Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 98 of 100
Found at i:19453614 original size:44 final size:44
Alignment explanation
Indices: 19453550--19453640 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
19453540 CTTACATGCA
19453550 CATCACAAAAAAAAAAACATTCGCATTTGCATCACTTGCATCTG
1 CATCACAAAAAAAAAAACATTCGCATTTGCATCACTTGCATCTG
* * * *
19453594 CATCACAAAAAAAAAGACATTTGCATTTGTATCACTTGCATTTG
1 CATCACAAAAAAAAAAACATTCGCATTTGCATCACTTGCATCTG
19453638 CAT
1 CAT
19453641 TTGTATATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (44 bp):
CATCACAAAAAAAAAAACATTCGCATTTGCATCACTTGCATCTG
Found at i:19453727 original size:41 final size:41
Alignment explanation
Indices: 19453676--19453765 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
19453666 TTTGTATTCA
* * * *
19453676 CATCTACATCACAAAAAAGACATTTGCATTTGTATTACTTG
1 CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
* * * *
19453717 CATCTGCATCATAAGAAAGATATTCGTATTTGCATCACTTG
1 CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
*
19453758 CATTTGCA
1 CATCTGCA
19453766 CTTGTATAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (41 bp):
CATCTGCATCACAAAAAAGACATTCGCATTTGCATCACTTG
Found at i:19453783 original size:25 final size:24
Alignment explanation
Indices: 19453755--19453815 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
19453745 TTTGCATCAC
*
19453755 TTGCATTTGCACTTG-TATAAGATGT
1 TTGCATTTGCA--TGATATAAGATAT
*
19453780 TTGCATTTGCATGATATAAGGTAT
1 TTGCATTTGCATGATATAAGATAT
19453804 TTGCATTTGCAT
1 TTGCATTTGCAT
19453816 CATGGTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.61
25 11 0.33
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (24 bp):
TTGCATTTGCATGATATAAGATAT
Found at i:19453951 original size:18 final size:18
Alignment explanation
Indices: 19453928--19453962 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19453918 CACATTCTTA
*
19453928 CATTCATATTGATATTTG
1 CATTCATATTGACATTTG
19453946 CATTCATATTGACATTT
1 CATTCATATTGACATTT
19453963 CTAGTCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (18 bp):
CATTCATATTGACATTTG
Found at i:19454241 original size:22 final size:22
Alignment explanation
Indices: 19454205--19454333 Score: 105
Period size: 22 Copynumber: 5.8 Consensus size: 22
19454195 AATTAAGTCT
*
19454205 AAATTAGCTGACACATGAGCTC
1 AAATTAGCTGGCACATGAGCTC
* * * *
19454227 AAATTAACTGGCACATAATCTT
1 AAATTAGCTGGCACATGAGCTC
* * *
19454249 AAATTAGCTAGTACAAGAGCTC
1 AAATTAGCTGGCACATGAGCTC
* * * *
19454271 AGATTAGTTGGCATATGAGCCC
1 AAATTAGCTGGCACATGAGCTC
* * *
19454293 AGATTAGTTGGCACATGAGCTT
1 AAATTAGCTGGCACATGAGCTC
*
19454315 AAGATTAGCTAGCACATGA
1 AA-ATTAGCTGGCACATGA
19454334 TCCATATTAA
Statistics
Matches: 81, Mismatches: 25, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
22 67 0.83
23 14 0.17
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (22 bp):
AAATTAGCTGGCACATGAGCTC
Found at i:19454468 original size:35 final size:35
Alignment explanation
Indices: 19454383--19454951 Score: 360
Period size: 35 Copynumber: 16.2 Consensus size: 35
19454373 CTCAGTATTC
* * * * *
19454383 TTATTTTTTGAATTGTGGTATTATCTCGATCGTTTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATC-ATTT
* * *
19454419 TTATTTTTTTGACTTATAGTGTTATCTTGATTATTC
1 TTA-TTTTTTGACTTATGGTGTTATCTTGATCATTT
* * * *
19454455 TTATTTTTTGACTTGTGGTGTTGTCTCGATCGTTCT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATT-T
* *
19454491 TTA-TTTTTGACTTATGGTGTTATCTTGGTCGTTTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATC-ATTT
* *
19454526 TTATTTTTTTGAATTATGGTGTTAT-TTCAGTCATTTT
1 TTA-TTTTTTGACTTATGGTGTTATCTTGA-TCA-TTT
* * * * * *
19454563 TTATTTTTTGACTTGTAGTGTTGTCTCGGTCATTC
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATTT
* * * *** *
19454598 TTATTTTTTTACTTATGATGTTGTCCCAATCGTTCT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATT-T
* * * *
19454634 TTATTTTTTGACTTGTGGTGTTGTCCTAATCATTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATTT
19454669 TTATTTTTTGACTTATGGTGTTAT-TT--T--TTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATTT
*
19454699 GTT-TTTTTGGACTTATGGTGTT-TCTCT-ATCATTT
1 -TTATTTTTTGACTTATGGTGTTATCT-TGATCATTT
* * * *
19454733 TTATTTTTTGACTTGTGGTATTATCCTGGTCATTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATTT
* ** * *
19454768 TTATTTTTTGACTTATGGTGTTGTCCCGGTCGTTCTT
1 TTATTTTTTGACTTATGGTGTTATCTTGATC-AT-TT
* * * * * *
19454805 TTTTTTTTTTACTTATGTTGTTGTTCTAG-CCATTT
1 TTATTTTTTGACTTATGGTGTT-ATCTTGATCATTT
* *
19454840 TTATTTTTTGAC--AT-GTGTT-TTTTAGGTCATTTT
1 TTATTTTTTGACTTATGGTGTTATCTT-GATCA-TTT
*
19454873 TTATTTTTTTGACTTATGGTGTTGTCTT-AGTCATTT
1 TTA-TTTTTTGACTTATGGTGTTATCTTGA-TCATTT
* * * *
19454909 TTATTTTTTAACTTACGGTGTTGTCTCGATCATTCT
1 TTATTTTTTGACTTATGGTGTTATCTTGATCATT-T
19454945 TTATTTT
1 TTATTTT
19454952 CTAATTTGTG
Statistics
Matches: 422, Mismatches: 79, Indels: 64
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.00
30 24 0.06
31 4 0.01
32 8 0.02
33 10 0.02
34 30 0.07
35 176 0.42
36 83 0.20
37 80 0.19
38 6 0.01
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.59
Consensus pattern (35 bp):
TTATTTTTTGACTTATGGTGTTATCTTGATCATTT
Found at i:19454471 original size:72 final size:71
Alignment explanation
Indices: 19454379--19454951 Score: 349
Period size: 72 Copynumber: 8.2 Consensus size: 71
19454369 TTATCTCAGT
* * * *
19454379 ATTCTTATTTTTTGAATTGTGGTATTATCTCGATCGTTTTTTATTTTTTTGACTTATAGTGTTAT
1 ATTCTTATTTTTTGACTTATGGTGTTATCTCGATCGTTTTTTA-TTTTTTGACTTATGGTGTTAT
*
19454444 CTTGATT
65 CTTGATC
* * *
19454451 ATTCTTATTTTTTGACTTGTGGTGTTGTCTCGATCGTTCTTTA-TTTTTGACTTATGGTGTTATC
1 ATTCTTATTTTTTGACTTATGGTGTTATCTCGATCGTTTTTTATTTTTTGACTTATGGTGTTATC
*
19454515 TTGGTC
66 TTGATC
* * * * * * *
19454521 GTTTTTTATTTTTTTGAATTATGGTGTTATTTC-AGTCATTTTTTATTTTTTGACTTGTAGTGTT
1 -ATTCTTA-TTTTTTGACTTATGGTGTTATCTCGA-TCGTTTTTTATTTTTTGACTTATGGTGTT
* * *
19454585 GTCTCGGTC
63 ATCTTGATC
* * * * * * * *
19454594 ATTCTTATTTTTTTACTTATGATGTTGTCCCAATCGTTCTTTATTTTTTGACTTGTGGTGTTGTC
1 ATTCTTATTTTTTGACTTATGGTGTTATCTCGATCGTTTTTTATTTTTTGACTTATGGTGTTATC
* *
19454659 CTAATC
66 TTGATC
* *
19454665 ATTTTTATTTTTTGACTTATGGTGTTAT-T---T--TTTTGTT-TTTTTGGACTTATGGTGTT-T
1 ATTCTTATTTTTTGACTTATGGTGTTATCTCGATCGTTTT-TTATTTTTTGACTTATGGTGTTAT
19454722 CTCT-ATC
65 CT-TGATC
* * * * * *
19454729 ATTTTTATTTTTTGACTTGTGGTATTATC-CTGGTC-ATTTTTATTTTTTGACTTATGGTGTTGT
1 ATTCTTATTTTTTGACTTATGGTGTTATCTC-GATCGTTTTTTATTTTTTGACTTATGGTGTTAT
** *
19454792 CCCGGTC
65 CTTGATC
* * * * * * * **
19454799 GTTCTTTTTTTTTTTTACTTATGTTGTTGT-TCTAGCCATTTTTATTTTTTGAC--AT-GTGTT-
1 ATTC--TTATTTTTTGACTTATGGTGTTATCTCGATCGTTTTTTATTTTTTGACTTATGGTGTTA
* *
19454859 TTTTAGGTC
64 TCTT-GATC
* * * * * *
19454868 ATTTTTTATTTTTTTGACTTATGGTGTTGTCT-TAGTC-ATTTTTATTTTTTAACTTACGGTGTT
1 A-TTCTTA-TTTTTTGACTTATGGTGTTATCTCGA-TCGTTTTTTATTTTTTGACTTATGGTGTT
* *
19454931 GTCTCGATC
63 ATCTTGATC
19454940 ATTCTTTATTTT
1 ATTC-TTATTTT
19454952 CTAATTTGTG
Statistics
Matches: 395, Mismatches: 76, Indels: 61
0.74 0.14 0.11
Matches are distributed among these distances:
64 31 0.08
65 21 0.05
66 2 0.01
67 1 0.00
68 6 0.02
69 66 0.17
70 36 0.09
71 87 0.22
72 120 0.30
73 25 0.06
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.59
Consensus pattern (71 bp):
ATTCTTATTTTTTGACTTATGGTGTTATCTCGATCGTTTTTTATTTTTTGACTTATGGTGTTATC
TTGATC
Found at i:19454707 original size:64 final size:64
Alignment explanation
Indices: 19454637--19454756 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
19454627 TCGTTCTTTA
* *
19454637 TTTTTT-GACTTGTGGTGTTGTC-CTAATCATTTTTATTTTTTGACTTATGGTGTTATTTTTTTG
1 TTTTTTGGACTTATGGTGTT-TCTCT-ATCATTTTTATTTTTTGACTTATGGTATTATTTTTTTG
19454700 T
64 T
*
19454701 TTTTTTGGACTTATGGTGTTTCTCTATCATTTTTATTTTTTGACTTGTGGTATTAT
1 TTTTTTGGACTTATGGTGTTTCTCTATCATTTTTATTTTTTGACTTATGGTATTAT
19454757 CCTGGTCATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
64 37 0.73
65 14 0.27
ACGTcount: A:0.13, C:0.08, G:0.17, T:0.62
Consensus pattern (64 bp):
TTTTTTGGACTTATGGTGTTTCTCTATCATTTTTATTTTTTGACTTATGGTATTATTTTTTTGT
Found at i:19454769 original size:64 final size:64
Alignment explanation
Indices: 19454636--19454769 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
19454626 ATCGTTCTTT
* * ** ** *
19454636 ATTTTTTGACTTGTGGTGTTGTCCTAATCATTTTTATTTTTTGACTTATGGTGTTATTTTTTTG
1 ATTTTTTGACTTATGGTGTTGTCCTAATCATTTTTATTTTTTGACTTATGGTATTATCCTGGTC
* *
19454700 TTTTTTTGGACTTATGGTGTT-TCTCT-ATCATTTTTATTTTTTGACTTGTGGTATTATCCTGGT
1 ATTTTTT-GACTTATGGTGTTGTC-CTAATCATTTTTATTTTTTGACTTATGGTATTATCCTGGT
19454763 C
64 C
19454764 ATTTTT
1 ATTTTT
19454770 ATTTTTTGAC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
64 44 0.76
65 14 0.24
ACGTcount: A:0.13, C:0.10, G:0.16, T:0.60
Consensus pattern (64 bp):
ATTTTTTGACTTATGGTGTTGTCCTAATCATTTTTATTTTTTGACTTATGGTATTATCCTGGTC
Found at i:19454916 original size:106 final size:105
Alignment explanation
Indices: 19454555--19454951 Score: 293
Period size: 106 Copynumber: 3.8 Consensus size: 105
19454545 TGTTATTTCA
* * * * * *
19454555 GTCATTTTTTATTTTTTGACTTGTAGTGTTGTCTCGGTCATTCTTATTTTTTT--ACTTATGATG
1 GTCA-TTTTTATTTTTTGACTTATGGTGTTGTCCCAGTCATT-TTTTTTTTTTGGACTTATGGTG
* * * * * * * *
19454618 TTGTCCCAATCGTTCTTTATTTTTTGACTTGTGGTGTTGTCCTA
64 TT-TCTCTACCATT-TTTATTTTTTGACATGTGGTATTATCCTG
* *
19454662 ATCATTTTTATTTTTTGACTTATGGTG-T-T---A-T-TTTTTTGTTTTTTTGGACTTATGGTGT
1 GTCATTTTTATTTTTTGACTTATGGTGTTGTCCCAGTCATTTTT-TTTTTTTGGACTTATGGTGT
* *
19454720 TTCTCTATCATTTTTATTTTTTGACTTGTGGTATTATCCTG
65 TTCTCTACCATTTTTATTTTTTGACATGTGGTATTATCCTG
* * ** *
19454761 GTCATTTTTATTTTTTGACTTATGGTGTTGTCCCGGTCGTTCTTTTTTTTTTTTACTTATGTTGT
1 GTCATTTTTATTTTTTGACTTATGGTGTTGTCCCAGTCATT-TTTTTTTTTTGGACTTATGGTGT
*
19454826 TGT-TCTAGCCATTTTTATTTTTTGACATGT-GT-TT-T-TTAG
65 T-TCTCTA-CCATTTTTATTTTTTGACATGTGGTATTATCCT-G
** * * *
19454865 GTCATTTTTTATTTTTTTGACTTATGGTGTTGTCTTAGTCATTTTTATTTTTT-AACTTACGGTG
1 GTCA-TTTTTA-TTTTTTGACTTATGGTGTTGTCCCAGTCATTTTTTTTTTTTGGACTTATGGTG
* *
19454929 TTGTCTCGATCATTCTTTATTTT
64 TT-TCTCTACCATT-TTTATTTT
