Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 36 of 221
Found at i:9886193 original size:30 final size:30
Alignment explanation
Indices: 9886157--9886214 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
9886147 AAGAAAATAT
9886157 ATTTTGTTTAACTTGACTTGCAAGCAATTC
1 ATTTTGTTTAACTTGACTTGCAAGCAATTC
9886187 ATTTTGTTTAACTTGACTTGCAAGCAAT
1 ATTTTGTTTAACTTGACTTGCAAGCAAT
9886215 ATATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (30 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATTC
Found at i:9889268 original size:23 final size:23
Alignment explanation
Indices: 9889206--9889268 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
9889196 CGTGCTTTTC
* *
9889206 TTCTTTATTTTTCTTTCTTTCTT
1 TTCTTTCTTTTTCTTTTTTTCTT
* *
9889229 TTCTTTCCAATTTT-TTTTTTGC-T
1 TTCTTT-C-TTTTTCTTTTTTTCTT
9889252 TTCTTTCTTTTTCTTTT
1 TTCTTTCTTTTTCTTTT
9889269 ATTATACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.12
22 5 0.16
23 13 0.41
24 6 0.19
25 4 0.12
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (23 bp):
TTCTTTCTTTTTCTTTTTTTCTT
Found at i:9889314 original size:26 final size:25
Alignment explanation
Indices: 9889267--9889315 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
9889257 TCTTTTTCTT
* *
9889267 TTATTATACTTACTTTATTATTATA
1 TTATTATACTTACTTAAATATTATA
*
9889292 TTATATATATTTACTTAAATATTA
1 TTAT-TATACTTACTTAAATATTA
9889316 AGTAAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTATACTTACTTAAATATTATA
Found at i:9892362 original size:24 final size:24
Alignment explanation
Indices: 9892335--9892383 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9892325 CTTTCATGAG
9892335 CACTAGCATATTTTCATTTGAGTA
1 CACTAGCATATTTTCATTTGAGTA
9892359 CACTAGCATATTTTCATTTGAGTA
1 CACTAGCATATTTTCATTTGAGTA
9892383 C
1 C
9892384 TTACCCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (24 bp):
CACTAGCATATTTTCATTTGAGTA
Found at i:9892974 original size:25 final size:25
Alignment explanation
Indices: 9892946--9893006 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
9892936 ATTCATATTC
9892946 GGGAATGCTCATACAAG-CACATAAT
1 GGGAA-GCTCATACAAGCCACATAAT
* * * *
9892971 GGGAAGCTCTTTCGAGCCATATAAT
1 GGGAAGCTCATACAAGCCACATAAT
9892996 GGGAAGCTCAT
1 GGGAAGCTCAT
9893007 GTGAGCCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCCACATAAT
Found at i:9893012 original size:25 final size:25
Alignment explanation
Indices: 9892966--9893026 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
9892956 ATACAAGCAC
*
9892966 ATAATGGGAAGCTCTTTCGAGCCAT
1 ATAATGGGAAGCTCTGTCGAGCCAT
9892991 ATAATGGGAAGCTCATGT-GAGCCAT
1 ATAATGGGAAGCTC-TGTCGAGCCAT
* *
9893016 GTAACGGGAAG
1 ATAATGGGAAG
9893027 TTCCGTAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (25 bp):
ATAATGGGAAGCTCTGTCGAGCCAT
Found at i:9893121 original size:25 final size:25
Alignment explanation
Indices: 9893090--9893149 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
9893080 TGAGCTAATA
*
9893090 TCGGGAAGCTCCGGAGAGCCTTTAAT
1 TCGGGAAGCTCCGAAGAGCCTTT-AT
**
9893116 T-GGGAAGCTCTTAAGAGCCTTTAT
1 TCGGGAAGCTCCGAAGAGCCTTTAT
9893140 TCGGGAAGCT
1 TCGGGAAGCT
9893150 TCGAGGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 26 0.87
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (25 bp):
TCGGGAAGCTCCGAAGAGCCTTTAT
Found at i:9893476 original size:20 final size:19
Alignment explanation
Indices: 9893453--9893492 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9893443 GTCAATTACA
*
9893453 CAATTCACATACATAAGATT
1 CAATTCAAATACATAA-ATT
*
9893473 CAATTCAAATATATAAATT
1 CAATTCAAATACATAAATT
9893492 C
1 C
9893493 TCAATTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (19 bp):
CAATTCAAATACATAAATT
Found at i:9894153 original size:19 final size:19
Alignment explanation
Indices: 9894121--9894190 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 19
9894111 CTTCGTCTCC
**
9894121 TTCTTTCTCCCTTTTCTTT
1 TTCTTTCTTTCTTTTCTTT
9894140 TTCTTTCTTTC-TTTCTTT
1 TTCTTTCTTTCTTTTCTTT
*
9894158 TT-TTCCTTT-TGTTTCGTTT
1 TTCTTTCTTTCT-TTTC-TTT
* *
9894177 TGCTTTGTTTCTTT
1 TTCTTTCTTTCTTT
9894191 CTAATTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.15
18 13 0.32
19 13 0.32
20 7 0.17
21 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.06, T:0.73
Consensus pattern (19 bp):
TTCTTTCTTTCTTTTCTTT
Found at i:9898763 original size:41 final size:37
Alignment explanation
Indices: 9898661--9898766 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
9898651 AATTCAAAGT
* **
