
*
737995 TTTAAATATTATATAATAG
1 TTTAAAAATTATATAATAG
738014 T
1 T
738015 ATATTAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTAAAAATTATATAATAG
Found at i:743104 original size:18 final size:17
Alignment explanation
Indices: 743083--743121 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
743073 AGGTAATTGA
743083 AATCTGTGAAGGAATTAG
1 AATCTGT-AAGGAATTAG
* *
743101 AATCTGTCAGGAATTGG
1 AATCTGTAAGGAATTAG
743118 AATC
1 AATC
743122 CAATTCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (17 bp):
AATCTGTAAGGAATTAG
Found at i:744009 original size:250 final size:247
Alignment explanation
Indices: 743451--744196 Score: 959
Period size: 252 Copynumber: 3.0 Consensus size: 247
743441 GACCCGACCA
*
743451 GACCAAAATAAAGTTTCACCTG----ACCCGAATATATGAATTAGAAACCCTACCCGACCCGAAA
1 GACCAAAATAAAGTTTCACCCGACCCACCCGAATATATGAATTAGAAA--CT---CGACCCGAAA
* * *
743512 TAATAAAAAAA-TATTTTTATTTAATAAAAACAATAACTTAATTGGAAAAAAAATTATTTATAGA
61 TAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATT-G--AAAAAATTATATATAGA
* * * *
743576 GGGGTATTATTATAATTATTCCTAAATATATAAGGTAGAATTATATA-TTTTTCGGGTC-G-GGT
123 GGGGTATTATTGTAATTATTACTAAATATATAAGATAAAATTATATATTTTTTCGGGTCGGAGGT
*
743638 ATTTTTCACCCTAAACCCG-ACCCG---AATATCACACTTTAAAAAAAACCGACCTGACCC
188 ATTTTTCACCCTAAACCCGAACCCGACCAATATCACACTTT-AAAAAAACCGACCTAACCC
* *
743695 GACCAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACTCGAC
1 GACCAAAATAAAGTTTCACCCGACCC-ACCCGAATATATGAATTAGAAACTCGACCCGA----A-
* *
743760 CCAAAATAAAAAAAAATTATTTTTATTCAATAAAAACAATGACTTTATTG-AAAAATTATATATA
60 --ATAAT--AAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATTATATATA
*
743824 GAGGGGTATTATTGTAATTATTTCTAAATATATAAGATAAAATTATATATTTTTTCGGGTCGGGT
121 GAGGGGTATTATTGTAATTATTACTAAATATATAAGATAAAATTATATATTTTTTCGGGTC-GG-
743889 AAGGTATTTTTCACCCTAAACCCGAACCCGACCCAAATATCACACTTTAAAAAAACCGACC-AAC
184 -AGGTATTTTTCACCCTAAACCCGAACCCGA-CC-AATATCACACTTTAAAAAAACCGACCTAAC
743953 CC
246 CC
743955 GACCAAAATAAAGTTTCACCCGACCCTACCCGAATATATGAATTAGAAACTCGACCCGAAATAAT
1 GACCAAAATAAAGTTTCACCCGACCC-ACCCGAATATATGAATTAGAAACTCGACCCGAAATAAT
* *
744020 AAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATCGAAAAAATTATATATAGAGGGATAT
65 AAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATTATATATAGAGGGGTAT
* * *
744085 TATTGTAATTATTACTAAATATATAAGCTAAAATTATATATTTTTTTGGGTCGGA--TATTTTTA
130 TATTGTAATTATTACTAAATATATAAGATAAAATTATATATTTTTTCGGGTCGGAGGTATTTTTC
744148 ACCCTAAACCCGAACCCGACTCGAATATCACAC-TTAAAAAAACCGACCT
195 ACCCTAAACCCGAACCCGAC-C-AATATCACACTTTAAAAAAACCGACCT
744197 GGCCCAAACC
Statistics
Matches: 447, Mismatches: 25, Indels: 57
0.84 0.05 0.11
Matches are distributed among these distances:
244 28 0.06
246 16 0.04
247 38 0.09
248 1 0.00
249 23 0.05
250 58 0.13
251 56 0.13
252 71 0.16
253 13 0.03
254 29 0.06
256 23 0.05
257 5 0.01
260 60 0.13
261 13 0.03
262 13 0.03
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (247 bp):
GACCAAAATAAAGTTTCACCCGACCCACCCGAATATATGAATTAGAAACTCGACCCGAAATAATA
AAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATTATATATAGAGGGGTATT
ATTGTAATTATTACTAAATATATAAGATAAAATTATATATTTTTTCGGGTCGGAGGTATTTTTCA
CCCTAAACCCGAACCCGACCAATATCACACTTTAAAAAAACCGACCTAACCC
Found at i:749334 original size:20 final size:20
Alignment explanation
Indices: 749309--749350 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
749299 TCCTATTCAT
749309 TGGTAATCTTTTATTCCCAC
1 TGGTAATCTTTTATTCCCAC
749329 TGGTAATCTTTTATTCCCAC
1 TGGTAATCTTTTATTCCCAC
749349 TG
1 TG
749351 AAATCTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
TGGTAATCTTTTATTCCCAC
Found at i:749357 original size:19 final size:20
Alignment explanation
Indices: 749313--749357 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
749303 ATTCATTGGT
*
749313 AATCTTTTATTCCCACTGGT
1 AATCTTTTATTCCCACTGGA
749333 AATCTTTTATTCCCACT-GA
1 AATCTTTTATTCCCACTGGA
749352 AATCTT
1 AATCTT
749358 ACATTCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (20 bp):
AATCTTTTATTCCCACTGGA
Found at i:749363 original size:19 final size:20
Alignment explanation
Indices: 749321--749364 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
749311 GTAATCTTTT
* **
749321 ATTCCCACTGGTAATCTTTT
1 ATTCCCACTGGAAATCTTAC
749341 ATTCCCACT-GAAATCTTAC
1 ATTCCCACTGGAAATCTTAC
749360 ATTCC
1 ATTCC
749365 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTCCCACTGGAAATCTTAC
Found at i:766505 original size:14 final size:14
Alignment explanation
Indices: 766451--766512 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
766441 AACAAGTATT
766451 AAAATAAATATTAAA
1 AAAATAAATATT-AA
766466 AAAATAAATGATCTCTAA
1 AAAATAAAT-A--T-TAA
*
766484 TAAA-AAATATTAA
1 AAAATAAATATTAA
*
766497 AAAATAAATTTTAA
1 AAAATAAATATTAA
766511 AA
1 AA
766513 GTATACTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
13 6 0.15
14 11 0.28
15 9 0.23
16 2 0.05
17 4 0.10
18 6 0.15
19 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATAAATATTAA
Found at i:766793 original size:30 final size:31
Alignment explanation
Indices: 766757--766839 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 31
766747 AGTAGACCCC
*
766757 TAATAATAAATATTAAAAAA-AT-TAA-TTT
1 TAATAATAAATATTAAAAAAGATGTAACCTT
766785 CATAATAATAAATATTGAGAAAAAGATGTAACCTT