19454952 CTAATTTGTG
Statistics
Matches: 240, Mismatches: 32, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
98 2 0.01
99 61 0.25
100 10 0.04
101 12 0.05
103 1 0.00
104 23 0.10
105 30 0.12
106 74 0.31
107 27 0.11
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.59
Consensus pattern (105 bp):
GTCATTTTTATTTTTTGACTTATGGTGTTGTCCCAGTCATTTTTTTTTTTTGGACTTATGGTGTT
TCTCTACCATTTTTATTTTTTGACATGTGGTATTATCCTG
Found at i:19456960 original size:15 final size:15
Alignment explanation
Indices: 19456942--19456972 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19456932 TGAGTTTGTA
19456942 TATTCTCTCTTTGCT
1 TATTCTCTCTTTGCT
19456957 TATTCTCTCTTTGCT
1 TATTCTCTCTTTGCT
19456972 T
1 T
19456973 TACTTTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.61
Consensus pattern (15 bp):
TATTCTCTCTTTGCT
Found at i:19457429 original size:21 final size:20
Alignment explanation
Indices: 19457399--19457441 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
19457389 TTTTTTATTG
19457399 TTTTGATTCTTATGATTGTT
1 TTTTGATTCTTATGATTGTT
*
19457419 TTTTGGATTCTTATGGTTGTT
1 TTTT-GATTCTTATGATTGTT
19457440 TT
1 TT
19457442 AATTTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.65
Consensus pattern (20 bp):
TTTTGATTCTTATGATTGTT
Found at i:19458355 original size:17 final size:19
Alignment explanation
Indices: 19458317--19458356 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19458307 CTGCCTTTAC
*
19458317 TAATTTGATGATATTTCGT
1 TAATTTGAAGATATTTCGT
19458336 TAATTTGAAGAT-TTTC-T
1 TAATTTGAAGATATTTCGT
19458353 TAAT
1 TAAT
19458357 ATTCCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (19 bp):
TAATTTGAAGATATTTCGT
Found at i:19461820 original size:16 final size:16
Alignment explanation
Indices: 19461790--19461828 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
19461780 GTGGAGTATG
19461790 AAAAAAGAATGGGAAAA
1 AAAAAAGAA-GGGAAAA
19461807 TAAAAAAGAA-GGAAAA
1 -AAAAAAGAAGGGAAAA
19461823 AAAAAA
1 AAAAAA
19461829 AAGAAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
18 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAGGGAAAA
Found at i:19461823 original size:17 final size:18
Alignment explanation
Indices: 19461790--19461833 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
19461780 GTGGAGTATG
* *
19461790 AAAAAAGAATGGGAAAAT
1 AAAAAAGAATGGAAAAAA
19461808 AAAAAAGAA-GGAAAAAA
1 AAAAAAGAATGGAAAAAA
19461825 AAAAAAGAA
1 AAAAAAGAA
19461834 AAAGCAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAAAGAATGGAAAAAA
Found at i:19461824 original size:13 final size:13
Alignment explanation
Indices: 19461802--19461870 Score: 59
Period size: 14 Copynumber: 5.0 Consensus size: 13
19461792 AAAAGAATGG
19461802 GAAAATAAAAAAGAA
1 GAAAA-AAAAAA-AA
19461817 GGAAAAAAAAAAAA
1 -GAAAAAAAAAAAA
** *
19461831 G-AAAAAGCAAAG
1 GAAAAAAAAAAAA
19461843 GCAAAAAAAAAAAA
1 G-AAAAAAAAAAAA
19461857 GAAAAAAAAGAAAA
1 GAAAAAAAA-AAAA
19461871 ATGGGCATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 9 0.20
13 9 0.20
14 15 0.34
15 6 0.14
16 5 0.11
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.01
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:19466279 original size:123 final size:124
Alignment explanation
Indices: 19466049--19466304 Score: 406
Period size: 123 Copynumber: 2.1 Consensus size: 124
19466039 GTAAGAAGTA
* * **
19466049 AGTAAAATAGTAGCTAAGTGAACAAAACCAAAATAATTAACTAACAACTAGCTTTAACTATTTTA
1 AGTAAAATAGTAGCTAAGTGAACAAAACCAAAATAACTAACTAACAACTAACTTTAACTATCCTA
19466114 ACTAATTTTAACTTCCAACTAAGAAAATTCTAAAGGAATAAACCAAACAAGATGTAAAT
66 ACTAATTTTAACTTCCAACTAAGAAAATTCTAAAGGAATAAACCAAACAAGATGTAAAT
* * * * *
19466173 AGTAAAATAGTAGCTAGGTGAATATAACCAAAATAACTAACTAATAACTAACTTTGACTA-CCTA
1 AGTAAAATAGTAGCTAAGTGAACAAAACCAAAATAACTAACTAACAACTAACTTTAACTATCCTA
*
19466237 ACTAATTTTAACTTCCAACTAAGAAAATTCTATAGGAATAAACCAAACAAGATGTAAAT
66 ACTAATTTTAACTTCCAACTAAGAAAATTCTAAAGGAATAAACCAAACAAGATGTAAAT
*
19466296 TGTAAAATA
1 AGTAAAATA
19466305 TAGTAGCCTA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
123 68 0.56
124 53 0.44
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.27
Consensus pattern (124 bp):
AGTAAAATAGTAGCTAAGTGAACAAAACCAAAATAACTAACTAACAACTAACTTTAACTATCCTA
ACTAATTTTAACTTCCAACTAAGAAAATTCTAAAGGAATAAACCAAACAAGATGTAAAT
Found at i:19471791 original size:19 final size:20
Alignment explanation
Indices: 19471752--19471792 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
19471742 ATTCTTCTTA
*
19471752 TTATTAGTACATTTTAATTT
1 TTATTAGTACATATTAATTT
*
19471772 TTATTAG-ACATATTAGTTT
1 TTATTAGTACATATTAATTT
19471791 TT
1 TT
19471793 TTTACCTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
TTATTAGTACATATTAATTT
Found at i:19472154 original size:64 final size:65
Alignment explanation
Indices: 19472086--19472209 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 65
19472076 ACTTGAATGT
* * * * *
19472086 GATTATTAAAGGCGTTTTTGGCCAAAAACGCCTTCAATAATCCATTC-AAAATTTTTTTGAGGGG
1 GATTATTAAAGGCATTTTTGACCAAAAACACCTTCAATAATCCATACAAAAACTTTTTTGAGGGG
* * *
19472150 GATTATTGAAGGTATTTTTGACCAAAAACACCTTTAATAATCCATACAAAAACTTTTTTG
1 GATTATTAAAGGCATTTTTGACCAAAAACACCTTCAATAATCCATACAAAAACTTTTTTG
19472210 TATGAATTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
64 40 0.78
65 11 0.22
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (65 bp):
GATTATTAAAGGCATTTTTGACCAAAAACACCTTCAATAATCCATACAAAAACTTTTTTGAGGGG
Found at i:19472525 original size:63 final size:62
Alignment explanation
Indices: 19472446--19472827 Score: 261
Period size: 63 Copynumber: 6.0 Consensus size: 62
19472436 TTATAAAAAA
* *
19472446 TTGAATGGGATTATTGAAGGCATTTTTGGCCAAAAATGTC-TTCAATAATCCATACAAAATATT
1 TTGAAGGGGATTATTGAAGGCATTTTTGGCCAAAAATG-CATTCAATAATCCAT-CAAAAAATT
* * * * * * * *
19472509 TTGGAGGGGATTATTGAAAGTATTTTT-ACCTAAAAACGCCTTTAATAATCCAAACAAAAAATT
1 TTGAAGGGGATTATTGAAGGCATTTTTGGCC-AAAAATGCATTCAATAATCC-ATCAAAAAATT
* * * * ** *
19472572 TTGTTAAGGGGATTAATAAAGACATTTTTAGTAAAAAATGCATTCAATAATCCTTTCAACAAAA-
1 TTG--AAGGGGATTATTGAAGGCATTTTTGGCCAAAAATGCATTCAATAATCC-ATCAA-AAAAT
19472636 T
62 T
** * * * * *
19472637 TTGAAAAGGATTATTGAAGGCATTTTTGGTCAAAAA-CCCTTCTATAATCCCTCATAAAAATT
1 TTGAAGGGGATTATTGAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCATCA-AAAAATT
* * ** ** ** * *
19472699 TATTAAAGAAATTATTGAAGGTGTTTTTAACCAAAAATACATTCAATAATCCCTCATAAAAATTT
1 T-TGAAGGGGATTATTGAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCATCA-AAAAA-TT
* ** *
19472764 ATTG-AGGGGATTATTAAATACATTTTTGGCAAAAAATGCATTCAATAATCCATCATAAAAATT
1 -TTGAAGGGGATTATTGAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCATCA-AAAAATT
19472827 T
1 T
19472828 ATTAATGGGA
Statistics
Matches: 245, Mismatches: 61, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
61 7 0.03
62 18 0.07
63 104 0.42
64 66 0.27
65 45 0.18
66 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (62 bp):
TTGAAGGGGATTATTGAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCATCAAAAAATT
Found at i:19472765 original size:64 final size:64
Alignment explanation
Indices: 19472680--19472832 Score: 180
Period size: 64 Copynumber: 2.4 Consensus size: 64
19472670 AAACCCTTCT
* *** *
19472680 ATAATCCCTCATAAAAATTTATTAAAGAAATTATTGAAGGTGTTTTTAACCAAAAATACATTCA
1 ATAATCCCTCATAAAAATTTATTAAAGAAATTATTAAAGACATTTTTAACAAAAAATACATTCA
* * ** * ** *
19472744 ATAATCCCTCATAAAAATTTATTGAGGGGATTATTAAATACATTTTTGGCAAAAAATGCATTCA
1 ATAATCCCTCATAAAAATTTATTAAAGAAATTATTAAAGACATTTTTAACAAAAAATACATTCA
*
19472808 ATAATCCATCATAAAAATTTATTAA
1 ATAATCCCTCATAAAAATTTATTAA
19472833 TGGGAAACGC
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (64 bp):
ATAATCCCTCATAAAAATTTATTAAAGAAATTATTAAAGACATTTTTAACAAAAAATACATTCA
Found at i:19473056 original size:65 final size:63
Alignment explanation
Indices: 19472952--19473234 Score: 257
Period size: 65 Copynumber: 4.4 Consensus size: 63
19472942 TTTTCAGGAG
* * *
19472952 ATTATTGAAGGCGTTTTTTTGCTAAAAATGTCTTCAATAATCCCTCATAAAAATTTATTGAGAGA
1 ATTATTGAAGGC-ATTTTTGGCCAAAAATG-CTTCAATAATCCCTCATAAAAATTTATTGAGAGA
* * * * * * * *
19473017 ATTATTGAAAGCATTTTTGTGCCAAAAATGCATTTAATAATCCTTTATAAAAATTTACTAAGGGG
1 ATTATTGAAGGCATTTTTG-GCCAAAAATGC-TTCAATAATCCCTCATAAAAATTTATTGAGAGA
* ** * * * *
19473082 ATTATTGAAGGTATTTTTGGCC-AAAATCGCCTTCAATAATCCCT--TCCAAATTTTTTTAGGGG
1 ATTATTGAAGGCATTTTTGGCCAAAAAT-G-CTTCAATAATCCCTCATAAAAATTTATTGAGAGA
* * * * *
19473144 ATTATTGAAAGTATTTTTGACCAAAAATGTTTCAATAATCTCTCATAAAAATTTATTGAGAGA
1 ATTATTGAAGGCATTTTTGGCCAAAAATGCTTCAATAATCCCTCATAAAAATTTATTGAGAGA
* * *
19473207 ATTATTCAAGGCATTTTTGACCAGAAAT
1 ATTATTGAAGGCATTTTTGGCCAAAAAT
19473235 ATCTTGAATA
Statistics
Matches: 177, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
61 12 0.07
62 34 0.19
63 46 0.26
64 21 0.12
65 64 0.36
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (63 bp):
ATTATTGAAGGCATTTTTGGCCAAAAATGCTTCAATAATCCCTCATAAAAATTTATTGAGAGA
Found at i:19473223 original size:63 final size:63
Alignment explanation
Indices: 19472967--19473234 Score: 233
Period size: 63 Copynumber: 4.2 Consensus size: 63
19472957 TGAAGGCGTT
*
19472967 TTTTTG-CTAAAAATG-TCTTCAATAATCCCTCATAAAAATTTATTGAGAGAATTATTGAAAGCA
1 TTTTTGACCAAAAATGCT-TTCAATAAT-CCTCATAAAAATTTATTGAGAGAATTATTGAAAGCA
* * * * * * * *
19473030 TTTTTGTGCCAAAAATGCATTT-AATAATCCTTTATAAAAATTTACTAAGGGGATTATTGAAGGT
1 TTTTTG-ACCAAAAATGC-TTTCAATAATCC-TCATAAAAATTTATTGAGAGAATTATTGAAAGC
19473094 A
63 A
* * * ** * * * * *
19473095 TTTTTGGCC-AAAATCGCCTTCAATAATCC-CTTCCAAATTTTTTTAGGGGATTATTGAAAGTA
1 TTTTTGACCAAAAAT-GCTTTCAATAATCCTCATAAAAATTTATTGAGAGAATTATTGAAAGCA
* *
19473157 TTTTTGACCAAAAATG-TTTCAATAATCTCTCATAAAAATTTATTGAGAGAATTATTCAAGGCA
1 TTTTTGACCAAAAATGCTTTCAATAATC-CTCATAAAAATTTATTGAGAGAATTATTGAAAGCA
*
19473220 TTTTTGACCAGAAAT
1 TTTTTGACCAAAAAT
19473235 ATCTTGAATA
Statistics
Matches: 165, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
61 10 0.06
62 35 0.21
63 55 0.33
64 15 0.09
65 47 0.28
66 2 0.01
67 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (63 bp):
TTTTTGACCAAAAATGCTTTCAATAATCCTCATAAAAATTTATTGAGAGAATTATTGAAAGCA