9898661 AGTAAATTGACACCCAGTGTCTCCTCGGTTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCAA
* * * *
9898698 AGTAAATTGGCACCTAGTGCCTCATCGAATAATTCCGAA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAA-ACC-AA
*
9898737 GTGATAAATTGACACCCAGTGTCTCATCGA
1 -AG-TAAATTGACACCCAGTGTCTCATCGA
9898767 CTAGAAGTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 26 0.48
38 2 0.04
39 2 0.04
40 1 0.02
41 23 0.43
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCAA
Found at i:9899658 original size:14 final size:14
Alignment explanation
Indices: 9899639--9899696 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
9899629 GCGTTTCTTC
9899639 TTTCTTTTTCTTTA
1 TTTCTTTTTCTTTA
9899653 TTTC-TTTTCTTTCCAA
1 TTTCTTTTTCTTT---A
* *
9899669 TTTTGTTTTTCTTTC
1 -TTTCTTTTTCTTTA
9899684 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
9899697 TATTATACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 8 0.22
14 16 0.44
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTA
Found at i:9904956 original size:50 final size:46
Alignment explanation
Indices: 9904861--9904964 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 46
9904851 TAAAATTATA
*
9904861 AAAAAATTTTAAATTCTATTCAGAGTTTTATAATTTCAAAGCAAAAT
1 AAAAAA-TTTAAATTCTATTCAGAGTTTTATAATTTCAAAACAAAAT
* **
9904908 ACAAAATTTAAATTCTATTCAGAATGAGTTTTATGCTTTCAAAACAAAAT
1 AAAAAATTTAAATTCTATTC---A-GAGTTTTATAATTTCAAAACAAAAT
9904958 AAAAAAT
1 AAAAAAT
9904965 CTTGTGCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
46 14 0.29
47 5 0.10
49 1 0.02
50 28 0.58
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (46 bp):
AAAAAATTTAAATTCTATTCAGAGTTTTATAATTTCAAAACAAAAT
Found at i:9905656 original size:126 final size:128
Alignment explanation
Indices: 9905429--9905670 Score: 470
Period size: 126 Copynumber: 1.9 Consensus size: 128
9905419 AAAAAGACAA
9905429 TTAAATCCCTATTTTTCAAAAAAAGCAATTAAGCCATTGATTGTTTTTTTTTGTATACAATTAGG
1 TTAAATCCCTATTTTTCAAAAAAAGCAATTAAGCCATTGATTGTTTTTTTTTGTATACAATTAGG
9905494 TACTTGAACGGTAAAATGTATCAAAAAGGCTCTTTAACTGTTAACTTTAACTTTAAAATGTAC
66 TACTTGAACGGTAAAATGTATCAAAAAGGCTCTTTAACTGTTAACTTTAACTTTAAAATGTAC
9905557 TTAAATCCCTATTTTTCAAAAAAAGCAATTAAGCCATTGA-T-TTTTTTTTTGTATACAATTAGG
1 TTAAATCCCTATTTTTCAAAAAAAGCAATTAAGCCATTGATTGTTTTTTTTTGTATACAATTAGG
9905620 TACTTGAACGGTAAAATGTATCAAAAAGGCTCTTTAACTGTTAACTTTAAC
66 TACTTGAACGGTAAAATGTATCAAAAAGGCTCTTTAACTGTTAACTTTAAC
9905671 AGTTGACCGT
Statistics
Matches: 114, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 73 0.64
127 1 0.01
128 40 0.35
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (128 bp):
TTAAATCCCTATTTTTCAAAAAAAGCAATTAAGCCATTGATTGTTTTTTTTTGTATACAATTAGG
TACTTGAACGGTAAAATGTATCAAAAAGGCTCTTTAACTGTTAACTTTAACTTTAAAATGTAC
Found at i:9905848 original size:9 final size:9
Alignment explanation
Indices: 9905752--9905837 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
9905742 CATGTGGCAA
9905752 AAAAATTAT
1 AAAAATTAT
9905761 AAAAA--AT
1 AAAAATTAT
*
9905768 AAAAATCAAT
1 AAAAAT-TAT
*
9905778 AAAAGTTAT
1 AAAAATTAT
9905787 AAAAATTATT
1 AAAAATTA-T
* **
9905797 TAATTTTAAT
1 AAAAATT-AT
9905807 AAAAA-TAT
1 AAAAATTAT
9905815 AAAAA-TATT
1 AAAAATTA-T
*
9905824 AAAAATTAG
1 AAAAATTAT
9905833 AAAAA
1 AAAAA
9905838 AAATTATAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.12
8 9 0.15
9 26 0.43
10 17 0.28
11 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9906099 original size:11 final size:11
Alignment explanation
Indices: 9906083--9906107 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9906073 CTTTATAAAA
9906083 TTTTATAATTT
1 TTTTATAATTT
9906094 TTTTATAATTT
1 TTTTATAATTT
9906105 TTT
1 TTT
9906108 ACGATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9906103 original size:19 final size:20
Alignment explanation
Indices: 9906052--9906105 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
9906042 ATTTCTTTAC
*
9906052 ATTTTTTTATAATTTTCATG
1 ATTTTTTTATAATTTTCATA
* * *
9906072 A-CTTTATAAAATTTT-ATA
1 ATTTTTTTATAATTTTCATA
9906090 ATTTTTTTATAATTTT
1 ATTTTTTTATAATTTT
9906106 TTACGATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
18 3 0.12
19 22 0.85
20 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTTTATAATTTTCATA
Found at i:9906184 original size:19 final size:19
Alignment explanation
Indices: 9906155--9906200 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9906145 ATATTTATAT
9906155 TTTTTATTAAAATTTAATCA
1 TTTTTA-TAAAATTTAATCA
* * *
9906175 TTTTTATAAATTTTACTGA
1 TTTTTATAAAATTTAATCA
9906194 TTTTTAT
1 TTTTTAT