1 --TAATAATAAATATT-A-AAAAAGATGTAACCTT
766820 TAATAATAAATATTAAAAAA
1 TAATAATAAATATTAAAAAA
766840 TAATTATGCT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
30 14 0.30
31 6 0.13
32 6 0.13
33 16 0.34
34 3 0.06
35 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.33
Consensus pattern (31 bp):
TAATAATAAATATTAAAAAAGATGTAACCTT
Found at i:777938 original size:35 final size:37
Alignment explanation
Indices: 777899--777974 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
777889 AAACTTAACG
*
777899 TTAACGA-TGTG-CTAAAATAAAAAAAAAACTAAGTT
1 TTAACGATTGTGACTAAAATAAAAAAAAAACTAAATT
* *
777934 TTAACGATTGTGTACTAAAATGAAATAAAAACTAAATT
1 TTAACGATTGTG-ACTAAAATAAAAAAAAAACTAAATT
777972 TTA
1 TTA
777975 TATTGTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 7 0.20
36 4 0.11
38 24 0.69
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (37 bp):
TTAACGATTGTGACTAAAATAAAAAAAAAACTAAATT
Found at i:779512 original size:30 final size:28
Alignment explanation
Indices: 779479--779730 Score: 195
Period size: 30 Copynumber: 8.8 Consensus size: 28
779469 AATTCACATA
*
779479 TTAACATTAAAAATATATTTTATTTTTATA
1 TTAAC-TTAAAAATATATTTTA-TTTTATT
** *
779509 TTAACTTATTGAATATATTTTATTTTTATC
1 TTAACTTA-AAAATATATTTTA-TTTTATT
* *
779539 TTAAATTATTAAATATATTTTATTTTATT
1 TTAACTTA-AAAATATATTTTATTTTATT
*
779568 TTAACTTAAAAA-ATATTTTAGTCTTATT
1 TTAACTTAAAAATATATTTTA-TTTTATT
* * * *
779596 CTATCTTAAAAATATTTTTTAATATTATT
1 TTAACTTAAAAATATATTTT-ATTTTATT
* * *
779625 TTAGTCTTAAAAATATTTTTTAATCTTATT
1 TTA-ACTTAAAAATATATTTT-ATTTTATT
* * * *
779655 TTAGCTCAAAAAAATATTTTATTTTATC
1 TTAACTTAAAAATATATTTTATTTTATT
* *
779683 TTAACTTATGAAATATA-TTTACTTTATT
1 TTAACTTA-AAAATATATTTTATTTTATT
* *
779711 TTAA-TTTAAGATATATTTTA
1 TTAACTTAAAAATATATTTTA
779731 AAAGTCAATA
Statistics
Matches: 185, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.03
27 14 0.08
28 44 0.24
29 49 0.26
30 72 0.39
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (28 bp):
TTAACTTAAAAATATATTTTATTTTATT
Found at i:779675 original size:59 final size:57
Alignment explanation
Indices: 779553--779690 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 57
779543 ATTATTAAAT
* * * * *
779553 ATATTTT-ATTTTATTTTAACTTAAAAAATATTTTAGTCTTATTCTATCTTAAAAAT
1 ATATTTTAATATTATTTTAACTTAAAAAATATTTTAATCTTATTCTAGCTCAAAAAA
* * * *
779609 ATTTTTTAATATTATTTTAGTCTTAAAAATATTTTTTAATCTTATTTTAGCTCAAAAAA
1 ATATTTTAATATTATTTTA-ACTTAAAAA-ATATTTTAATCTTATTCTAGCTCAAAAAA
* *
779668 ATATTTT-ATTTTATCTTAACTTA
1 ATATTTTAATATTATTTTAACTTA
779691 TGAAATATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
56 6 0.09
57 14 0.21
58 17 0.26
59 29 0.44
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (57 bp):
ATATTTTAATATTATTTTAACTTAAAAAATATTTTAATCTTATTCTAGCTCAAAAAA
Found at i:779796 original size:25 final size:25
Alignment explanation
Indices: 779711--779798 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 25
779701 TTACTTTATT
* *
779711 TTAATTTAAGATATA-TTTTAAAAG
1 TTAATATAAGATATATTTTTTAAAG
* * *
779735 TCAATATAA-AAATATATTTT-AAG
1 TTAATATAAGATATATTTTTTAAAG
779758 TTAATATAGAATAAGATATATTTTTTAAAG
1 TT-A-AT---ATAAGATATATTTTTTAAAG
779788 TTAATATAAGA
1 TTAATATAAGA
779799 ATAAGACATA
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
23 8 0.17
24 11 0.23
25 8 0.17
28 6 0.12
29 10 0.21
30 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (25 bp):
TTAATATAAGATATATTTTTTAAAG
Found at i:779843 original size:60 final size:61
Alignment explanation
Indices: 779740--779911 Score: 190
Period size: 60 Copynumber: 2.9 Consensus size: 61
779730 AAAAGTCAAT
* * * * *
779740 ATAAAA-ATATATTTTAAGTTAATAT-AGAATAAGATATATTTTTTAAAGTTAATATAAGA
1 ATAAAACATATTTTTTAAGTTAAAATAAGAATAAAATATATTTTTTAAAGTTAAAATAAAA
* * *
779799 ATAAGACATATTTTTTAAGTTAAAATAAGAGTAAAATATATTTTTTAAA-ATAAAATAAAA
1 ATAAAACATATTTTTTAAGTTAAAATAAGAATAAAATATATTTTTTAAAGTTAAAATAAAA
* ** * * *
779859 ATAAAATATATTTAATAAGTTAAGATAAAAATAAAATAT-TTTTTTAATGTTAA
1 ATAAAACATATTTTTTAAGTTAAAATAAGAATAAAATATATTTTTTAAAGTTAA
779912 GATGTGAATT
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 13 0.14
60 60 0.65
61 20 0.22
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.40
Consensus pattern (61 bp):
ATAAAACATATTTTTTAAGTTAAAATAAGAATAAAATATATTTTTTAAAGTTAAAATAAAA
Found at i:779846 original size:90 final size:89
Alignment explanation
Indices: 779741--779911 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 89
779731 AAAGTCAATA
** * * * ** * *
779741 TAAAAATATATTTTAAGTTAATAT-AGAATAAGATATATTTTTTAAAGTTAATATAAGAATAAGA
1 TAAAAATATATTTTAAAATAAAATAAAAATAAAATATATTTAAT-AAGTTAAGATAAAAATAA-A
779805 CATA-TTTTTTAA-GTTAAAATAAGAG
64 -ATATTTTTTTAATGTTAAAATAAGAG
*
779830 TAAAATATATTTTTTAAAATAAAATAAAAATAAAATATATTTAATAAGTTAAGATAAAAATAAAA
1 TAAAA-ATATATTTTAAAATAAAATAAAAATAAAATATATTTAATAAGTTAAGATAAAAATAAAA
779895 TATTTTTTTAATGTTAA
65 TATTTTTTTAATGTTAA
779912 GATGTGAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
88 3 0.04
89 14 0.21
90 36 0.53
91 15 0.22
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.40
Consensus pattern (89 bp):
TAAAAATATATTTTAAAATAAAATAAAAATAAAATATATTTAATAAGTTAAGATAAAAATAAAAT
ATTTTTTTAATGTTAAAATAAGAG
Found at i:779914 original size:30 final size:30