Found at i:19473245 original size:125 final size:125
Alignment explanation
Indices: 19473017--19473249 Score: 276
Period size: 125 Copynumber: 1.9 Consensus size: 125
19473007 TATTGAGAGA
* * * *
19473017 ATTATTGAAAGCATTTTTGTGCCAAAAATGCATTTAATAATCCTTTATAAAAATTTACTAAGGGG
1 ATTATTGAAAGCATTTTTGTACCAAAAATG-ATTTAATAATCCTTCATAAAAATTTACTAAGAGA
* * * *
19473082 ATTATTGAAGGTATTTTTGGCCAAAATCGCCTTCAATAATCCCTTCCAAATTTTTTTAGGGG
65 ATTATTCAAGGCATTTTTGACCAAAATCACCTTCAATAA-CCCTTCCAAATTTTTTTAGGGG
* * *
19473144 ATTATTGAAAGTATTTTTG-ACCAAAAATG-TTTCAATAAT-CTCTCATAAAAATTTATTGAGAG
1 ATTATTGAAAGCATTTTTGTACCAAAAATGATTT-AATAATCCT-TCATAAAAATTTACTAAGAG
* *
19473206 AATTATTCAAGGCATTTTTGACCAGAAAT-ATCTTGAATAACCCT
64 AATTATTCAAGGCATTTTTGACCA-AAATCACCTTCAATAACCCT
19473250 ATTGAATTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
124 9 0.10
125 50 0.56
126 13 0.14
127 18 0.20
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (125 bp):
ATTATTGAAAGCATTTTTGTACCAAAAATGATTTAATAATCCTTCATAAAAATTTACTAAGAGAA
TTATTCAAGGCATTTTTGACCAAAATCACCTTCAATAACCCTTCCAAATTTTTTTAGGGG
Found at i:19473410 original size:20 final size:20
Alignment explanation
Indices: 19473385--19473425 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19473375 ACATACTTAA
19473385 TCTCTACCTTTCACCAACTC
1 TCTCTACCTTTCACCAACTC
19473405 TCTCTACCTTTCACCAACTC
1 TCTCTACCTTTCACCAACTC
19473425 T
1 T
19473426 ACAAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.37
Consensus pattern (20 bp):
TCTCTACCTTTCACCAACTC
Found at i:19475927 original size:19 final size:18
Alignment explanation
Indices: 19475898--19475937 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
19475888 TTGCATTGAT
19475898 AAAAGTTAAAAAAAAAGA
1 AAAAGTTAAAAAAAAAGA
* *
19475916 AAAAGATTAAAATAAAATA
1 AAAAG-TTAAAAAAAAAGA
19475935 AAA
1 AAA
19475938 TATTACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAGTTAAAAAAAAAGA
Found at i:19476308 original size:3 final size:3
Alignment explanation
Indices: 19476300--19476331 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19476290 TTATTTATTC
19476300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19476332 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:19476336 original size:3 final size:3
Alignment explanation
Indices: 19476330--19476392 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
19476320 AATAATAATA
* *
19476330 ATT ATT ATT ATT ATT ATT -TT AATT ATT ATT ATT ATT ATT GTT GTT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * *
19476375 GTT GTT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT
19476393 GTAATTATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19476354 original size:21 final size:21
Alignment explanation
Indices: 19476328--19476368 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
19476318 ATAATAATAA
19476328 TAATTATTATTATTATTATTT
1 TAATTATTATTATTATTATTT
19476349 TAATTATTATTATTATTATT
1 TAATTATTATTATTATTATT
19476369 GTTGTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAATTATTATTATTATTATTT
Found at i:19476400 original size:18 final size:18
Alignment explanation
Indices: 19476360--19476401 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19476350 AATTATTATT
* *
19476360 ATTATTATTGTTGTTGTT
1 ATTATTATTGTTATTGTA
*
19476378 GTTATTATTGTTATTGTA
1 ATTATTATTGTTATTGTA
19476396 ATTATT
1 ATTATT
19476402 GCTTTCTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (18 bp):
ATTATTATTGTTATTGTA
Found at i:19478397 original size:17 final size:18
Alignment explanation
Indices: 19478364--19478398 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19478354 GGCTTTTTTA
19478364 AATTTTTATTTACTTTCT
1 AATTTTTATTTACTTTCT
*
19478382 AATTTTTTTTTA-TTTCT
1 AATTTTTATTTACTTTCT
19478399 TTAATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTTTTATTTACTTTCT
Found at i:19479580 original size:27 final size:27
Alignment explanation
Indices: 19479541--19479597 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
19479531 AAGGGTTGTC
* * *
19479541 AAATATCAGATAGGAAGATAT-ATTAAA
1 AAATATCAAATAGCAA-ATATAACTAAA
*
19479568 AAATATGAAATAGCAAATATAACTAAA
1 AAATATCAAATAGCAAATATAACTAAA
19479595 AAA
1 AAA
19479598 GTATACAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (27 bp):
AAATATCAAATAGCAAATATAACTAAA
Found at i:19492534 original size:16 final size:16
Alignment explanation
Indices: 19492513--19492555 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
19492503 TTTCAATAAA
19492513 AAAAATCTATTTGTAG
1 AAAAATCTATTTGTAG
19492529 AAAAATCTATTTGTAG
1 AAAAATCTATTTGTAG
19492545 AAAAATCTATT
1 AAAAATCTATT
19492556 GCCTTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (16 bp):
AAAAATCTATTTGTAG
Found at i:19496075 original size:19 final size:18
Alignment explanation
Indices: 19496049--19496087 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
19496039 AGGCAAAAAC
* *
19496049 AAAAAAAAAGTAAAGAGA
1 AAAAAAAAAGCAAACAGA
19496067 AAAAGAAAAAGCAAACAGA
1 AAAA-AAAAAGCAAACAGA
19496086 AA
1 AA
19496088 GAGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGCAAACAGA
Found at i:19500455 original size:22 final size:22
Alignment explanation
Indices: 19500402--19500471 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
19500392 CAAATGTTTC
*
19500402 AAAAAAAAAAAAAGGAAAAGCA
1 AAAAAAAAAAAAAGGAAAAGAA
***
19500424 AAATGGAAAAAAAGGAAAA-AA
1 AAAAAAAAAAAAAGGAAAAGAA
*
19500445 AGAAAAAAAAAAGCAAAGAAAAGAA
1 A-AAAAAAAAAA--AAGGAAAAGAA
19500470 AA
1 AA
19500472 CAGGGACATC
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.06
22 23 0.64
24 8 0.22
25 3 0.08
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAAAAGGAAAAGAA
Found at i:19500874 original size:23 final size:23
Alignment explanation
Indices: 19500844--19500891 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
19500834 TTGGTTTATA
19500844 ATAATGACTTAGATTATAGATTT
1 ATAATGACTTAGATTATAGATTT
19500867 ATAATGACTTAGATTATAGATTT
1 ATAATGACTTAGATTATAGATTT
19500890 AT
1 AT
19500892 GATCTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (23 bp):
ATAATGACTTAGATTATAGATTT
Found at i:19501719 original size:25 final size:25
Alignment explanation
Indices: 19501664--19501720 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
19501654 ATTTTTATTG
*
19501664 ATAATTTATTTTTGTAAATATTATT
1 ATAATTTATTTTTGTAAATATTATC
*
19501689 AAAATTTATTTTT-TAAAGTAATT-TC
1 ATAATTTATTTTTGTAAA-T-ATTATC
19501714 ATAATTT
1 ATAATTT
19501721 TAATTCATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 20 0.74
26 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
ATAATTTATTTTTGTAAATATTATC
Found at i:19503215 original size:17 final size:18
Alignment explanation
Indices: 19503185--19503220 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
19503175 GAGATCTAAC
19503185 AAAATAATTGAAAACTTG
1 AAAATAATTGAAAACTTG
19503203 AAAATAA-TGAAAACTTG
1 AAAATAATTGAAAACTTG
19503220 A
1 A
19503221 GATTATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (18 bp):
AAAATAATTGAAAACTTG
Found at i:19503230 original size:17 final size:17
Alignment explanation
Indices: 19503185--19503231 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
19503175 GAGATCTAAC
19503185 AAAATAATTGAAAACTTG
1 AAAAT-ATTGAAAACTTG
*
19503203 AAAATAATGAAAACTTG
1 AAAATATTGAAAACTTG
* *
19503220 AGATTATTGAAA
1 AAAATATTGAAA
19503232 TTAAAAGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (17 bp):
AAAATATTGAAAACTTG
Found at i:19504943 original size:75 final size:75
Alignment explanation
Indices: 19504802--19504944 Score: 187
Period size: 75 Copynumber: 1.9 Consensus size: 75
19504792 ATATGCTAAG
* * * * **
19504802 GAAAACGAGGTATTGGGCAGATTAAGTTATGAGACACTACCTAGTTTTTGTTACGTTTGTGAAAG
1 GAAAACGAGGTATGGGGCAGATTAAGCTACGAGACACTACCCAGTTTTTGTTACGTTTACGAAAG
19504867 GATAGGGCAC
66 GATAGGGCAC
* * * * *
19504877 GAAAAGGAGGTATGGGGCAGATTAAGCTACGAGAGATTACCCATTTTTTGTTACGTTTACGGAAG
1 GAAAACGAGGTATGGGGCAGATTAAGCTACGAGACACTACCCAGTTTTTGTTACGTTTACGAAAG
19504942 GAT
66 GAT
19504945 GAATGCAGTC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (75 bp):
GAAAACGAGGTATGGGGCAGATTAAGCTACGAGACACTACCCAGTTTTTGTTACGTTTACGAAAG
GATAGGGCAC
Found at i:19505644 original size:14 final size:14
Alignment explanation
Indices: 19505625--19505653 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19505615 TCGTGAGCAC
19505625 AATAACTCACAAGG
1 AATAACTCACAAGG
19505639 AATAACTCACAAGG
1 AATAACTCACAAGG
19505653 A
1 A
19505654 TATGTACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAACTCACAAGG
Found at i:19509144 original size:3 final size:3
Alignment explanation
Indices: 19509138--19509167 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
19509128 ATAGTTTTGT
*
19509138 TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19509168 ATCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19509659 original size:20 final size:20
Alignment explanation
Indices: 19509634--19509681 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
19509624 AGAAATTTTT
*
19509634 AATTTTTTGATAATTATTTG
1 AATTTTTTGATAACTATTTG
* * *
19509654 AATTTTTCGATGACTGTTTG
1 AATTTTTTGATAACTATTTG
19509674 AATTTTTT
1 AATTTTTT
19509682 TATGATCGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (20 bp):
AATTTTTTGATAACTATTTG
Found at i:19509992 original size:13 final size:13
Alignment explanation
Indices: 19509976--19510059 Score: 53
Period size: 13 Copynumber: 6.4 Consensus size: 13
19509966 AGGTTTTTTC
19509976 TTTTTTTTTTA-T
1 TTTTTTTTTTATT
* * *
19509988 TTTTTGTTTCAAT
1 TTTTTTTTTTATT
*
19510001 TTTTATTTTTATT
1 TTTTTTTTTTATT
* *
19510014 TTTATTTGTTATT
1 TTTTTTTTTTATT
* *
19510027 TTTTATGATGTTATT
1 TTTT-T-TTTTTATT
*
19510042 ATTTTTTTTTATT
1 TTTTTTTTTTATT
*
19510055 ATTTT
1 TTTTT
19510060 ATATTATTAC
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
12 9 0.16
13 34 0.62
14 2 0.04
15 10 0.18
ACGTcount: A:0.15, C:0.01, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:19510009 original size:5 final size:6
Alignment explanation
Indices: 19509970--19510029 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