9906201 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATAAAATTTAATCA
Found at i:9909118 original size:19 final size:18
Alignment explanation
Indices: 9909082--9909130 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9909072 ATTTTTTAAA
9909082 ATTAAAAATCATTAAATTT
1 ATTAAAAAT-ATTAAATTT
*
9909101 ATTAAAAATATATTAATTT
1 ATTAAAAATAT-TAAATTT
*
9909120 -TAAAAAATATT
1 ATTAAAAATATT
9909131 TTTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAAAATATTAAATTT
Found at i:9909578 original size:20 final size:20
Alignment explanation
Indices: 9909553--9909602 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
9909543 CGGCATCACC
9909553 TATAAAAAATAATATTTTAA
1 TATAAAAAATAATATTTTAA
9909573 TATAAATAAAATAATATTTTAA
1 TAT-AA-AAAATAATATTTTAA
*
9909595 TCTAAAAA
1 TATAAAAA
9909603 GGGGTGACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 6 0.22
21 4 0.15
22 17 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAAATAATATTTTAA
Found at i:9909585 original size:22 final size:22
Alignment explanation
Indices: 9909558--9909600 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9909548 TCACCTATAA
9909558 AAAATAATATTTTAATATAAAT
1 AAAATAATATTTTAATATAAAT
*
9909580 AAAATAATATTTTAATCTAAA
1 AAAATAATATTTTAATATAAA
9909601 AAGGGGTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATAATATTTTAATATAAAT
Found at i:9913886 original size:23 final size:23
Alignment explanation
Indices: 9913859--9913902 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9913849 TTCACACCAA
9913859 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACATC
* *
9913882 AATTTGGGTAGCATATATACA
1 AATTTGGATAGCATAAATACA
9913903 ACAGTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACATC
Found at i:9913910 original size:23 final size:23
Alignment explanation
Indices: 9913859--9913910 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
9913849 TTCACACCAA
*
9913859 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACAAC
* *
9913882 AATTTGGGTAGCATATATACAAC
1 AATTTGGATAGCATAAATACAAC
*
9913905 AGTTTG
1 AATTTG
9913911 AGCAACATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACAAC
Found at i:9913964 original size:23 final size:23
Alignment explanation
Indices: 9913933--9914075 Score: 146
Period size: 23 Copynumber: 6.1 Consensus size: 23
9913923 ACACCAAAAC
*
9913933 TGGATAGCATATATGCAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * *
9913956 TGGGCAGCATTTAAGCATTA-AAAT
1 TGGACAGCATATATGCA--ACAAAT
*
9913980 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
*
9914003 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * *
9914026 TGGATAGCATTTAAT-CATCAAAAT
1 TGGACAGCATAT-ATGCAAC-AAAT
*
9914050 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
9914073 TGG
1 TGG
9914076 TTCAACTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
22 1 0.01
23 61 0.62
24 35 0.36
25 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (23 bp):
TGGACAGCATATATGCAACAAAT
Found at i:9913967 original size:47 final size:48
Alignment explanation
Indices: 9913890--9914012 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 48
9913880 TCAATTTGGG
* ** * * *
9913890 TAGCATATATACAACAGTTTGAGCAACATTTTTA-CACCAAAACTGGA
1 TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
** *
9913937 TAGCATATATGCAACAAATTGGGCAGCA-TTTAAGCATTAAAATTGGA
1 TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
* * *
9913984 CAGCATATATGTAACAAATTGGACAGCAT
1 TAGCATATATGCAACAAATTGGGCAGCAT
9914013 ATATGTAACA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
46 4 0.06
47 58 0.94
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (48 bp):
TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
Found at i:9914012 original size:70 final size:70
Alignment explanation
Indices: 9913933--9914075 Score: 232
Period size: 70 Copynumber: 2.0 Consensus size: 70
9913923 ACACCAAAAC
* * *
9913933 TGGATAGCATATATGCAACAAATTGGGCAGCATTTAAGCATTAAAATTGGACAGCATATATGTAA
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
9913998 CAAAT
66 CAAAT
* * *
9914003 TGGACAGCATATATGTAACAAATTGGATAGCATTTAATCATCAAAATTGGACAGCATATATGTAA
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
9914068 CAAAT
66 CAAAT
9914073 TGG
1 TGG
9914076 TTCAACTCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (70 bp):
TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
CAAAT
Found at i:9914987 original size:43 final size:43
Alignment explanation
Indices: 9914921--9915045 Score: 150
Period size: 43 Copynumber: 2.9 Consensus size: 43
9914911 AACTCTTACA
* *