Alignment explanation
Indices: 779740--779911 Score: 170
Period size: 30 Copynumber: 5.8 Consensus size: 30
779730 AAAAGTCAAT
* * *
779740 ATAAAA-ATATATTTTAAGTTAATAT-AGA
1 ATAAAATATATTTTTTAAGTTAAAATAAAA
* * *
779768 ATAAGATATATTTTTTAAAGTTAATATAAGA
1 ATAAAATATATTTTTT-AAGTTAAAATAAAA
* * *
779799 ATAAGACATATTTTTTAAGTTAAAATAAGA
1 ATAAAATATATTTTTTAAGTTAAAATAAAA
* **
779829 GTAAAATATATTTTTTAAAATAAAATAAAA
1 ATAAAATATATTTTTTAAGTTAAAATAAAA
** *
779859 ATAAAATATATTTAATAAGTTAAGATAAAA
1 ATAAAATATATTTTTTAAGTTAAAATAAAA
779889 ATAAAATAT-TTTTTTAATGTTAA
1 ATAAAATATATTTTTTAA-GTTAA
779912 GATGTGAATT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
28 5 0.04
29 14 0.11
30 85 0.70
31 18 0.15
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.40
Consensus pattern (30 bp):
ATAAAATATATTTTTTAAGTTAAAATAAAA
Found at i:780647 original size:28 final size:28
Alignment explanation
Indices: 780613--780670 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
780603 ATATAATATG
780613 TAAGTATCAATGACTGGATGTGTAATTA
1 TAAGTATCAATGACTGGATGTGTAATTA
780641 TAAGTATCAATGACTGGATGTGTAATTA
1 TAAGTATCAATGACTGGATGTGTAATTA
780669 TA
1 TA
780671 TCAAACGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (28 bp):
TAAGTATCAATGACTGGATGTGTAATTA
Found at i:791797 original size:14 final size:15
Alignment explanation
Indices: 791714--791797 Score: 50
Period size: 17 Copynumber: 5.5 Consensus size: 15
791704 TAAACTAATG
791714 ATAATTAAATTATTAT
1 ATAATTAAATTA-TAT
791730 GATAATTAAATTAATATT
1 -ATAATTAAATT-ATA-T
**
791748 ACTTTTTGAAATT-T-T
1 A-TAATT-AAATTATAT
*
791763 ATCA-TAAATTATAT
1 ATAATTAAATTATAT
791777 ATAATTAAATTA-AT
1 ATAATTAAATTATAT
*
791791 ATGATTA
1 ATAATTA
791798 CTTTTTAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
12 5 0.09
13 2 0.04
14 13 0.24
15 9 0.17
17 15 0.28
18 5 0.09
19 5 0.09
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (15 bp):
ATAATTAAATTATAT
Found at i:791831 original size:49 final size:46
Alignment explanation
Indices: 791719--791813 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 46
791709 TAATGATAAT
* *
791719 TAAATTATTATGATAATTAAATTAATATTACTTTTTGAAATTTTATCA
1 TAAATTA-TAT-ATAATTAAATTAATATTACTTTTTAAAATTTAATCA
791767 TAAATTATATATAATTAAATTAATATGATTACTTTTTAAAATTTAAT
1 TAAATTATATATAATTAAATT-A-AT-ATTACTTTTTAAAATTTAAT
791814 TTTATATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 11 0.26
47 4 0.10
48 9 0.21
49 18 0.43
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (46 bp):
TAAATTATATATAATTAAATTAATATTACTTTTTAAAATTTAATCA
Found at i:791837 original size:18 final size:16
Alignment explanation
Indices: 791806--791840 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
791796 TACTTTTTAA
791806 AATTTAATTTTATATT
1 AATTTAATTTTATATT
791822 AATTATAATTTGTATATT
1 AATT-TAATTT-TATATT
791840 A
1 A
791841 TAAATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTTAATTTTATATT
Found at i:792784 original size:18 final size:18
Alignment explanation
Indices: 792761--792796 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
792751 AAATTATACA
792761 TAATTAAAATGAATGCAT
1 TAATTAAAATGAATGCAT
792779 TAATTAAAATGAATGCAT
1 TAATTAAAATGAATGCAT
792797 AGACCAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (18 bp):
TAATTAAAATGAATGCAT
Found at i:796320 original size:12 final size:12
Alignment explanation
Indices: 796303--796327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
796293 AATTAGATAA
796303 ATGAAATGTAAG
1 ATGAAATGTAAG
796315 ATGAAATGTAAG
1 ATGAAATGTAAG
796327 A
1 A
796328 ACAAGGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
ATGAAATGTAAG
Found at i:797091 original size:60 final size:60
Alignment explanation
Indices: 796994--797108 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
796984 TGTCTCTTAA
** *
796994 TTTTCAATTTAATTCAAATTTAATGATGTAATATATTAATTTAAGCTTTATATTTCATTT
1 TTTTCAATTTAATTCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTCATTT
* * *
797054 TTTTTAATTTAA-TCTAAATTTAATGTTACAATTTATTAATTTAAGCTTCATATTT
1 TTTTCAATTTAATTC-AAATTTAATGATACAATATATTAATTTAAGCTTCATATTT
797109 AAAATTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (60 bp):
TTTTCAATTTAATTCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTCATTT
Found at i:797233 original size:17 final size:17
Alignment explanation
Indices: 797211--797268 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
797201 CTATATAGGT
797211 TATATATACTAATGAAC
1 TATATATACTAATGAAC
**
797228 TATATA-A-TATAT-AGTT
1 TATATATACTA-ATGA-AC
797244 TATATATACTAATGAAC
1 TATATATACTAATGAAC
797261 TATATATA
1 TATATATA
797269 ATGTTAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:797239 original size:33 final size:33
Alignment explanation
Indices: 797195--797348 Score: 168
Period size: 33 Copynumber: 4.5 Consensus size: 33
797185 ATATAGTTTA
* *
797195 TATATACTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
797228 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
797261 TATAT-ATAATGTTAGTTTATATATACCATAT-ATTC
1 TATATAAT-AT-ATAGTTTATATATACTA-ATGA-AC
* *
797296 TATATATGTTATATAGTTTATATATACTAATAAAC
1 TATATA--ATATATAGTTTATATATACTAATGAAC
*
797331 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
797349 AGGTTTAGGG