19509960 TTTCGTAGGT
* *
19509970 TTTTTC TTTTT- TTTTTA TTTTT- TGTTTCAA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTT-TA TTTTTA TTTTTA TTTTTA
19510018 TTTGTTA TTTTT
1 TTT-TTA TTTTT
19510030 TATGATGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
5 6 0.13
6 31 0.66
7 9 0.19
8 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:19510025 original size:19 final size:17
Alignment explanation
Indices: 19509969--19510030 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 17
19509959 CTTTCGTAGG
*
19509969 TTTTTTCTTTTTTTTTTA
1 TTTTTT-TTTTATTTTTA
*
19509987 TTTTTTGTTTCAATTTTTA
1 TTTTTT-TTT-TATTTTTA
19510006 TTTTTATTTTTATTTGTTA
1 TTTTT-TTTTTATTT-TTA
19510025 TTTTTT
1 TTTTTT
19510031 ATGATGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 14 0.38
19 22 0.59
20 1 0.03
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTTTA
Found at i:19510061 original size:18 final size:17
Alignment explanation
Indices: 19509969--19510061 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 17
19509959 CTTTCGTAGG
*
19509969 TTTTTTCTTTTTTTTTTA
1 TTTTTT-TTTATTTTTTA
*
19509987 TTTTTTGTTTCAATTTTTA
1 TTTTTT-TTT-ATTTTTTA
*
19510006 TTTTTATTTTTATTTGTTA
1 -TTTT-TTTTTATTTTTTA
* * *
19510025 TTTTTTATGATGTTATTA
1 TTTTTTTTTAT-TTTTTA
19510043 TTTTTTTTTATTATTTTA
1 TTTTTTTTTATT-TTTTA
19510061 T
1 T
19510062 ATTATTACTA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
17 6 0.10
18 32 0.54
19 12 0.20
20 7 0.12
21 2 0.03
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTATTTTTTA
Found at i:19510170 original size:16 final size:14
Alignment explanation
Indices: 19510138--19510164 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19510128 AATAAGGACC
19510138 TAAAAAAATATAAA
1 TAAAAAAATATAAA
19510152 TAAAAAAATATAA
1 TAAAAAAATATAA
19510165 TAATAATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAAAATATAAA
Found at i:19522622 original size:33 final size:33
Alignment explanation
Indices: 19522559--19522630 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
19522549 CAGATCTTTA
* * * *
19522559 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCC
1 ATTTAAAGTTCGTTGCCTCTAGTCAAATGAGCC
*
19522592 ATTTAAAGTTCGTTGCCTCTAGTCAGATGAGCC
1 ATTTAAAGTTCGTTGCCTCTAGTCAAATGAGCC
*
19522625 TTTTAA
1 ATTTAA
19522631 CATTTAAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (33 bp):
ATTTAAAGTTCGTTGCCTCTAGTCAAATGAGCC
Found at i:19522758 original size:79 final size:80
Alignment explanation
Indices: 19522591--19522781 Score: 276
Period size: 79 Copynumber: 2.4 Consensus size: 80
19522581 TTAAATGAGC
* * * ** * *
19522591 CATTTAAAGTTCGTTGCCTCTAGTCAGATGAGCCTTTTAACATTTAAAGTTTGTTGTCTTTGGTT
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCCTTTTAACATTTAAAGTTTGTTACCTCTGGTG
19522656 AAAGGAGCTTTTTAA
66 AAAGGAGCTTTTTAA
*
19522671 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCCTTTTGA-ATTTAAAGTTTGTTACCTCTGGTG
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCCTTTTAACATTTAAAGTTTGTTACCTCTGGTG
**
19522735 AGTGGAGCTTTTTAA
66 AAAGGAGCTTTTTAA
*
19522750 CATTTAAAGTTTCTTGCCTCTGGTCAGAGGAG
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAG
19522782 TTTTTTTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 64 0.64
80 36 0.36
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (80 bp):
CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCCTTTTAACATTTAAAGTTTGTTACCTCTGGTG
AAAGGAGCTTTTTAA
Found at i:19522796 original size:40 final size:40
Alignment explanation
Indices: 19522591--19522787 Score: 252
Period size: 40 Copynumber: 5.0 Consensus size: 40
19522581 TTAAATGAGC
* * * *
19522591 CATTTAAAGTTCGTTGCCTCTAGTCAGATGAGCCTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTTAA
* * * *
19522631 CATTTAAAGTTTGTTGTCTTTGGTTAAAGGAGCTTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTTAA
* *
19522671 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCCTTTTGA
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTTAA
* * *
19522711 -ATTTAAAGTTTGTTACCTCTGGTGAGTGGAGCTTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTTAA
* *
19522750 CATTTAAAGTTTCTTGCCTCTGGTCAGAGGAGTTTTTT
1 CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTT
19522788 TAATTTTAAG
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 34 0.26
40 98 0.74
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.42
Consensus pattern (40 bp):
CATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCTTTTTAA
Found at i:19522953 original size:33 final size:33
Alignment explanation
Indices: 19522882--19522946 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
19522872 CAGATCTTTA
*
19522882 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCC
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCC
19522915 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC
19522947 GTTTTAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (33 bp):
ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCC
Found at i:19523060 original size:38 final size:38
Alignment explanation
Indices: 19522881--19523157 Score: 307
Period size: 39 Copynumber: 7.3 Consensus size: 38
19522871 TCAGATCTTT
*
19522881 AATTTAAAGTTTGTTGCCTTTGGTTAAATGAGC-----
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
* * * *
19522914 CATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCGTTTTA
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC-TTTTG
**
19522953 ACATTTAAAGTTTGTTATCTTTGGTTAAAGGAGCTTTTAG
1 A-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTT-G
*
19522993 AATTCAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
* * * * *
19523031 GATTTAAAGTTTGTTGCTTTTTGTGAAAGGAGCCTTTTA
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAG-CTTTTG
19523070 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
* * *
19523108 AATTTAAAGTTTG-TGCATCTAG-TAAGAGGAGCTTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAA-AGGAGC-TTTTG
19523146 AATTTAAAGTTT
1 AATTTAAAGTTT
19523158 TATAGCTTCT
Statistics
Matches: 208, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
33 31 0.15
36 3 0.01
37 12 0.06
38 63 0.30
39 70 0.34
40 29 0.14
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.44
Consensus pattern (38 bp):
AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTG
Found at i:19523063 original size:77 final size:76
Alignment explanation
Indices: 19522915--19523157 Score: 303
Period size: 77 Copynumber: 3.1 Consensus size: 76
19522905 TAAATGAGCC
* * * * *
19522915 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCGTTTTAACATTTAAAGTTTGTT-ATCTTTGGTT
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC-TTTTGA-ATTTAAAGTTTGTTGCT-TTTAG-T
19522979 AAAGGAGCTTTTAGA
62 AAAGGAGCTTTTAGA
* * *
19522994 ATTCAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGGATTTAAAGTTTGTTGCTTTTTGTGAAA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCTTTTAGT-AAA
19523059 GGAGCCTTTTA-A
65 GGAG-CTTTTAGA
* *
19523071 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTG-TGCATCTAGTAAGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCTTTTAGTAA-A
*
19523135 GGAGCTTTTTGA
65 GGAGCTTTTAGA
19523147 ATTTAAAGTTT
1 ATTTAAAGTTT
19523158 TATAGCTTCT
Statistics
Matches: 146, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
75 7 0.05
76 25 0.17
77 74 0.51
78 11 0.08
79 29 0.20
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (76 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCTTTTAGTAAAG
GAGCTTTTAGA
Found at i:19523346 original size:3 final size:3
Alignment explanation
Indices: 19523340--19523392 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
19523330 GTTCTTTTTT
*
19523340 TTA TTA TTA -TA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19523387 TTA TTA
1 TTA TTA
19523393 ATCTTTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19523818 original size:11 final size:10
Alignment explanation
Indices: 19523792--19523820 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19523782 ATCACTAGAG
19523792 AATTTTTTAA
1 AATTTTTTAA
19523802 AATTTTTTAA
1 AATTTTTTAA
19523812 AATTTTTTA
1 AATTTTTTA
19523821 GGTTGTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:19524275 original size:12 final size:12
Alignment explanation
Indices: 19524244--19524276 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19524234 TTTATATTTA
19524244 TATTTTTTATGT
1 TATTTTTTATGT
19524256 TGA-TTTTTATGT
1 T-ATTTTTTATGT
19524268 TATTTTTTA
1 TATTTTTTA
19524277 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (12 bp):
TATTTTTTATGT
Found at i:19524297 original size:3 final size:3
Alignment explanation
Indices: 19524291--19524336 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
19524281 TTTTATGATG
19524291 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19524337 CTGGTAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19526386 original size:52 final size:52
Alignment explanation
Indices: 19526310--19526414 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
19526300 TGAATAAAAA
* * * *
19526310 GACTTGCAGAAGAATAATTTTAAGAGAAAAT-AGATTCTTAATAAGTAACTTT
1 GACTTACAGAAAAAGAATTCTAAGAGAAAATGA-ATTCTTAATAAGTAACTTT
* *
19526362 GACTTACAGAAAAAGAATTCTAAGAGAAAATGAATTTTTAATAAGTAAGTTT
1 GACTTACAGAAAAAGAATTCTAAGAGAAAATGAATTCTTAATAAGTAACTTT
19526414 G
1 G
19526415 TATGACTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (52 bp):
GACTTACAGAAAAAGAATTCTAAGAGAAAATGAATTCTTAATAAGTAACTTT
Found at i:19531415 original size:10 final size:10
Alignment explanation
Indices: 19531389--19531443 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
19531379 GTGATACCTA
19531389 AATTTTTTATT
1 AATTTTTTA-T
19531400 ATATTTTTTAT
1 A-ATTTTTTAT
19531411 AA---TTT-T
1 AATTTTTTAT
19531417 AA-TTTTTAT
1 AATTTTTTAT
19531426 AATTTTTTAT
1 AATTTTTTAT
19531436 AATTTTTT
1 AATTTTTT
19531444 TCTTATTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 3 0.08
9 3 0.08
10 16 0.41
11 3 0.08
12 8 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:19531416 original size:9 final size:9
Alignment explanation