9914921 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACGT-A-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA--ACATAAGTCG
9914964 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACATAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACATAAGTCG
9915007 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAA-ACAT
9915046 CTCAGAAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
41 3 0.04
42 4 0.06
43 55 0.76
44 6 0.08
45 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACATAAGTCG
Found at i:9923677 original size:3 final size:3
Alignment explanation
Indices: 9923671--9923725 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
9923661 TAAATAAATA
*
9923671 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9923718 AAG AAG AA
1 AAG AAG AA
9923726 TGAAAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9933970 original size:24 final size:23
Alignment explanation
Indices: 9933939--9933989 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
9933929 CATAATTATC
*
9933939 AAGTTGGCATAGTATAAAATATT
1 AAGTTGGCATAGTACAAAATATT
9933962 AAGTCTGGCATAGTACAAAATATT
1 AAGT-TGGCATAGTACAAAATATT
9933986 AAGT
1 AAGT
9933990 AAAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (23 bp):
AAGTTGGCATAGTACAAAATATT
Found at i:9940665 original size:14 final size:14
Alignment explanation
Indices: 9940646--9940673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9940636 AAACCCTTGC
9940646 AAACTGAGAAAATA
1 AAACTGAGAAAATA
9940660 AAACTGAGAAAATA
1 AAACTGAGAAAATA
9940674 GAGTTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AAACTGAGAAAATA
Found at i:9944046 original size:12 final size:12
Alignment explanation
Indices: 9944029--9944054 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9944019 CTTATTAAAC
9944029 GTGATTATTCTT
1 GTGATTATTCTT
9944041 GTGATTATTCTT
1 GTGATTATTCTT
9944053 GT
1 GT
9944055 TGATGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
GTGATTATTCTT
Found at i:9948656 original size:18 final size:18
Alignment explanation
Indices: 9948616--9948649 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9948606 AATGGCATAG
*
9948616 AAAT-AATATAAACAAAC
1 AAATAAATAAAAACAAAC
9948633 AAATAAATAAAAACAAA
1 AAATAAATAAAAACAAA
9948650 TCAATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAAACAAAC
Found at i:9948838 original size:30 final size:30
Alignment explanation
Indices: 9948802--9948858 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9948792 CATGTACATA
*
9948802 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
9948832 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
9948859 TAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:9948918 original size:23 final size:23
Alignment explanation
Indices: 9948892--9948935 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9948882 ATATTAAAAT
**
9948892 TAATTAATTTAGAATAATATATA
1 TAATTAATGAAGAATAATATATA
*
9948915 TAATTTATGAAGAATAATATA
1 TAATTAATGAAGAATAATATA
9948936 AGAAAACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
TAATTAATGAAGAATAATATATA
Found at i:9948920 original size:19 final size:19
Alignment explanation
Indices: 9948892--9948936 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9948882 ATATTAAAAT
*
9948892 TAAT-TAATTTA-GAATAA
1 TAATATAATTTATGAAGAA
9948909 TATATATAATTTATGAAGAA
1 TA-ATATAATTTATGAAGAA
9948929 TAATATAA
1 TAATATAA
9948937 GAAAACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 13 0.54
20 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATATAATTTATGAAGAA
Found at i:9949040 original size:17 final size:17
Alignment explanation
Indices: 9949018--9949061 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9949008 TAGTAAATAA
9949018 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
9949035 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
9949052 -ATATGTATAT
1 AAAATGTATAT
9949062 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:9949193 original size:3 final size:3
Alignment explanation
Indices: 9949185--9949220 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
9949175 GTATATATAG
* *
9949185 TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9949221 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9949565 original size:23 final size:22
Alignment explanation
Indices: 9949522--9949579 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
9949512 AAAGGGTATC
* *
9949522 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9949543 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