Statistics
Matches: 102, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
32 2 0.02
33 48 0.47
34 16 0.16
35 17 0.17
36 16 0.16
37 2 0.02
38 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:797430 original size:20 final size:20
Alignment explanation
Indices: 797405--797464 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
797395 ATTACATAAT
*
797405 ATATATAGTTTATATATATA
1 ATATATAGTATATATATATA
797425 ATATATAGTATATGA-ATATA
1 ATATATAGTATAT-ATATATA
797445 A-ACTATAGTATATATATATA
1 ATA-TATAGTATATATATATA
797465 GGTCATATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATATAGTATATATATATA
Found at i:797485 original size:33 final size:33
Alignment explanation
Indices: 797448--797515 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
797438 GAATATAAAC
797448 TATAGTATATATATATAGGTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
* *
797481 TATAGTTTATATATATAGTTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
797514 TA
1 TA
797516 GTTCATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (33 bp):
TATAGTATATATATATAGGTCATATGTAAACTA
Found at i:797517 original size:18 final size:18
Alignment explanation
Indices: 797494--797602 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
797484 AGTTTATATA
797494 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
797512 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
* *
797536 TATAGTTTATATGTAAAG
1 TATAGTTCATATGTAAAC
*
797554 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
797572 TATATAGTT-ATATGTAAAC
1 --TATAGTTCATATGTAAAC
797591 TATAGTTCATAT
1 TATAGTTCATAT
797603 AAATATCAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
17 8 0.11
18 33 0.43
19 8 0.11
20 10 0.13
22 2 0.03
24 15 0.20
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:797518 original size:31 final size:31
Alignment explanation
Indices: 797443--797523 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 31
797433 TATATGAATA
*
797443 TAAACTATAGTATATATATATAGGTCATATG
1 TAAACTATAGTTTATATATATAGGTCATATG
*
797474 TAAACTATATAGTTTATATATATAGTTCATATG
1 TAAAC--TATAGTTTATATATATAGGTCATATG
*
797507 TAAACTATAGTTCATAT
1 TAAACTATAGTTTATAT
797524 GTAAATATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 16 0.36
33 29 0.64
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
TAAACTATAGTTTATATATATAGGTCATATG
Found at i:797541 original size:42 final size:37
Alignment explanation
Indices: 797492--797603 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 37
797482 ATAGTTTATA
* *
797492 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATAT
1 TATATAGTT-ATATGTAAACTATAGTTCATATAT-AA-AC
*
797532 TAACTATAGTTTATATGTAAAGTATAGTT-AGTATATAAAC
1 T-A-TATAG-TTATATGTAAACTATAGTTCA-TATATAAAC
797572 TATATAGTTATATGTAAACTATAGTTCATATA
1 TATATAGTTATATGTAAACTATAGTTCATATA
797604 AATATCAACC
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
37 22 0.35
38 6 0.10
39 1 0.02
40 3 0.05
41 4 0.06
42 25 0.40
43 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (37 bp):
TATATAGTTATATGTAAACTATAGTTCATATATAAAC
Found at i:797673 original size:18 final size:17
Alignment explanation
Indices: 797624--797673 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
797614 TTAGTATATA
*
797624 CATATTTATATATAGTT
1 CATATATATATATAGTT
* *
797641 CATATGTAAACTATAGTT
1 CATATATATA-TATAGTT
797659 CATATATAGTATATA
1 CATATATA-TATATA
797674 AATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.30
18 18 0.67
19 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (17 bp):
CATATATATATATAGTT
Found at i:797682 original size:31 final size:31
Alignment explanation
Indices: 797647--797710 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
797637 AGTTCATATG
797647 TAAACTATAGTTCATAT-ATAGTATATAAATA
1 TAAACTATAGTTCATATAATAGTATA-AAATA
*
797678 TAAACTATAGTTTATATAATAGTATAAAATA
1 TAAACTATAGTTCATATAATAGTATAAAATA
797709 TA
1 TA
797711 GTATAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (31 bp):
TAAACTATAGTTCATATAATAGTATAAAATA
Found at i:797700 original size:61 final size:58
Alignment explanation
Indices: 797572--797700 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 58
797562 GTATATAAAC
* * *
797572 TATATAGTTATATGTAAACTATAGTTCATATAAATATCAACCTTAGTATATACATATTTA
1 TATATAGTTATATGTAAACTATAGTTCATATAAATAT-AA-CTAAATATAAACATATTTA
*
797632 TATATAGTTCATATGTAAACTATAGTTCATATATAGTAT-A-TAAATATAAACTATAGTTTA
1 TATATAGTT-ATATGTAAACTATAGTTCATATA-AATATAACTAAATATAAAC-ATA-TTTA
797692 TATAATAGT
1 TAT-ATAGT
797701 ATAAAATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
58 8 0.13
59 3 0.05
60 17 0.28
61 28 0.47
62 4 0.07
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (58 bp):
TATATAGTTATATGTAAACTATAGTTCATATAAATATAACTAAATATAAACATATTTA
Found at i:797782 original size:14 final size:14
Alignment explanation
Indices: 797749--797782 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
797739 TATATAAATA
*
797749 TAAACCCTAAATCC
1 TAAACCCTAAAACC
*
797763 TGAACCCTAAAACC
1 TAAACCCTAAAACC
797777 TAAACC
1 TAAACC
797783 ATATAATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.35, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAAACC
Found at i:797799 original size:11 final size:11
Alignment explanation