Indices: 19531398--19531442 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
19531388 AAATTTTTTA
*
19531398 TTATATTTT
1 TTATAATTT
19531407 TTATAA--T
1 TTATAATTT
19531414 TT-TAATTT
1 TTATAATTT
19531422 TTATAATTTT
1 TTATAA-TTT
19531432 TTATAATTT
1 TTATAATTT
19531441 TT
1 TT
19531443 TTCTTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
6 3 0.10
7 3 0.10
8 3 0.10
9 13 0.42
10 9 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTATAATTT
Found at i:19531436 original size:25 final size:27
Alignment explanation
Indices: 19531392--19531441 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
19531382 ATACCTAAAT
19531392 TTTTTATTATATTTTTTATAATTTTAA
1 TTTTTATTATATTTTTTATAATTTTAA
19531419 TTTTTA-TA-ATTTTTTATAATTTT
1 TTTTTATTATATTTTTTATAATTTT
19531442 TTTCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.65
26 2 0.09
27 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTTATTATATTTTTTATAATTTTAA
Found at i:19536111 original size:19 final size:19
Alignment explanation
Indices: 19536069--19536111 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19536059 TGAAAAATTC
* *
19536069 TTTTTTTAAAGACAAATCA
1 TTTTTTTAAAAACAAAACA
19536088 TTTTTTTAAAAACAAAACTA
1 TTTTTTTAAAAACAAAAC-A
19536108 TTTT
1 TTTT
19536112 ATCTTGGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTTTTTAAAAACAAAACA
Found at i:19544619 original size:23 final size:23
Alignment explanation
Indices: 19544575--19544629 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
19544565 GGAAGTATAA
19544575 AAAGAAAAAAGAATGAAAGAAA-G
1 AAAGAAAAAAGAA-GAAAGAAATG
19544598 AAAGAAAAAAGGAA-AAATGAAATG
1 AAAGAAAAAA-GAAGAAA-GAAATG
*
19544622 AAATAAAA
1 AAAGAAAA
19544630 TGAATGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.11
23 14 0.50
24 11 0.39
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAGAAAAAAGAAGAAAGAAATG
Found at i:19546131 original size:34 final size:36
Alignment explanation
Indices: 19546086--19546167 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 36
19546076 AGATTCGTAA
* * *
19546086 AAATTTCAGATTAACAAGGATTTATA-TTT-GCAAG
1 AAATTTTAGATTAACAAGAATTTATAGTTTCACAAG
* *
19546120 AAATTTTAGATTAGCAAGAATTTTTAGTTTCACAAG
1 AAATTTTAGATTAACAAGAATTTATAGTTTCACAAG
*
19546156 AATTTTTAGATT
1 AAATTTTAGATT
19546168 TGCAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 22 0.55
35 3 0.08
36 15 0.38
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (36 bp):
AAATTTTAGATTAACAAGAATTTATAGTTTCACAAG
Found at i:19546181 original size:54 final size:54
Alignment explanation
Indices: 19546106--19546211 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
19546096 TTAACAAGGA
* * **
19546106 TTTATATTTGCAAGAAATTTTAGATTAGC-AAGAATTTTTAGTTTCACAAGAATT
1 TTTAGATTTGCAAGAAATTTTAGATTAGCTAA-AATTTTCAAATTCACAAGAATT
*
19546160 TTTAGATTTGCAA-AAATTTTTAGATTTGCTAAAATTTTCAAATTCACAAGAA
1 TTTAGATTTGCAAGAAA-TTTTAGATTAGCTAAAATTTTCAAATTCACAAGAA
19546212 CTTTCATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
53 3 0.07
54 40 0.89
55 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (54 bp):
TTTAGATTTGCAAGAAATTTTAGATTAGCTAAAATTTTCAAATTCACAAGAATT
Found at i:19546186 original size:18 final size:18
Alignment explanation
Indices: 19546106--19546197 Score: 100
Period size: 18 Copynumber: 5.1 Consensus size: 18
19546096 TTAACAAGGA
*
19546106 TTTATATTTGCAAGAAA-T
1 TTTAGATTTGCAA-AAATT
* *
19546124 TTTAGATTAGCAAGAATT
1 TTTAGATTTGCAAAAATT
19546142 TTTAG-TTT-CACAAGAATT
1 TTTAGATTTGCA-AA-AATT
19546160 TTTAGATTTGCAAAAATT
1 TTTAGATTTGCAAAAATT
*
19546178 TTTAGATTTGCTAAAATT
1 TTTAGATTTGCAAAAATT
19546196 TT
1 TT
19546198 CAAATTCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
16 2 0.03
17 5 0.08
18 49 0.78
19 5 0.08
20 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAGATTTGCAAAAATT
Found at i:19546274 original size:17 final size:17
Alignment explanation
Indices: 19546252--19546334 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
19546242 AGAATTCAAA
**
19546252 TTCGTAAGATTTTTAGT
1 TTCGTAAGATTTTTAAC
*
19546269 TTCGTAAGAATTTTAAC
1 TTCGTAAGATTTTTAAC
* *
19546286 TTCGTAAGAATTTTCAAT
1 TTCGTAAG-ATTTTTAAC
** *
19546304 TTCACAAGATTTTAAAC
1 TTCGTAAGATTTTTAAC
*
19546321 ATTCGTAAGGTTTT
1 -TTCGTAAGATTTT
19546335 CAAATTTGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
17 29 0.57
18 22 0.43
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
TTCGTAAGATTTTTAAC
Found at i:19546292 original size:34 final size:35
Alignment explanation
Indices: 19546251--19546337 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
19546241 AAGAATTCAA
* * **
19546251 ATTCGTAAGATTTTTAGTTTCGTAAGAATTTT-AAC
1 ATTCGTAAGATTTTCAATTTCACAAG-ATTTTAAAC
19546286 -TTCGTAAGAATTTTCAATTTCACAAGATTTTAAAC
1 ATTCGTAAG-ATTTTCAATTTCACAAGATTTTAAAC
*
19546321 ATTCGTAAGGTTTTCAA
1 ATTCGTAAGATTTTCAA
19546338 ATTTGTAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 13 0.30
35 23 0.52
36 8 0.18
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (35 bp):
ATTCGTAAGATTTTCAATTTCACAAGATTTTAAAC
Found at i:19546916 original size:21 final size:21
Alignment explanation
Indices: 19546847--19546916 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
19546837 TTTCACATCC
19546847 AAAATTTCAAAGATTCTT-ATTT
1 AAAATTT-AAAGATT-TTCATTT
* * * **
19546869 AAAAACTTCAGAGATTTACATCC
1 -AAAA-TTTAAAGATTTTCATTT
19546892 AAAATTTAAAGATTTTCATTT
1 AAAATTTAAAGATTTTCATTT
19546913 AAAA
1 AAAA
19546917 CTCAAAAACT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
21 16 0.46
22 5 0.14
23 12 0.34
24 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTTAAAGATTTTCATTT
Found at i:19548076 original size:15 final size:15
Alignment explanation
Indices: 19548052--19548084 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19548042 AGCTCCATTC
*
19548052 TTTCTTTTTTTTTTT
1 TTTCTCTTTTTTTTT
19548067 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
19548082 TTT
1 TTT
19548085 GAATTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTCTCTTTTTTTTT
Found at i:19549862 original size:16 final size:17
Alignment explanation
Indices: 19549841--19549873 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19549831 TCTTTAAAAA
19549841 TAAAAATAAT-ATTATT
1 TAAAAATAATAATTATT
*
19549857 TAAAAATGATAATTATT
1 TAAAAATAATAATTATT
19549874 GTAGAATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAAAATAATAATTATT
Found at i:19549994 original size:19 final size:19
Alignment explanation
Indices: 19549958--19549997 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19549948 TTATTTACAT
*
19549958 ATTTTTAAATTAATATTAA
1 ATTTTTAAATAAATATTAA
19549977 ATTTTTAAA-AAATAATTAA
1 ATTTTTAAATAAAT-ATTAA
19549996 AT
1 AT
19549998 AATTATATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTAAATAAATATTAA
Found at i:19552774 original size:21 final size:22
Alignment explanation
Indices: 19552727--19552774 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
19552717 CAGTTTTTTT
* *
19552727 TTTTTTTTGCATTTTCTATTGAT
1 TTTTTTTTGCA-TTTCTACTGAC
*
19552750 TTTTTTTTGC-TTTCTACTGCC
1 TTTTTTTTGCATTTCTACTGAC
19552771 TTTT
1 TTTT
19552775 CCTGGTGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTTTTTTGCATTTCTACTGAC
Found at i:19553366 original size:20 final size:19
Alignment explanation
Indices: 19553341--19553451 Score: 68
Period size: 20 Copynumber: 5.7 Consensus size: 19
19553331 GGCCAAGCCC
19553341 ATTTCATTTTTTATTTTTTT
1 ATTTCA-TTTTTATTTTTTT
19553361 ATTTCATTTTTATTTTTTATT
1 ATTTCATTTTTA-TTTTT-TT
** *
19553382 ATTT-ATTACTATTTTATT
1 ATTTCATTTTTATTTTTTT
* * *
19553400 ATTAT-ATTTACTATTATATT
1 ATT-TCATTT-TTATTTTTTT
19553420 -TTT-ATTTTTATTTTTTAT
1 ATTTCATTTTTATTTTTT-T
*
19553438 ATTTTATATTTTAT
1 ATTTCAT-TTTTAT
19553452 AATTAATTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.08
18 11 0.15
19 19 0.25
20 27 0.36
21 12 0.16
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTCATTTTTATTTTTTT
Found at i:19553381 original size:26 final size:27
Alignment explanation
Indices: 19553341--19553451 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 27
19553331 GGCCAAGCCC
*
19553341 ATTTCATTTTTTATTTTTTTATTTCAT
1 ATTTTATTTTTTATTTTTTTATTTCAT
* *
19553368 -TTTTATTTTTTA-TTATTTATTAC-T
1 ATTTTATTTTTTATTTTTTTATTTCAT
* **
19553392 ATTTTA-TTATTATATTTACTA-TT-AT
1 ATTTTATTTTTTAT-TTTTTTATTTCAT
*
19553417 ATTTT-TATTTTTATTTTTTATATTTTAT
1 ATTTTAT-TTTTTATTTTTT-TATTTCAT
19553445 ATTTTAT
1 ATTTTAT
19553452 AATTAATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
24 6 0.10
25 24 0.38
26 23 0.37
27 2 0.03
28 7 0.11
29 1 0.02
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTATTTTTTATTTTTTTATTTCAT
Found at i:19553408 original size:33 final size:33
Alignment explanation
Indices: 19553351--19553456 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
19553341 ATTTCATTTT
* *
19553351 TTATT-TTTTTATTTCATTTTTATTTTTTATTAT-
1 TTATTATTTTTATTT-A-TTATATTTTATATTATA
19553384 TTATTACTATTTTA-TTATTATA-TTTACTATTATA
1 TTATTA-T-TTTTATTTATTATATTTTA-TATTATA
* * *
19553418 TTTTTATTTTTATTTTTTATATTTTATATTTTA
1 TTATTATTTTTATTTATTATATTTTATATTATA
*
19553451 TAATTA
1 TTATTA
19553457 ATTAATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
32 8 0.14
33 33 0.56
34 10 0.17
35 3 0.05
36 5 0.08
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (33 bp):
TTATTATTTTTATTTATTATATTTTATATTATA
Found at i:19553414 original size:12 final size:12
Alignment explanation
Indices: 19553381--19553425 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
19553371 TATTTTTTAT
*
19553381 TATTTATTACTA
1 TATTTATTATTA
19553393 T-TTTATTATTA
1 TATTTATTATTA
*
19553404 TATTTACTATTA
1 TATTTATTATTA
19553416 TATTT-TTATT
1 TATTTATTATT
19553426 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:19553452 original size:7 final size:7
Alignment explanation
Indices: 19553349--19553452 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
19553339 CCATTTCATT
19553349 TTTTAT-
1 TTTTATA
*
19553355 TTTTTTA
1 TTTTATA
*
19553362 TTTCAT-
1 TTTTATA
*
19553368 TTTTATT
1 TTTTATA
19553375 TTTTATTA
1 TTTTA-TA
19553383 TTTATTACTA
1 -TT-TTA-TA
19553393 TTTTAT-