9949566 TGCAAATCATATCT
1 TACAAATCATATCT
9949580 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9949597 original size:21 final size:19
Alignment explanation
Indices: 9949535--9949605 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 19
9949525 AAATTAAATC
*
9949535 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-AAATCATA
9949555 TCTTCTAAGATTGCAAATCATA
1 ---TCTAAGATTGCAAATCATA
9949577 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-A-ATCATA
*
9949598 TGTAAGAT
1 TCTAAGAT
9949606 CATATCTAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.27
20 1 0.02
21 13 0.30
22 8 0.18
23 10 0.23
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCAAATCATA
Found at i:9949761 original size:15 final size:14
Alignment explanation
Indices: 9949731--9949760 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9949721 AGACTTAGAC
*
9949731 TTGGTTTTATTATT
1 TTGGGTTTATTATT
9949745 TTGGGTTTATTATT
1 TTGGGTTTATTATT
9949759 TT
1 TT
9949761 TTTGTGAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (14 bp):
TTGGGTTTATTATT
Found at i:9951568 original size:10 final size:10
Alignment explanation
Indices: 9951553--9951607 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 10
9951543 TTACTGTTTG
9951553 TTTATTTTAT
1 TTTATTTTAT
*
9951563 TTTATTTTAC
1 TTTATTTTAT
9951573 TTTA--TTAT
1 TTTATTTTAT
9951581 TATTAGTTTTAT
1 T-TTA-TTTTAT
9951593 ATTTAGTTTTAT
1 -TTTA-TTTTAT
9951605 TTT
1 TTT
9951608 TATTATCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 13 0.34
11 3 0.08
12 14 0.37
13 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:9951585 original size:6 final size:5
Alignment explanation
Indices: 9951553--9951607 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
9951543 TTACTGTTTG
*
9951553 TTTAT TTTAT TTTAT TTTAC TTTA- -TTAT TATTAGT TTTAT ATTTAGT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTA-T TTTAT -TTTA-T
9951600 TTTAT TTT
1 TTTAT TTT
9951608 TATTATCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
3 3 0.07
5 23 0.53
6 14 0.33
7 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:9951611 original size:30 final size:30
Alignment explanation
Indices: 9951557--9951613 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
9951547 TGTTTGTTTA
9951557 TTTTATTTTATTTTACTTTATTATTATTAG
1 TTTTATTTTATTTTACTTTATTATTATTAG
9951587 TTTTATATTTAGTTTTA-TTT-TTATTAT
1 TTTTAT-TTTA-TTTTACTTTATTATTAT
9951614 CTTTAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 13 0.52
31 7 0.28
32 5 0.20
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTTATTTTATTTTACTTTATTATTATTAG
Found at i:9952259 original size:31 final size:31
Alignment explanation
Indices: 9952221--9952282 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9952211 CTTCAACATG
9952221 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
1 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
9952252 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
1 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
9952283 ATCGTTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.06, G:0.35, T:0.42
Consensus pattern (31 bp):
TTATGTCGTAGTGGGATGAGTTGTGTACTGT
Found at i:9953675 original size:30 final size:29
Alignment explanation
Indices: 9953641--9953697 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9953631 CTAGACTCTT
9953641 CCACAAAGGCTGAACACACAGCCATGTGAG
1 CCACAAAGGCTG-ACACACAGCCATGTGAG
** *
9953671 CCACATGGGCTGTCACACAGCCATGTG
1 CCACAAAGGCTGACACACAGCCATGTG
9953698 CCAAATCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (29 bp):
CCACAAAGGCTGACACACAGCCATGTGAG
Found at i:9961687 original size:5 final size:6
Alignment explanation
Indices: 9961673--9961697 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9961663 TTTCAAAACA
9961673 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
9961698 CCGGAAGCTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:9962215 original size:20 final size:20
Alignment explanation
Indices: 9962179--9962216 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9962169 AACCTGATGC
9962179 AATGCAATATACAAATATGA
1 AATGCAATATACAAATATGA
*
9962199 AATGCTATA-ACATAATAT
1 AATGCAATATACA-AATAT
9962217 CATGCATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
AATGCAATATACAAATATGA
Found at i:9966372 original size:50 final size:50
Alignment explanation
Indices: 9966248--9966441 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
9966238 AATAATAACA
* * * ** * * *
9966248 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCTTGTAC--