Indices: 797783--797920 Score: 56
Period size: 11 Copynumber: 12.5 Consensus size: 11
797773 AACCTAAACC
797783 ATATAATATAT
1 ATATAATATAT
*
797794 ATATAA-A-CT
1 ATATAATATAT
* *
797803 ATATAGTTTAT
1 ATATAATATAT
*
797814 AT-TAATAAACT
1 ATATAATATA-T
*
797825 ATATAATTTAT
1 ATATAATATAT
*
797836 ACAATATATATTAT
1 A-TATA-ATA-TAT
*
797850 TTATAAT-TAT
1 ATATAATATAT
*
797860 ACATAATATAT
1 ATATAATATAT
797871 AAATATAA-AT-T
1 --ATATAATATAT
* * *
797882 GTATAGTTTAT
1 ATATAATATAT
797893 ATATAAT-TCAT
1 ATATAATAT-AT
*
797904 ATATAATTTAT
1 ATATAATATAT
797915 ATATAA
1 ATATAA
797921 ACTATGTAGT
Statistics
Matches: 92, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
9 10 0.11
10 15 0.16
11 41 0.45
12 13 0.14
13 10 0.11
14 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (11 bp):
ATATAATATAT
Found at i:797918 original size:13 final size:11
Alignment explanation
Indices: 797883--797920 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
797873 ATATAAATTG
*
797883 TATAGTTTATA
1 TATAATTTATA
*
797894 TATAATTCATA
1 TATAATTTATA
797905 TATAATTTATA
1 TATAATTTATA
797916 TATAA
1 TATAA
797921 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:798009 original size:27 final size:28
Alignment explanation
Indices: 797962--798022 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
797952 ATATATAAAC
* **
797962 TATATAGTATTATAGTCTATACATGGTA
1 TATATAGTATTATACTCTATACATAATA
*
797990 TATATAGT-TTATACTTTATACATAATA
1 TATATAGTATTATACTCTATACATAATA
798017 TATATA
1 TATATA
798023 TATAAACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (28 bp):
TATATAGTATTATACTCTATACATAATA
Found at i:798044 original size:20 final size:20
Alignment explanation
Indices: 798019--798085 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
798009 ACATAATATA
*
798019 TATATATAAACTATGTAGTT
1 TATATATAAACTATATAGTT
* * *
798039 TATATACATAACAAATATACTT
1 TATATATA-AAC-TATATAGTT
798061 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
798081 TATAT
1 TATAT
798086 TATATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 19 0.50
21 6 0.16
22 13 0.34
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:798095 original size:20 final size:20
Alignment explanation
Indices: 797988--798097 Score: 57
Period size: 20 Copynumber: 5.4 Consensus size: 20
797978 CTATACATGG
797988 TATATATAGTTTATACTT-TA
1 TATATATAGTTTATA-TTATA
* *
798008 TACATA-A-TATATATATATA
1 TATATATAGTTTATAT-TATA
* * *
798027 AACTATGTAGTTTATATACATAA
1 TA-TATATAGTTTATAT-TAT-A
* * *
798050 CAAATATACTTTATA-TATA
1 TATATATAGTTTATATTATA
*
798069 AACTATATAGTTTATATTATA
1 TA-TATATAGTTTATATTATA
798090 TATATATA
1 TATATATA
798098 TTAGTTGTTT
Statistics
Matches: 66, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
17 1 0.02
18 6 0.09
19 6 0.09
20 26 0.39
21 6 0.09
22 19 0.29
23 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATATAGTTTATATTATA
Found at i:798850 original size:208 final size:209
Alignment explanation
Indices: 798122--798918 Score: 1064
Period size: 208 Copynumber: 3.8 Consensus size: 209
798112 TTTTTTCTCA
* * *
798122 ACTTATTACTTATTTCTATTTATT-AATTGGTCCATAACTTTTTAAATGAGTATAATTTAGTACA
1 ACTTATTACTTATTTATATTT-TTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACT
** *** *
798186 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTTTGTGTTGTTTA
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTCAT-CAATGTGTA
* * *
798251 ATATATTTAAATTTTTATTTATAATTTCATATTTTTTCAATTTAGTCCTCCAAATTTTATTTGCA
129 ATATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
*
798316 CCTGAAATTGACCCAT
194 TCTGAAATTGACCCAT
* *
798332 ACTTATTACTTATTTATATTTTTAAATTGGCTCATAACTTTTTAAATGAGTATAATTTAATACTT
1 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* ***
798397 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCT--TTTGTGTTGTAA
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTCATCAATG-TGTAA
* * * *
798460 TATATTTAAATTTTTATTTTTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTTCAT
130 TATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCAT
798525 CTGAAATTGACCCAT
195 CTGAAATTGACCCAT
*
798540 ACTTATTAC-------TATTTTTAAATT-GACCATAACTTTTTAAAT-AGGTATAATTTAGTACT
1 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGA-GTATAATTTAGTACT
* * *
798596 TTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGT-G
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTAA
*
798660 T-TATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAACTTTTATTTGCAT
130 TATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCAT
* *
798724 ATGAAATTGATCCAT
195 CTGAAATTGACCCAT
* *
798739 ACTTATTACTTAATTATATTTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT
1 ACTTATTACTTATTTATA-TTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACT
* *
798804 TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCTCTCATCAATGTGTGT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTCATCAA----TG-
* *
798869 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
125 TG--TAATATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTA
798919 ATTCTTAAAT
Statistics
Matches: 527, Mismatches: 36, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
199 81 0.15
200 80 0.15
201 15 0.03
202 3 0.01
206 2 0.00
207 13 0.02
208 178 0.34
209 2 0.00