1 TTTTATA
*
19553399 TATTATA
1 TTTTATA
19553406 -TTTACTA
1 TTTTA-TA
*
19553413 TTATAT-
1 TTTTATA
19553419 TTTTAT-
1 TTTTATA
*
19553425 TTTTATT
1 TTTTATA
19553432 TTTTATA
1 TTTTATA
19553439 TTTTATA
1 TTTTATA
19553446 TTTTATA
1 TTTTATA
19553453 ATTAATTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
6 29 0.37
7 33 0.42
8 7 0.09
9 4 0.05
10 5 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATA
Found at i:19553830 original size:33 final size:31
Alignment explanation
Indices: 19553783--19553856 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
19553773 TTTTTCCTCA
* * *
19553783 TTTCCTTTTGATCAACTCTTTTTTTTTTC-TTT
1 TTTCCTTTTTATCAA--CTATTTCTTTTCATTT
19553815 TTTCCTCTTTTATCAACTATTTCTTTTCATTT
1 TTTCCT-TTTTATCAACTATTTCTTTTCATTT
19553847 TTTCCTTTTT
1 TTTCCTTTTT
19553857 GTTCATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 14 0.38
32 15 0.41
33 8 0.22
ACGTcount: A:0.11, C:0.20, G:0.01, T:0.68
Consensus pattern (31 bp):
TTTCCTTTTTATCAACTATTTCTTTTCATTT
Found at i:19556702 original size:8 final size:9
Alignment explanation
Indices: 19556676--19556701 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19556666 TGTTGATAAG
19556676 ATTTTTTTT
1 ATTTTTTTT
19556685 ATTTTTTTT
1 ATTTTTTTT
19556694 ATTTTTTT
1 ATTTTTTT
19556702 AAAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:19558271 original size:12 final size:12
Alignment explanation
Indices: 19558256--19558300 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
19558246 AAATAAGTAC
19558256 AATAAAAGTAAA
1 AATAAAAGTAAA
*
19558268 AATAAAAGGATAA
1 AATAAAAGTA-AA
*
19558281 AATAAGAAATAAA
1 AATAA-AAGTAAA
19558294 AATAAAA
1 AATAAAA
19558301 ATAATTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 11 0.39
13 14 0.50
14 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (12 bp):
AATAAAAGTAAA
Found at i:19558273 original size:6 final size:6
Alignment explanation
Indices: 19558256--19558304 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
19558246 AAATAAGTAC
*
19558256 AATAAA AGTAAA AATAAA AGGAT-AA AATAAGA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA A--ATAAA AATAA-A AATAAA AATAAA AATAA
19558305 TTCAATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 24 0.65
7 9 0.24
8 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:19558282 original size:20 final size:20
Alignment explanation
Indices: 19558257--19558294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19558247 AATAAGTACA
19558257 ATAAAAGTAA-AAATAAAAGG
1 ATAAAA-TAAGAAATAAAAGG
19558277 ATAAAATAAGAAATAAAA
1 ATAAAATAAGAAATAAAA
19558295 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (20 bp):
ATAAAATAAGAAATAAAAGG
Found at i:19558977 original size:2 final size:2
Alignment explanation
Indices: 19558970--19559001 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19558960 CGTCTAACTT
19558970 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19559002 CGCCCTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19560986 original size:2 final size:2
Alignment explanation
Indices: 19560979--19561029 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
19560969 AGGAAACGCA
19560979 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
19561021 AT AT AT AT A
1 AT AT AT AT A
19561030 GACACACACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19561927 original size:15 final size:16
Alignment explanation
Indices: 19561894--19561929 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19561884 TATGTGGTAG
*
19561894 TTTATTTTTTATACAA
1 TTTATTTTTCATACAA
*
19561910 TTTATTTTTCATACAT
1 TTTATTTTTCATACAA
19561926 TTTA
1 TTTA
19561930 GATTTGTGCA
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTTTCATACAA
Found at i:19561955 original size:6 final size:6
Alignment explanation
Indices: 19561944--19561987 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
19561934 TGTGCAAAAC
* *
19561944 AAAATA AAAATA ATAAATA ATAATA AATATA AAAACTA AAAATA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAA-TA AAAATA
19561988 TGATAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 20 0.62
7 12 0.38
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:19561987 original size:19 final size:19
Alignment explanation
Indices: 19561944--19561987 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
19561934 TGTGCAAAAC
19561944 AAAATAAAAATAATAAATA
1 AAAATAAAAATAATAAATA
* *
19561963 ATAATAAATATAA-AAACTA
1 AAAATAAAAATAATAAA-TA
19561982 AAAATA
1 AAAATA
19561988 TGATAAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATAAAAATAATAAATA
Found at i:19562000 original size:24 final size:24
Alignment explanation
Indices: 19561944--19562000 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
19561934 TGTGCAAAAC
19561944 AAAATAAAAATAATAAATAATAAT
1 AAAATAAAAATAATAAATAATAAT
*
19561968 AAATATAAAAACTAA-AAAT-ATGAT
1 AAA-ATAAAAA-TAATAAATAATAAT
19561992 AAAAGTAAA
1 AAAA-TAAA
19562001 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
25 11 0.38
26 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAATAAAAATAATAAATAATAAT
Found at i:19562173 original size:13 final size:13
Alignment explanation
Indices: 19562157--19562188 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
19562147 AACATAAACT
19562157 TAAATAATAATAA
1 TAAATAATAATAA
19562170 TAAATAATAATAA
1 TAAATAATAATAA
19562183 TGAAAT
1 T-AAAT
19562189 TTTTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:19562226 original size:16 final size:16
Alignment explanation
Indices: 19562201--19562260 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
19562191 TTATGAAAAG
19562201 AAAAAT-AAATAATAA
1 AAAAATAAAATAATAA
** *
19562216 AAAAATAAAATTTTATT
1 AAAAATAAAATAATA-A
*
19562233 AAAAATAAAATAAGGAA
1 AAAAATAAAATAA-TAA
19562250 AAAATATAAAA
1 AAAA-ATAAAA
19562261 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 15 0.44
18 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATAAAATAATAA
Found at i:19562243 original size:37 final size:40
Alignment explanation
Indices: 19562158--19562245 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 40
19562148 ACATAAACTT
* *
19562158 AAATAATAAT-AATAAATAATAATAATGAAATTTTTATGAA
1 AAATAA-AATAAATAAATAATAAAAATGAAAATTTTATGAA
*
19562198 AAGA-AAAATAAAT-AATAA-AAAAAT-AAAATTTTATTAA
1 AA-ATAAAATAAATAAATAATAAAAATGAAAATTTTATGAA
19562235 AAATAAAATAA
1 AAATAAAATAA
19562246 GGAAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
36 1 0.02
37 20 0.48
38 5 0.12
39 8 0.19
40 7 0.17
41 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (40 bp):
AAATAAAATAAATAAATAATAAAAATGAAAATTTTATGAA
Found at i:19562244 original size:33 final size:34
Alignment explanation
Indices: 19562201--19562267 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
19562191 TTATGAAAAG
* *
19562201 AAAAATAAATAA-TAAAAAA-ATAAAATTTTATT
1 AAAAATAAATAAGGAAAAAATATAAAAATTTATT
19562233 AAAAATAAAATAAGGAAAAAATATAAAAATTTATT
1 AAAAAT-AAATAAGGAAAAAATATAAAAATTTATT
19562268 TTTAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 6 0.20
33 6 0.20
34 6 0.20
35 12 0.40
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (34 bp):
AAAAATAAATAAGGAAAAAATATAAAAATTTATT
Found at i:19562520 original size:19 final size:19
Alignment explanation
Indices: 19562451--19562530 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
19562441 CCAAACTCTG
19562451 AAACTCTTAGGTAAAACC-A
1 AAAC-CTTAGGTAAAACCTA
* * * *
19562470 AAACTTTTGGTGAAACCCGA
1 AAACCTTAGGT-AAAACCTA
* * *
19562490 GAGCCCTAGGTAAAACCTA
1 AAACCTTAGGTAAAACCTA
19562509 AAACCTTAGGTAAAACCCTA
1 AAACCTTAGGTAAAA-CCTA
19562529 AA
1 AA
19562531 CCCTAGGTGA
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
18 5 0.11
19 27 0.60
20 13 0.29
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (19 bp):
AAACCTTAGGTAAAACCTA
Found at i:19562531 original size:19 final size:18
Alignment explanation
Indices: 19562496--19562538 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
19562486 CCGAGAGCCC
19562496 TAGGTAAAACCTAAAACCT
1 TAGGTAAAACCT-AAACCT
*
19562515 TAGGTAAAACCCTAAACCC
1 TAGGTAAAA-CCTAAACCT
19562534 TAGGT
1 TAGGT
19562539 GAATCACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (18 bp):
TAGGTAAAACCTAAACCT
Found at i:19562535 original size:38 final size:38
Alignment explanation
Indices: 19562458--19562538 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
19562448 CTGAAACTCT
* * * *
19562458 TAGGTAAAACCAAAACTTTTGGTGAAACCCGAGAGCCC
1 TAGGTAAAACCAAAACCTTAGGTAAAACCCGAGAACCC
*
19562496 TAGGTAAAACCTAAAACCTTAGGTAAAACCCTA-AACCC
1 TAGGTAAAACC-AAAACCTTAGGTAAAACCCGAGAACCC
19562534 TAGGT
1 TAGGT
19562539 GAATCACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 20 0.54
39 17 0.46
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (38 bp):
TAGGTAAAACCAAAACCTTAGGTAAAACCCGAGAACCC
Found at i:19563131 original size:281 final size:283
Alignment explanation
Indices: 19562624--19563193 Score: 808
Period size: 281 Copynumber: 2.0 Consensus size: 283
19562614 AAACTTCAAA
* * * ** *
19562624 ATCATCCTAAAATTTTTAAGGATTTATATGAAAATTTTTTTTATTAAATAATCTGTTCCAGAATG
1 ATCATCCCAAAATTTTTAAGGATTTATATGAAAATTTTTTTTATGAAACAATCTACTCCAGAATA
** * *
19562689 TTGCCTAGATGATGGAGTATTTAAAAAATCTTATTTCATTAAAAATTTTCATATATATTTCCATA
66 TTGCCTAGATGATAAAATATTTAAAAAATCTTATTTCATTAAAAATTTTAATATATATTTCCATA
*
19562754 ACTTAAAATAAAATTTTTAATAAAAAATAAGAAATGAATAAACAATAAAATGAGATTTTAAATAT
131 ACTTAAAATAAAATTTTTAATAAAAAATAAGAAATGAATAAACAATAAAACGAGATTTTAAATAT
* * * * * *
19562819 AAATAGTCACACCTAAACTCTGCCTAGAGGTTGGAGA-GATCAGGTGGTCTCTTTATATTTGAAA
196 AAATAATCACACCTAAACTCTACCAAGAGGTTGGAGACG-CCAGATGGTCTCTTTATATTTAAAA
* *
19562883 ATCTGATTTGTAAATTCATATTTT
260 ACCTGATTCGTAAATTCATATTTT
**
19562907 ATCATCCCAAAATTTTTAAGGATTTATATGAAAA-TTTTTTTATGAAACAATCTACTCTTGAATA
1 ATCATCCCAAAATTTTTAAGGATTTATATGAAAATTTTTTTTATGAAACAATCTACTCCAGAATA
* * *
19562971 TTGCCTGGATGATAAAATATTTAGAAAAT-TCTATTTCATTAAGAATTTTAATATATA-TTCCAT
66 TTGCCTAGATGATAAAATATTTAAAAAATCT-TATTTCATTAAAAATTTTAATATATATTTCCAT
* *
19563034 AACTTAAAATAAAATTTTTAATAAAGAATAA-AGAATGAATAAACAATAAAGCGAGATTTTAAAT