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATAT-CGG
* * **
9966297 TGCCAATGCCATAT-CCAGATATGATCATACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
* *** * *
9966346 TGCCCATGCCATATCCCAGACATGATCTTATGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
* *
9966396 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATA
9966442 ATCTCACTGA
Statistics
Matches: 115, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 24 0.21
49 25 0.22
50 65 0.57
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
Found at i:9975126 original size:50 final size:50
Alignment explanation
Indices: 9975010--9975203 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
9975000 ATAATAACAA
* * * ** * **
9975010 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTGTGTACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATAT-TGGT
* * * **
9975059 GCCAATGCCATATCCCAGATATGGTCATACAAGGGAGTTCTCATATTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
* ** *
9975109 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATTTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
*
9975159 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATA
9975204 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 31 0.26
50 84 0.71
51 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
Found at i:9985508 original size:29 final size:30
Alignment explanation
Indices: 9985460--9985526 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
9985450 ACCAAAAAAA
9985460 GCCGATTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
**
9985490 GCCGATTTTTTT-ATTATTTACCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
9985519 GCC-ATTTT
1 GCCGATTTT
9985527 CTGGGAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.14
29 18 0.51
30 12 0.34
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:9985811 original size:22 final size:22
Alignment explanation
Indices: 9985783--9985833 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
9985773 CTCTCTAATC
*
9985783 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9985805 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9985827 CTCTCAA
1 CTCTCAA
9985834 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9986994 original size:7 final size:7
Alignment explanation
Indices: 9986982--9987006 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9986972 AGTCGATTGA
9986982 TATTTAG
1 TATTTAG
9986989 TATTTAG
1 TATTTAG
9986996 TATTTAG
1 TATTTAG
9987003 TATT
1 TATT
9987007 ATGTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:9988122 original size:25 final size:25
Alignment explanation
Indices: 9988094--9988162 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
9988084 TTTAAATTTA
9988094 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
9988119 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
9988144 TCCATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
9988163 ATCCTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:9988181 original size:18 final size:18
Alignment explanation
Indices: 9988158--9988206 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9988148 TTTGATGTAA
* * *
9988158 TAAAAATCCTAATTTATT
1 TAAAAACCCTAACTTAAT
9988176 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
9988194 TAAAAACCGTAAC
1 TAAAAACCCTAAC
9988207 CCTAACCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:9988249 original size:35 final size:34
Alignment explanation
Indices: 9988198--9988269 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
9988188 CTTAATTAAA
* *
9988198 AACCGTAACCCTAACCTATTTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATT-AAAACCCT
9988233 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
9988267 AAC
1 AAC
9988270 TTAATTAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 11 0.31
35 24 0.69
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (34 bp):
AACCCTAACCCTAACCTAATTTAATTAAAACCCT
Found at i:9988267 original size:17 final size:18
Alignment explanation
Indices: 9988247--9988287 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
9988237 CTAACCCTAA
*
9988247 CCTAATTTAATTAA-AAC
1 CCTAACTTAATTAAGAAC
9988264 CCTAACTTAATTAAGAAC
1 CCTAACTTAATTAAGAAC
9988282 CCTAAC
1 CCTAAC
9988288 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAGAAC
Found at i:9988273 original size:81 final size:82
Alignment explanation
Indices: 9988165--9989751 Score: 310
Period size: 82 Copynumber: 17.6 Consensus size: 82
9988155 TAATAAAAAT
* * **