210 107 0.20
212 2 0.00
213 2 0.00
215 1 0.00
216 1 0.00
217 40 0.08
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (209 bp):
ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTAAT
ATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATC
TGAAATTGACCCAT
Found at i:802274 original size:18 final size:19
Alignment explanation
Indices: 802247--802290 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
802237 TGATCAAGTA
*
802247 TTATTTAAAATATT-ATTT
1 TTATTAAAAATATTAATTT
*
802265 TTATTAAAAATGTTAATTT
1 TTATTAAAAATATTAATTT
*
802284 TTTTTAA
1 TTATTAA
802291 TTTTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATTAAAAATATTAATTT
Found at i:802318 original size:19 final size:19
Alignment explanation
Indices: 802290--802356 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 19
802280 ATTTTTTTTA
802290 ATTTTTAATAAAAAATAAT
1 ATTTTTAATAAAAAATAAT
* *
802309 ATTTTAAATAGTATTTAATATTAAT
1 ATTTTTAATA--A---AA-AATAAT
802334 ATTTTTAATAAAAAATAAT
1 ATTTTTAATAAAAAATAAT
802353 ATTT
1 ATTT
802357 ATATAATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 18 0.47
20 2 0.05
21 1 0.03
23 1 0.03
24 2 0.05
25 14 0.37
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
ATTTTTAATAAAAAATAAT
Found at i:802370 original size:30 final size:31
Alignment explanation
Indices: 802314--802379 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 31
802304 ATAATATTTT
* *
802314 AAATAGTATTTAATATTAATATTTTTAATAAA
1 AAATAATATTTAATATTAATACTTTT-ATAAA
*
802346 AAATAATATTT-ATA-TAATACTTTTATCAA
1 AAATAATATTTAATATTAATACTTTTATAAA
802375 AAATA
1 AAATA
802380 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.29
30 9 0.29
31 3 0.10
32 10 0.32
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (31 bp):
AAATAATATTTAATATTAATACTTTTATAAA
Found at i:808484 original size:5 final size:5
Alignment explanation
Indices: 808476--808629 Score: 67
Period size: 5 Copynumber: 30.6 Consensus size: 5
808466 GTTTATGTTA
* * *
808476 TATAT TATAG TATA- TATAT TATAT TATAT AATA- TATAGT GTGTTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T -T-ATAT
* * *
808522 TATA- CATAG TATAT TATA- TAT-T ATATAT TGTA- TAGTA- TATAT TATA-
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TA-TAT TATAT TATAT
* *
808568 TATAG TATAT TATAT AGTATAT TAT-T ATAGTAT TATATT ATATAT TATAG
1 TATAT TATAT TATAT --TATAT TATAT -TA-TAT TATA-T -TATAT TATAT
808618 TAT-T TATAT TAT
1 TATAT TATAT TAT
808630 TAAGTTATTA
Statistics
Matches: 116, Mismatches: 13, Indels: 40
0.69 0.08 0.24
Matches are distributed among these distances:
4 24 0.21
5 71 0.61
6 7 0.06
7 12 0.10
8 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:808491 original size:7 final size:7
Alignment explanation
Indices: 808481--808620 Score: 62
Period size: 7 Copynumber: 20.1 Consensus size: 7
808471 TGTTATATAT
808481 TATAGTA
1 TATAGTA
808488 TATA-TA
1 TATAGTA
*
808494 TTATATTA
1 -TATAGTA
*
808502 TATAATA
1 TATAGTA
*
808509 TATAGTG
1 TATAGTA
* *
808516 TGTTATTA
1 T-ATAGTA
808524 TACATAGTA
1 T--ATAGTA
808533 TAT--TA
1 TATAGTA
*
808538 TATATTA
1 TATAGTA
* *
808545 TATATTG
1 TATAGTA
808552 TATAGTA
1 TATAGTA
*
808559 TATATTA
1 TATAGTA
808566 TATA-TA
1 TATAGTA
*
808572 GTATATTA
1 -TATAGTA
808580 TATAGTA
1 TATAGTA
808587 TAT--TA
1 TATAGTA
808592 TTATAGTA
1 -TATAGTA
*
808600 TTATATTA
1 -TATAGTA
808608 TATA-T-
1 TATAGTA
808613 TATAGTA
1 TATAGTA
808620 T
1 T
808621 TTATATTATT
Statistics
Matches: 105, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
5 11 0.10
6 9 0.09
7 63 0.60
8 17 0.16
9 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (7 bp):
TATAGTA
Found at i:808493 original size:14 final size:14
Alignment explanation
Indices: 808474--808609 Score: 117
Period size: 14 Copynumber: 9.8 Consensus size: 14
808464 CTGTTTATGT
808474 TATATATTATAGTA
1 TATATATTATAGTA
*
808488 TATATATTATATTA
1 TATATATTATAGTA
*
808502 TATA-ATATATAGTG
1 TATATAT-TATAGTA
* *
808516 TGT-TATTATA-CA
1 TATATATTATAGTA
808528 TAGTATATTATA-TA
1 TA-TATATTATAGTA
808542 TTATATATTGTATAGTA
1 -TATATA-T-TATAGTA
808559 TATATTATATATAGTA
1 TATA-TAT-TATAGTA
808575 TAT-TA-TATAGTA
1 TATATATTATAGTA
808587 TAT-TATTATAGTA
1 TATATATTATAGTA
808600 T-TATATTATA
1 TATATATTATA
808610 TATTATAGTA
Statistics
Matches: 102, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
12 14 0.14
13 22 0.22
14 40 0.39
15 3 0.03
16 19 0.19
17 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (14 bp):
TATATATTATAGTA
Found at i:808499 original size:21 final size:20
Alignment explanation
Indices: 808473--808629 Score: 126
Period size: 21 Copynumber: 7.5 Consensus size: 20
808463 CCTGTTTATG
808473 TTATATATTATAGTATATATA
1 TTATATATTATA-TATATATA
808494 -T-TATATTATATAATATATA
1 TTATATATTATAT-ATATATA
* *
808513 GTGTGT-TATTATACATAGTATA
1 -T-TATATATTATATATA-TATA
*
808535 TTATATATTATATATTGTATA
1 TTATATATTATATA-TATATA
*
808556 GTATATATTATATATAGTATA
1 TTATATATTATATATA-TATA
*
808577 TTATATAGTATAT-TATTATA
1 TTATATATTATATATA-TATA
*
808597 GTATTATATTATATATTATAGTA
1 TTA-TATATTATATA-TATA-TA
808620 TT-TATATTAT
1 TTATATATTAT
808630 TAAGTTATTA
Statistics
Matches: 111, Mismatches: 12, Indels: 26
0.74 0.08 0.17
Matches are distributed among these distances:
18 1 0.01
19 16 0.14
20 12 0.11