130 AACTTAAAATAAAATTTTTAATAAAAAATAAGA-AATGAATAAACAATAAAACGAGATTTTAAAT
* * *
19563098 ATAAATAATCACACTTAAACTTTACCAAGAGGTTGGAGACGCCAGATGGTCTTTTTATATTTAAA
194 ATAAATAATCACACCTAAACTCTACCAAGAGGTTGGAGACGCCAGATGGTCTCTTTATATTTAAA
*
19563163 AACCTGATTCGTAAATTTATATTTT
259 AACCTGATTCGTAAATTCATATTTT
19563188 ATCATC
1 ATCATC
19563194 ATCTGCATAT
Statistics
Matches: 254, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
280 1 0.00
281 148 0.58
282 72 0.28
283 33 0.13
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (283 bp):
ATCATCCCAAAATTTTTAAGGATTTATATGAAAATTTTTTTTATGAAACAATCTACTCCAGAATA
TTGCCTAGATGATAAAATATTTAAAAAATCTTATTTCATTAAAAATTTTAATATATATTTCCATA
ACTTAAAATAAAATTTTTAATAAAAAATAAGAAATGAATAAACAATAAAACGAGATTTTAAATAT
AAATAATCACACCTAAACTCTACCAAGAGGTTGGAGACGCCAGATGGTCTCTTTATATTTAAAAA
CCTGATTCGTAAATTCATATTTT
Found at i:19563784 original size:24 final size:24
Alignment explanation
Indices: 19563757--19563802 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
19563747 TTCCATAGAC
19563757 CTAAA-TTGTCTTT-TTAATAAAGCT
1 CTAAACTTGT-TTTATTAA-AAAGCT
19563781 CTAAACTTGTTTTATTAAAAAG
1 CTAAACTTGTTTTATTAAAAAG
19563803 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (24 bp):
CTAAACTTGTTTTATTAAAAAGCT
Found at i:19564721 original size:41 final size:41
Alignment explanation
Indices: 19564630--19564741 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 41
19564620 TCTAGGTTAG
19564630 GGTTTAGAGTTTG-GGGTTTAGGATTTTAGGATTTTAGGGTTTTA
1 GGTTTAG-G-TTGAGGGTTTAGGA-TTTA-GATTTTAGGGTTTTA
*
19564674 AGTTTAGGTTGAGGGTTTAGGATTTAGATTTT-GGAG-TTTA
1 GGTTTAGGTTGAGGGTTTAGGATTTAGATTTTAGG-GTTTTA
* *
19564714 GGATTTAGGTTTAGGGTTTAGAATTTAG
1 GG-TTTAGGTTGAGGGTTTAGGATTTAG
19564742 GGTTTCATGG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
40 7 0.11
41 30 0.49
42 7 0.11
43 11 0.18
44 6 0.10
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (41 bp):
GGTTTAGGTTGAGGGTTTAGGATTTAGATTTTAGGGTTTTA
Found at i:19564742 original size:14 final size:14
Alignment explanation
Indices: 19564685--19564746 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
19564675 GTTTAGGTTG
*
19564685 AGGGTTTAGGATTT
1 AGGGTTTAGAATTT
** * *
19564699 AGATTTTGGAGTTT
1 AGGGTTTAGAATTT
* *
19564713 AGGATTTAG-GTTT
1 AGGGTTTAGAATTT
19564726 AGGGTTTAGAATTT
1 AGGGTTTAGAATTT
19564740 AGGGTTT
1 AGGGTTT
19564747 CATGGAAATG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 12 0.32
14 25 0.68
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
AGGGTTTAGAATTT
Found at i:19566797 original size:20 final size:21
Alignment explanation
Indices: 19566774--19566817 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
19566764 TTTTGATCAA
19566774 GTTTGA-TTAATTTTGACT-AT
1 GTTTGACTTAA-TTTGACTAAT
*
19566794 GTTTGACTTCATTTGACTAAT
1 GTTTGACTTAATTTGACTAAT
19566815 GTT
1 GTT
19566818 GACCAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (21 bp):
GTTTGACTTAATTTGACTAAT
Found at i:19567579 original size:3 final size:3
Alignment explanation
Indices: 19567558--19567661 Score: 67
Period size: 3 Copynumber: 36.3 Consensus size: 3
19567548 GTTGGGGTCA
* * *
19567558 ATT ATT -TT ATT ACT ATT ATT ATT -TT TTT GTT ATT -TGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* ** * * * *
19567601 ATT GTT ATT ATT GCT ATT ATT GTT GTT ATT ACT AGT ATT A-T ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19567647 ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
19567662 GCTTTATTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
2 11 0.14
3 67 0.85
4 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:19568606 original size:14 final size:13
Alignment explanation
Indices: 19568585--19568686 Score: 52
Period size: 13 Copynumber: 7.8 Consensus size: 13
19568575 CTTTATTTCG
19568585 TTTTATTTTAATT
1 TTTTATTTTAATT
*
19568598 TTTTGATTTTGA--
1 TTTT-ATTTTAATT
*
19568610 TTTTA-TTT-ATC
1 TTTTATTTTAATT
* *
19568621 TTATATTTTAAGT
1 TTTTATTTTAATT
*
19568634 TTATATTTTAAGGTT
1 TTTTATTTTAA--TT
*
19568649 TTTTATTATAATT
1 TTTTATTTTAATT
*
19568662 TTATT-TTACTAATTT
1 TT-TTATT-TTAA-TT
19568677 TTTTATTTTA
1 TTTTATTTTA
19568687 TTAAGTAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
9 1 0.01
10 3 0.04
11 5 0.07
12 7 0.10
13 22 0.32
14 15 0.22
15 16 0.23
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (13 bp):
TTTTATTTTAATT
Found at i:19572251 original size:165 final size:165
Alignment explanation
Indices: 19571979--19572308 Score: 579
Period size: 165 Copynumber: 2.0 Consensus size: 165
19571969 GTGCTTAAAG
* *
19571979 CAGAAGAAATAATGAAAGAGGCTGAGACATTGAAAGCTTTGATCATGCCAACAAGAGAGCATGGA
1 CAGAAGAAATAATGAAAGAGGCTGAGACATTGAAAGCTTTGATCATACCAACAAGAGAGCATAGA
* * *
19572044 TAGTGATTGCTAAACTTTATTGAGGAAACTAAGGATCAGTACGAGCTAGTTAAGTGCTTTTATAG
66 TAGTGATTGCCAAACTTTATTGAGAAAACTAAGGATCAGTACGAGCTAGTTAAGTGCTTTTACAG
*
19572109 AGGGAAAATATTAAACTTGATGTAAAACAGATTTT
131 AGGGAAAATATTAAACTTAATGTAAAACAGATTTT
* * *
19572144 CAGAAGAAATAGTGAAAGAGGCTGAGACATTGAAAGCTTTGATCATACCAGCAAGAGAGTATAGA
1 CAGAAGAAATAATGAAAGAGGCTGAGACATTGAAAGCTTTGATCATACCAACAAGAGAGCATAGA
19572209 TAGTGATTGCCAAACTTTATTGAGAAAACTAAGGATCAGTACGAGCTAGTTAAGTGCTTTTACAG
66 TAGTGATTGCCAAACTTTATTGAGAAAACTAAGGATCAGTACGAGCTAGTTAAGTGCTTTTACAG
19572274 AGGGAAAATATTAAACTTAATGTAAAACAGATTTT
131 AGGGAAAATATTAAACTTAATGTAAAACAGATTTT
19572309 TATGAAATAA
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 156 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (165 bp):
CAGAAGAAATAATGAAAGAGGCTGAGACATTGAAAGCTTTGATCATACCAACAAGAGAGCATAGA
TAGTGATTGCCAAACTTTATTGAGAAAACTAAGGATCAGTACGAGCTAGTTAAGTGCTTTTACAG
AGGGAAAATATTAAACTTAATGTAAAACAGATTTT
Found at i:19579155 original size:76 final size:76
Alignment explanation
Indices: 19579029--19579176 Score: 224
Period size: 76 Copynumber: 1.9 Consensus size: 76
19579019 AAAAATCATA
* * * **
19579029 AAATATTACAAAATTGAAGTCTAAAAAGTTTTATGAAAATCCAAGCTTGAAAAAGCTAAATTATG
1 AAATATTACAAAATTGAAGTCTAAAAAGTTTCACGAAAATCCAAGCTTGAAAAAACTAAATTACA
19579094 AAAATACCATT
66 AAAATACCATT
* * *
19579105 AAATATTATAAAATTGAAGTCTAGAAAGTTTCACGAAAATCTAAGCTTGAAAAAACTAAATTACA
1 AAATATTACAAAATTGAAGTCTAAAAAGTTTCACGAAAATCCAAGCTTGAAAAAACTAAATTACA
19579170 AAAATAC
66 AAAATAC
19579177 GCTTATAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (76 bp):
AAATATTACAAAATTGAAGTCTAAAAAGTTTCACGAAAATCCAAGCTTGAAAAAACTAAATTACA
AAAATACCATT
Found at i:19582105 original size:119 final size:115
Alignment explanation
Indices: 19581895--19582291 Score: 424
Period size: 119 Copynumber: 3.4 Consensus size: 115
19581885 TTTATACAAG
* * * *
19581895 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTCTTGAGAATTTATTTTTTAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAACTTTT-TTGAAAATTTA-TTTCTAAGGAAA
* * *
19581960 ATTGATTCTTTCAACTTTTCCTTAAAAATATTTTTTGGAAACCTTAATTTTGA
64 ATTGATACTTTCAACTTTTCCATAAAAATATTTTTT-GAAACATTAATTTTGA
19582013 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAAATTTATTTCTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCT--AAAAAAAA-CTTTTTTGAAAATTTATTTCTAAGGAA
* * * *
19582078 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAACTTTAACTTCGA
63 AATTGATACTTTCAACTTTTCCATAAAAATA-TTTTTTGAAACATTAATTTTGA
* * * * *
19582132 GGAAAATTGATATTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAACTTTAATTTC-GAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAACTTTTTTGAAAA-TTT-ATTTCTAAGGAAA
* * * *
19582195 ATTGATACTTTTAACTTTT-CATAAAAAAAAACCTTTTTTGAAA-ATTTATTTCTAA
64 ATTGATACTTTCAACTTTTCCAT--AAAAATA--TTTTTTGAAACATTAATTT-TGA
* * * *
19582250 GGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAACTTTTTT
19582292 TGAATAAAAA
Statistics
Matches: 242, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
115 13 0.05
116 27 0.11
117 22 0.09
118 70 0.29
119 82 0.34
120 23 0.10
121 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAACTTTTTTGAAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCATAAAAATATTTTTTGAAACATTAATTTTGA
Found at i:19582283 original size:118 final size:114
Alignment explanation
Indices: 19581895--19582291 Score: 424
Period size: 118 Copynumber: 3.4 Consensus size: 114
19581885 TTTATACAAG
* * * *
19581895 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTCTTGAGAATTTATTTTTTAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTT-TTGAAAATTTA-ATTTCAAGGAAA
* * *
19581960 ATTGATTCTTTCAACTTTTCCTTAAAAATATTTTTTGGAAACCTTAATTT-TGA
64 ATTGATACTTTCAACTTTTCC-TAAAAATATTTTTT-GAAA-CTTTATTTCTAA
*
19582013 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAAATTT-ATTTCTAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCT--CAAAAAAA-CTTTTTTGAAAATTTAATTTC-AAGGA
* *
19582077 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAACTTTAACTTC-GA
62 AAATTGATACTTTCAACTTTT-CCTAAAAATA-TTTTTTGAAACTTT-ATTTCTAA
* * * *
19582132 GGAAAATTGATATTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAACTTTAATTTCGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAA-TTTAATTTCAAGGAAAA
* * * *
19582196 TTGATACTTTTAACTTTTCATAAAAAAAAACCTTTTTTGAAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCT--AAAAATA--TTTTTTGAAACTTTATTTCTAA
* * *
19582250 GGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTT
19582292 TGAATAAAAA
Statistics
Matches: 241, Mismatches: 23, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
115 13 0.05
116 27 0.11
117 21 0.09
118 79 0.33
119 72 0.30
120 24 0.10
121 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (114 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAATTTAATTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTAAAAATATTTTTTGAAACTTTATTTCTAA
Found at i:19582291 original size:58 final size:58
Alignment explanation
Indices: 19581895--19582291 Score: 417
Period size: 58 Copynumber: 6.7 Consensus size: 58
19581885 TTTATACAAG
* * * *
19581895 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTCTTGAGAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTA-TTTCTAA
* * * * * * *
19581955 GAAAAATTGATTCTTTCAACTTTTCCTTAAAAATATTTTTTGGAAACCTTAATTT-TGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-ATTTATTTCTAA