9988165 CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCTATTTTAATTAAAAAC
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
9988230 CCTAACCCTAACCCTAA
66 CCTAACCCTAACCCTAA
*
9988247 CCTAATTTAATT-AAAACCCTAACTTAATTAAGAACCCTAACCCTAACCTAACTTAATTAAAAAT
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAA-
9988311 CCTAACTTAATTAAAAACCCTAACCCTAA
65 CC---C-----T---AACCCTAACCCTAA
* *
9988340 CCTAACTTAATTAAAAA-CC---C-----T---AACCCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAA-
*
9988393 CCTAACTTAATTAAAAACCCTAACCCTAG
65 CC---C-----T---AACCCTAACCCTAA
9988422 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
1 CCTAATTTAATT--AAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAACCTAACT
9988487 TAATTAAAAACCCTAACCCTAA-CCTAA
55 TAATTAAAAACCCTAACCCTAACCCTAA
** * * *
9988514 TTTAATTAAAAACCCTAACATTAA-CTTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
1 CCTAATT--TAA--TTAA-A--AACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
9988578 TAAAAACCCTAACCC--A----AA
59 TAAAAACCCTAACCCTAACCCTAA
* * * * * *
9988596 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAA--TTAA---AAACCCTAATTTAATTA
1 CCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--AAACCCTAACCCTAA-CCTAACTTAATTA
9988656 AAAACCCTAACCCTAA-CCTAA
61 AAAACCCTAACCCTAACCCTAA
** * * *
9988677 TTTAATTAAAAACCCTAACCCTAA-CCTAACTTAATTAAAAACCCTAACCTTAACCCTAACCTAA
1 CCTAATT--TAA--TTAA---AAACCCTAACTTAATTAAAAA-C----CC-TAACCCTAACCTAA
* *
9988741 ATTAACTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
53 CTTAATTAAAAA-CC---C-----T---AACCCTAACCCTAA
9988783 CCTAATTTAATTAAAAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAATCCTAAC
1 CCTAATTTAATT--AAA----AA--C---CCTAACTTAATTAAAAACCCTAACCCTAA-CCTAA-
*
9988848 CTAAATTAATTAAA----AACCCTAACCCTAA
53 CTTAATTAA--AAACCCTAACCCTAACCCTAA
* * *
9988876 CCTAATTTAATTAAAAACCCTAACCTTAAACTAAATTAA--TTAA----AACCCTAACTTGATTA
1 CCTAATTTAATTAAAAACCCTAA-CTT-AATTAAA--AACCCTAACCCTAA-CCTAACTTAATTA
9988935 AAAACCCTAACCCTAACCCTAA
61 AAAACCCTAACCCTAACCCTAA
* * * * *
9988957 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAA--TTAA---AAACCCTAACTTAATTA
1 CCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--AAACCCTAACCCTAA-CCTAACTTAATTA
*
9989017 AAAACCCTAACCCTAA-CTTAA
61 AAAACCCTAACCCTAACCCTAA
** * * *
9989038 TTTAATTTAAAACCCTAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
1 CCTAATTT--AA--TTAA---AAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
9989102 TAAAAACCCTAACTTAATTAAAAACTCTAACCCTAA
59 TAAAAACCCTAAC-----------C-CTAACCCTAA
* * * * ****
9989138 CCCTAACTTAATTAAAAACCCTAACCCTAACCT---AA-CTTAATTAAAAGCTCTAACTTAATTA
1 -CCTAATTTAATTAAAAACCCTAA-CTTAA-TTAAAAACCCTAACCCTAA-C-CTAACTTAATTA
9989199 AAAACCCTAACCCTAA-CCTAA
61 AAAACCCTAACCCTAACCCTAA
**
9989220 TTTAA-TTAA--AAACCCTAACCCTAACCTGACTTAATTAAAAAATCTAACCCTAACCCTAACCT
1 CCTAATTTAATTAAA----AACCCT-A----ACTTAATT-AA--A---AACCCTAACCCTAACCT
*
9989282 AAATTAATTAAAAACCCTAACTTAATTAAAAACCTTAACCCTAA
51 AACTTAATTAAAAACCCTAAC-----------CC-TAACCCTAA
9989326 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACT
1 CCTAATTTAATT--AAA----AA--C---CCTAACTTAATTAAAAACCCTAACCCTAACCTAACT
9989391 TAATTAAAAACCCTAACCCTAA-CCTAA
55 TAATTAAAAACCCTAACCCTAACCCTAA
** * *
9989418 TTTAA-TGAA-AAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTA
1 CCTAATTTAATTAAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAACCTAACTTA
*
9989481 ATTAAAAACCTTAACCCTAA-CCTAA
57 ATTAAAAACCCTAACCCTAACCCTAA
** * * * *
9989506 TTTAATTAAAAACCCTAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAA
1 CCTAATT--TAA--TTAA---AAACCCTAACTTAATTAAAAACCCTAACCCTAA-CCTAACTTAA
9989570 CTTAATTAAA----AACCCTAACCCTAA
58 -TTAA--AAACCCTAACCCTAACCCTAA
*
9989594 CCTAATTTAATGAAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAC
1 CCTAATTTAAT---TAAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAACCTAAC
9989659 TTAATTAAAAACCCTAAATTAATTAAAAACCCTAACCCTAA
54 TTAATTAAAAACCC---------T---AACCCTAACCCTAA
* * *
9989700 CCTAATTTAATTAAAAATCTTAACTTAATTAAAAACCCTAACACTAACCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAA
9989752 TTTTACATAA
Statistics
Matches: 1157, Mismatches: 116, Indels: 452
0.67 0.07 0.26
Matches are distributed among these distances:
75 4 0.00
76 29 0.03
77 8 0.01
78 13 0.01
79 7 0.01
80 17 0.01
81 117 0.10
82 136 0.12
83 21 0.02
84 14 0.01
85 20 0.02
86 17 0.01
87 118 0.10
88 98 0.08
89 12 0.01
90 6 0.01
91 16 0.01
92 30 0.03
93 122 0.11
94 74 0.06
95 34 0.03
96 6 0.01
97 5 0.00
98 2 0.00
99 12 0.01
100 4 0.00
101 6 0.01