21 61 0.55
22 15 0.14
23 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (20 bp):
TTATATATTATATATATATA
Found at i:808627 original size:14 final size:14
Alignment explanation
Indices: 808476--808629 Score: 70
Period size: 14 Copynumber: 10.6 Consensus size: 14
808466 GTTTATGTTA
*
808476 TATATTATAGTATA
1 TATATTATAGTATT
* *
808490 TATATTATATTATA
1 TATATTATAGTATT
*
808504 TA-ATATATAGTGTGT
1 TATAT-TATAGTAT-T
*
808519 TATTATACATAGTATATT
1 TA-TAT-TATAG--TATT
808537 ATATATTATA-TATT
1 -TATATTATAGTATT
*
808551 GTATAGTATA-TA-T
1 -TATATTATAGTATT
808564 TATA-TATAGTATAT
1 TATATTATAGTAT-T
*
808578 TATATAGTATATTATT
1 TATAT--TATAGTATT
*
808594 ATAGTATTATA-T-TA
1 -TA-TATTATAGTATT
808608 TATATTATAGTATT
1 TATATTATAGTATT
808622 TATATTAT
1 TATATTAT
808630 TAAGTTATTA
Statistics
Matches: 111, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
11 4 0.04
12 13 0.12
13 6 0.05
14 50 0.45
15 3 0.03
16 5 0.05
17 19 0.17
18 7 0.06
19 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.53
Consensus pattern (14 bp):
TATATTATAGTATT
Found at i:809694 original size:11 final size:11
Alignment explanation
Indices: 809678--809901 Score: 97
Period size: 14 Copynumber: 19.1 Consensus size: 11
809668 ATGTTTTCGA
809678 AATAATGATTT
1 AATAATGATTT
809689 AATAAT-ATTT
1 AATAATGATTT
809699 AATAATGATTT
1 AATAATGATTT
809710 --TAAT-A-TT
1 AATAATGATTT
809717 --TAATGATTT
1 AATAATGATTT
* *
809726 AGTAACGATTTGAT
1 AATAATGA-TT--T
*
809740 AATAATCATTAT
1 AATAATGATT-T
809752 AATAATGATTTAGT
1 AATAATGA-TT--T
*
809766 AATAATCATTAT
1 AATAATGATT-T
809778 AATAATGATTTAAT
1 AATAATGA-TT--T
809792 AATAATGATTT
1 AATAATGATTT
*
809803 AGTAATGATTTGAT
1 AATAATGA-TT--T
809817 AATAATGATTT
1 AATAATGATTT
* * *
809828 ATTATTAATATT
1 AATAATGAT-TT
809840 --TAATGATTT
1 AATAATGATTT
809849 GATACTAATGATTT
1 -A-A-TAATGATTT
*
809863 ACTAATGATTACT
1 AATAATGATT--T
809876 AATAATGAAATTAT
1 AATAATG--ATT-T
809890 AATAATGATTT
1 AATAATGATTT
809901 A
1 A
809902 TACTAATAAT
Statistics
Matches: 169, Mismatches: 19, Indels: 50
0.71 0.08 0.21
Matches are distributed among these distances:
7 6 0.04
8 2 0.01
9 8 0.05
10 15 0.09
11 40 0.24
12 26 0.15
13 20 0.12
14 49 0.29
15 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (11 bp):
AATAATGATTT
Found at i:809715 original size:19 final size:20
Alignment explanation
Indices: 809678--809720 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
809668 ATGTTTTCGA
809678 AATAATGATTTAATAATATTT
1 AATAATGATTT-ATAATATTT
809699 AATAATGATTT-TAATATTT
1 AATAATGATTTATAATATTT
809718 AAT
1 AAT
809721 GATTTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AATAATGATTTATAATATTT
Found at i:809762 original size:26 final size:25
Alignment explanation
Indices: 809688--809828 Score: 149
Period size: 26 Copynumber: 5.5 Consensus size: 25
809678 AATAATGATT
809688 TAATAAT-ATTTAATAATGATTTTAA
1 TAATAATCATTTAATAATGA-TTTAA
* * * * *
809713 TATTTAATGATTTAGTAACGATTTGA
1 TA-ATAATCATTTAATAATGATTTAA
*
809739 TAATAATCATTATAATAATGATTTAG
1 TAATAATCATT-TAATAATGATTTAA
809765 TAATAATCATTATAATAATGATTTAA
1 TAATAATCATT-TAATAATGATTTAA
* * *
809791 TAATAATGATTTAGTAATGATTTGA
1 TAATAATCATTTAATAATGATTTAA
*
809816 TAATAATGATTTA
1 TAATAATCATTTA
809829 TTATTAATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
25 34 0.34
26 55 0.56
27 10 0.10
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (25 bp):
TAATAATCATTTAATAATGATTTAA
Found at i:809857 original size:21 final size:22
Alignment explanation
Indices: 809819--809863 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
809809 GATTTGATAA
*
809819 TAATGATTTATTATTAAT-ATT
1 TAATGATTTATTACTAATGATT
809840 TAATGATTTGA-TACTAATGATT
1 TAATGATTT-ATTACTAATGATT
809862 TA
1 TA
809864 CTAATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
TAATGATTTATTACTAATGATT
Found at i:809894 original size:14 final size:15
Alignment explanation
Indices: 809870--809911 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
809860 TTTACTAATG
809870 ATTACTAATAATGAA
1 ATTACTAATAATGAA
*
809885 ATTA-TAATAATGAT
1 ATTACTAATAATGAA
*
809899 TTATACTAATAAT
1 AT-TACTAATAAT
809912 CATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.43
15 6 0.26
16 7 0.30
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (15 bp):
ATTACTAATAATGAA
Found at i:809901 original size:60 final size:60
Alignment explanation
Indices: 809780--809901 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 60
809770 ATCATTATAA
* * *
809780 TAATGATTTAATAATAATGATTTAGTAATGATTTGATAATAATGATTTATTATTAATATT
1 TAATGATTTAATAATAATGATTTACTAATGATTTGATAATAATGAATTATTAATAATATT
* *
809840 TAATGATTTGATACTAATGATTTACTAATGA-TT-ACTAATAATGAAATTA-TAATAATGATT
1 TAATGATTTAATAATAATGATTTACTAATGATTTGA-TAATAATG-AATTATTAATAAT-ATT
809900 TA
1 TA
809902 TACTAATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
58 1 0.02
59 16 0.30
60 37 0.69
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (60 bp):
TAATGATTTAATAATAATGATTTACTAATGATTTGATAATAATGAATTATTAATAATATT
Found at i:812302 original size:30 final size:30
Alignment explanation
Indices: 812263--812368 Score: 131
Period size: 30 Copynumber: 3.5 Consensus size: 30
812253 TTCCCTTAAA
*
812263 CAACAAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