* * *
19582013 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT--CAAAAATA-TTTTTTTGAAAATTTATTTCTAA
* * *
19582074 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAACTTTAACTTC-GA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTT-ATTTCTAA
* * *
19582132 GGAAAATTGATATTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAACTTTAATTTC-GA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTT-ATTTCTAA
* * * * *
19582190 GGAAAATTGATACTTTTAACTTTTCATAAAAAAAAACCTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATA-TTTTTTTGAAAATTTATTTCTAA
*
19582250 GGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
19582292 TGAATAAAAA
Statistics
Matches: 282, Mismatches: 42, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
57 10 0.04
58 111 0.39
59 39 0.14
60 74 0.26
61 48 0.17
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTCTAA
Found at i:19582295 original size:177 final size:177
Alignment explanation
Indices: 19581892--19582291 Score: 583
Period size: 177 Copynumber: 2.2 Consensus size: 177
19581882 GCTTTTATAC
* * ** *
19581892 AAGGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTCTTGAGAATTTATTTTTTAAGA
1 AAGGG-AAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGA-AATTTATACTTCAAGA
* * *
19581957 AAAATTGATTCTTTCAACTTTTCCTTAAAAATATTTTTTGGAAACCTTAATTTTGAGGAAAATTG
63 AAAATTGATTCTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTG
*
19582022 ATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAAATTTATTTCT
128 ATACTTTCAACTTTTCATAAAAAAAAAACCTTTTTTGAAAATTTATTTCT
* * *
19582072 AAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAACTTTA-ACTTCGAGGA
1 AAGGGAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAA-TTTATACTTCAAGAA
* *
19582135 AAATTGATAT-TTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATTG
64 AAATTGAT-TCTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTG
*
19582199 ATACTTTTAACTTTTCAT-AAAAAAAAACCTTTTTTGAAAATTTATTTCT
128 ATACTTTCAACTTTTCATAAAAAAAAAACCTTTTTTGAAAATTTATTTCT
19582248 AAGGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAGGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
19582292 TGAATAAAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
176 72 0.36
177 81 0.41
178 14 0.07
179 29 0.14
180 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (177 bp):
AAGGGAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATACTTCAAGAAAA
ATTGATTCTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTGATA
CTTTCAACTTTTCATAAAAAAAAAACCTTTTTTGAAAATTTATTTCT
Found at i:19582305 original size:6 final size:6
Alignment explanation
Indices: 19582294--19582346 Score: 63
Period size: 6 Copynumber: 8.3 Consensus size: 6
19582284 ATTTTTTTTG
19582294 AATAAA AATAAA AATAAAA AATAAA AATAAA GGAA-AATA AATAAA AATAAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAAA --AATAA-A AATAAA AATAAA
19582345 AA
1 AA
19582347 ATATTAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 29 0.69
7 10 0.24
8 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:19582342 original size:176 final size:175
Alignment explanation
Indices: 19581982--19582342 Score: 399
Period size: 176 Copynumber: 2.0 Consensus size: 175
19581972 AACTTTTCCT
* * *
19581982 TAAAAATATTTTTTGGAAACCTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTAAAAAAA
1 TAAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCATAAAAAAA
19582047 AAACCTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTT
66 AAACCTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTT
** * ** * ** * *** ** ***
19582112 TTTTGAAACTTTAACTTCGAGGAAAATTGATATTTTCAACTTTTTC
131 TTTTGAAAAATAAAAATC-AGAAAAATAAAAATAAGCAACAATAAA
* *
19582158 TCAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATTGATACTTTTAACTTTTCAT-AAAAA
1 T-AAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCATAAAAAA
*
19582222 AAAACCTTTTTTGAAAATTTATTTCTAAGGGAAATTGATACTTTCAACTTTT-CCTCAAAAATAT
65 AAAACCTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAATA-
*
19582286 TTTTTTTGAATAAAAATAAAAAT-A-AAAAATAAAAATAAAGGAA-AATAAA
128 TTTTTTTG---AAAAATAAAAATCAGAAAAATAAAAAT-AAGCAACAATAAA
19582335 TAAAAATA
1 TAAAAATA
19582343 AAAAATATTA
Statistics
Matches: 154, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
175 3 0.02
176 71 0.46
177 70 0.45
178 3 0.02
180 7 0.05
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (175 bp):
TAAAAATATTTTTTGAAAACCTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCATAAAAAAA
AAACCTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTT
TTTTGAAAAATAAAAATCAGAAAAATAAAAATAAGCAACAATAAA
Found at i:19583302 original size:21 final size:20
Alignment explanation
Indices: 19583217--19583309 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 20
19583207 ATTTAAAAAA
19583217 ATAATA-ATAATCAGATAAAT
1 ATAATATATAAT-AGATAAAT
*
19583237 AATAATAT-TAATAGATAACCT
1 -ATAATATATAATAGATAA-AT
* * *
19583258 AAAATAAATAATGGATAAATT
1 ATAATATATAATAGATAAA-T
19583279 ATAATATATAATCAGATAAAT
1 ATAATATATAAT-AGATAAAT
19583300 AT-ATATATAA
1 ATAATATATAA
19583310 ATATTAACAG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
20 19 0.32
21 34 0.58
22 6 0.10
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATATATAATAGATAAAT
Found at i:19583368 original size:3 final size:3
Alignment explanation
Indices: 19583352--19583509 Score: 80
Period size: 3 Copynumber: 52.7 Consensus size: 3
19583342 AATAGAAAAA
* * * * * *
19583352 AAT AGT AAT TAT AAT AAT AAG GAT -AT ATAT ATT AAT AAAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT
* * *
19583398 AAT AAAT AAAT AAAT AAT AAAT ACAT AA- AAT AAA AAT AA- AAG AAA
1 AAT -AAT -AAT -AAT AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
19583443 AAT -AT ATAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAG
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
19583487 AAA AAT -AT AA- AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
19583510 AAAAAATGGG
Statistics
Matches: 122, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
2 16 0.13
3 80 0.66
4 26 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:19583434 original size:26 final size:27
Alignment explanation
Indices: 19583384--19583516 Score: 102
Period size: 26 Copynumber: 5.0 Consensus size: 27
19583374 ATATATATAT
*
19583384 TAATAAATAGTAATAATAA-ATAAATAAA
1 TAATAAATA-T-ATAATAATAAAAATAAA
*
19583412 TAATAAATACATAA-AATAAAAATAAAA
1 TAATAAATATATAATAATAAAAAT-AAA
* * * *
19583439 GAAAAATATATATAAAAATAATAAT-AA
1 TAATAA-ATATATAATAATAAAAATAAA
*
19583466 TAAT-AATA-ATAATAATAAAAGAAAAA
1 TAATAAATATATAATAATAAAA-ATAAA
19583492 T-ATAAA-ATATAATAATAAAAA-AAA
1 TAATAAATATATAATAATAAAAATAAA
19583516 T
1 T
19583517 GGGCTTACCC
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
24 14 0.16
25 10 0.12
26 27 0.31
27 11 0.13
28 16 0.19
29 8 0.09
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (27 bp):
TAATAAATATATAATAATAAAAATAAA
Found at i:19583436 original size:47 final size:45
Alignment explanation
Indices: 19583398--19583510 Score: 142
Period size: 47 Copynumber: 2.5 Consensus size: 45
19583388 AAATAGTAAT
*
19583398 AATAAATAAATAAATAATAAATACATAA-AATAAAAATAAAAGAAA
1 AATATATAAATAAATAATAAATA-ATAATAATAAAAATAAAAGAAA
*
19583443 AATATATATAA-AAATAATAATAATAATAATAATAATAATAAAAGAAA
1 AATATATA-AATAAATAAT-A-AATAATAATAATAAAAATAAAAGAAA
19583490 AATATA-AAATATAATAATAAA
1 AATATATAAATA-AATAATAAA
19583511 AAAAATGGGC
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
45 18 0.30
46 10 0.17
47 32 0.53
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.25
Consensus pattern (45 bp):
AATATATAAATAAATAATAAATAATAATAATAAAAATAAAAGAAA
Found at i:19583481 original size:66 final size:69
Alignment explanation
Indices: 19583374--19583500 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 69
19583364 AATAATAAGG
** *
19583374 ATATATATATTAATAAATAGTAATAATAAATAAATAAATAATAAATACATAAAATA-AAAATAAA
1 ATATATATAAAAATAAATAATAATAATAAATAAATAAATAATAAA-ACA-AAAATATAAAATAAA
19583438 AGAAAA
64 AGAAAA
*
19583444 ATATATATAAAAAT-AATAATAATAAT-AAT-AAT-AATAATAAAAGAAAAATATAAAATA
1 ATATATATAAAAATAAATAATAATAATAAATAAATAAATAATAAAACAAAAATATAAAATA
19583501 TAATAATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
64 6 0.12
65 8 0.15
66 9 0.17
67 3 0.06
68 3 0.06
69 11 0.21
70 12 0.23
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (69 bp):
ATATATATAAAAATAAATAATAATAATAAATAAATAAATAATAAAACAAAAATATAAAATAAAAG
AAAA
Found at i:19584129 original size:44 final size:43
Alignment explanation
Indices: 19584079--19584180 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 43
19584069 AAATACTTTG
*
19584079 CTTGAGCTCAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCGA
1 CTTGAGCT-AAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCAA
* * *
19584123 TTTGAGCAAAAAAAAAAGTTCAAGTTGAAAACTCAAAAGGGCAA
1 CTTGAGC-TAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCAA
19584167 CTTGAGCTAAAAAA
1 CTTGAGCTAAAAAA
19584181 GAAAAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 6 0.12
44 45 0.88
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (43 bp):
CTTGAGCTAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCAA
Found at i:19585529 original size:3 final size:3
Alignment explanation
Indices: 19585507--19585598 Score: 55
Period size: 3 Copynumber: 31.7 Consensus size: 3
19585497 ATTGAGGTCA
** * *
19585507 ATT ATT -TT ATT ACA ATT ATT ATT -TT TTT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** * * * *
19585553 GGT ATT ATT GCT ATT AAT GTT ATT ATT ACT AGT ATT A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19585599 AGTATAGTAT
Statistics
Matches: 64, Mismatches: 22, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:19585536 original size:20 final size:20
Alignment explanation
Indices: 19585511--19585549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19585501 AGGTCAATTA
19585511 TTTTATTACAATTATTATTT
1 TTTTATTACAATTATTATTT
**
19585531 TTTTATTAGTATTATTATT
1 TTTTATTACAATTATTATT
19585550 ATTGGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATTACAATTATTATTT
Done.