812293 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * * *
812323 AAACTAATAAACGATTTTTTAATTATAATTT
1 CAACTAATAAACTATTCTTTAA-TATAACTT
* *
812354 GCTACTAAAAAACTA
1 -CAACTAATAAACTA
812369 ATTAACTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
30 48 0.74
31 7 0.11
32 10 0.15
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:812315 original size:15 final size:16
Alignment explanation
Indices: 812268--812321 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
812258 TTAAACAACA
812268 AATA-AACTATTCTTT
1 AATATAACTATTCTTT
**
812283 AATATAAC--TTCAACT
1 AATATAACTATTC-TTT
812298 AATA-AACTATTCTTT
1 AATATAACTATTCTTT
812313 AATATAACT
1 AATATAACT
812322 TAAACTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
14 6 0.20
15 14 0.47
16 10 0.33
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATAACTATTCTTT
Found at i:812482 original size:41 final size:37
Alignment explanation
Indices: 812427--812540 Score: 106
Period size: 41 Copynumber: 2.9 Consensus size: 37
812417 CTTAACTATT
812427 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
*
812463 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATA
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* * *
812506 TAACTATCAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
812541 TTCTATATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
36 8 0.12
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.31
42 3 0.05
43 12 0.19
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:812574 original size:21 final size:21
Alignment explanation
Indices: 812550--812589 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
812540 TTTCTATATG
812550 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
812571 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
812590 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:812783 original size:48 final size:47
Alignment explanation
Indices: 812688--812794 Score: 117
Period size: 47 Copynumber: 2.2 Consensus size: 47
812678 TTATATAACT
* * * *
812688 TAAACTAATAAACTATTTTTTTATTATAATACAACTTAAACTACAAA
1 TAAACTAATTAACTAATTTTTTATTATAATACAAATTAAACAACAAA
* *
812735 TAAACTAATTAACTAAATTTTTTA-TATAATATAAATTCAACAAACAAA
1 TAAACTAATTAACT-AATTTTTTATTATAATACAAATTAAAC-AACAAA
812783 TATAACTTAATT
1 TA-AAC-TAATT
812795 TTTTAACTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 27 0.54
48 15 0.30
49 3 0.06
50 5 0.10
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.38
Consensus pattern (47 bp):
TAAACTAATTAACTAATTTTTTATTATAATACAAATTAAACAACAAA
Found at i:813019 original size:376 final size:364
Alignment explanation
Indices: 812305--813045 Score: 1044
Period size: 376 Copynumber: 2.0 Consensus size: 364
812295 ACTAATAAAC
* *
812305 TATTCTTTAATATAACTTAAACTAATAAACGATTTTTTAATTATAATTTGCTACTAAAAAACTAA
1 TATTATTTAATATAACTTAAACTAATAAACGATTTTTTAATTATAATTTACTACTAAAAAACTAA
* *
812370 TTAACTAATTTTTTTATATAATATAAATTCAACAAATAATATGGAAACTTAACTATTTAACTAAC
66 TTAACTAAATTTTTTATATAATATAAATTCAACAAAAAATAT-G-AACTTAACTATTTAACTAAC
* * *
812435 ACAAACTAATTACATATTTTTTTATATATAACTAACGACTAACAAACTAACTAATTATTTTTATT
129 ACAAACTAATTACATATTTTTATATATATAACTAACGACCAACAAACAAACTAATTATTTTTATT
* * *
812500 AATATATAACTATCAAACATACTAATTAAATAATTTTTTATTTCTATATGATATAACTTAAACTA
194 AATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGATAGAACTTAAACTA
*** ** *
812565 ACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCCTAAACCTAAACT
259 ACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTCCCTAAACCCTAAACCTAAACA
812630 AACAAACTAATAATTTATAA-TAATAAACTAATTTAAATAAT
324 AACAAACTAATAATTTA-AATTAATAAACTAATTTAAATAAT
* * *
812671 TATTATTTTATATAACTTAAACTAATAAACTATTTTTTTATTATAATACAACTTAAACTAC-AAA
1 TATTATTTAATATAACTTAAACTAATAAACGATTTTTTAATTATAAT-----TT--ACTACTAAA
* *
812735 TAAACTAATTAACTAAATTTTTTATATAATATAAATTCAACAAACAAATAT-AACTTAATTTTTT
59 -AAACTAATTAACTAAATTTTTTATATAATATAAATTCAACAAA-AAATATGAACTTAACTATTT
812799 AACTAACTACAAACTAATTA-ACTATTTTATATATATATAACTAACGACCAACAAACAAACTAAT
122 AACTAAC-ACAAACTAATTACA-TATTTT-TATATATATAACTAACGACCAACAAACAAACTAAT
* * *
812863 TAATTATTTTTTTAATATATAACTATCAAACAAACTAATTTAATAATTTTTTATTTATGTATGAT
184 T-A-T-TTTTATTAATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGAT
812928 AGAACTTAAACTAACAATAATATAACTTAAACTAACAAACTAATTAACTAAATTTTTACCCTAAA
246 AGAACTTAAACTAACAATAATATAACTTAAACTAACAAACTAATTAACT-AATTTTT-CCCTAAA
812993 CCCTAAA-CT-AACAAACAAACTAATAATTTAAATTAATAAACTAATTTAAATAA
309 CCCTAAACCTAAACAAACAAACTAATAATTTAAATTAATAAACTAATTTAAATAA
813046 AATGAAAATT
Statistics
Matches: 333, Mismatches: 24, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
366 43 0.13
371 21 0.06
372 21 0.06
373 79 0.24
374 6 0.02
375 3 0.01
376 142 0.43
377 9 0.03
378 9 0.03
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (364 bp):
TATTATTTAATATAACTTAAACTAATAAACGATTTTTTAATTATAATTTACTACTAAAAAACTAA
TTAACTAAATTTTTTATATAATATAAATTCAACAAAAAATATGAACTTAACTATTTAACTAACAC
AAACTAATTACATATTTTTATATATATAACTAACGACCAACAAACAAACTAATTATTTTTATTAA
TATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGATAGAACTTAAACTAAC
AATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTCCCTAAACCCTAAACCTAAACAAA
CAAACTAATAATTTAAATTAATAAACTAATTTAAATAAT
Done.