102 3 0.00
103 3 0.00
104 8 0.01
105 89 0.08
106 50 0.04
107 10 0.01
108 1 0.00
109 3 0.00
110 3 0.00
111 34 0.03
113 1 0.00
115 1 0.00
116 3 0.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (82 bp):
CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
CCTAACCCTAACCCTAA
Found at i:9988284 original size:18 final size:17
Alignment explanation
Indices: 9988247--9988416 Score: 78
Period size: 18 Copynumber: 10.4 Consensus size: 17
9988237 CTAACCCTAA
*
9988247 CCTAATTTAATTAAAAC
1 CCTAACTTAATTAAAAC
9988264 CCTAACTTAATTAAGAAC
1 CCTAACTTAATTAA-AAC
**
9988282 CCTAAC---CCT--AA-
1 CCTAACTTAATTAAAAC
*
9988293 CCTAACTTAATTAAAAAT
1 CCTAACTTAATT-AAAAC
9988311 CCTAACTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
**
9988329 CCTAAC---CCT--AA-
1 CCTAACTTAATTAAAAC
9988340 CCTAACTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ****
9988358 CCTAACCCTAACCCTAA-
1 CCTAA-CTTAATTAAAAC
*
9988375 CCTAAATTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
9988393 CCTAACTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
9988411 CCTAAC
1 CCTAAC
9988417 CCTAGCCTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 35
0.66 0.13 0.21
Matches are distributed among these distances:
11 12 0.11
12 4 0.04
14 2 0.02
15 2 0.02
16 3 0.03
17 24 0.21
18 62 0.55
19 4 0.04
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (17 bp):
CCTAACTTAATTAAAAC
Found at i:9988343 original size:29 final size:29
Alignment explanation
Indices: 9988311--9989675 Score: 1017
Period size: 29 Copynumber: 48.8 Consensus size: 29
9988301 AATTAAAAAT
9988311 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9988340 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988369 CCCTAACCTAAATTAATTAAA----AACCCTAA
1 -CCTAA-CTTAATTAA--AAACCCTAACCCTAA
* *
9988398 CTTAA-TTAA--AAACCCTAACCCT-AGCCTAA
1 CCTAACTTAATTAAA----AACCCTAACCCTAA
9988427 --T---TTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988451 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9988480 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* **
9988509 CCTAATTTAATTAAAAACCCTAACATTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988538 CTTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988567 CCTAACTTAATTAAAAACCCTAACCCAAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988596 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
**
9988625 CCTAACTTAATTAAAAACCCTAA-TTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *****
9988653 -TTAA---AAACCCTAACCCTAA-CCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9988677 --T---TTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988701 CCTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988730 CCCTAACCTAAATTAACTAAA----AACCCTAA
1 -CCTAA-CTTAATTAA--AAACCCTAACCCTAA
*
9988759 CTTAA-TTAA--AAACCCTAACCCTAA-CCTAA
1 CCTAACTTAATTAAA----AACCCTAACCCTAA
*
9988788 --T---TTAATTAAAAACTCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9988812 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9988841 TCCTAACCTAAATTAATTAAAAACCCTAACCCTAA
1 -CCTAA-C----TTAATTAAAAACCCTAACCCTAA
* *
9988876 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * * *
9988905 ACTAAATTAATT-AAAACCCTAA-CTTGA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * * *
9988932 -TTAA--AAACCCTAACCCTAACCCTAA-CCTAA
1 CCTAACTTAA--TTAA---AAACCCTAACCCTAA
** *
9988962 TTTAA-TTAA-A---AACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9988986 CCTAACTTAATTAAAAACCCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *****
9989014 -TTAA---AAACCCTAACCCTAA--CT--
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9989035 --TAATTTAATTTAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989062 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9989091 CCTAATTTAATTAAAAACCCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * * **
9989119 -TTAA--AAACT-CTAACCCTAA--C---
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989139 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * *
9989168 CCTAACTTAATTAAAAGCTCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *****
9989196 -TTAA---AAACCCTAACCCTAA-CCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989220 --T---TTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* **
9989244 CCTGACTTAATTAAAAAATCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9989273 CCCTAACCTAAATTAATTAAA----AACCCTAA
1 -CCTAA-CTTAATTAA--AAACCCTAACCCTAA
*
9989302 CTTAA-TTAA--AAACCTTAACCCTAA-CCTAA
1 CCTAACTTAATTAAA----AACCCTAACCCTAA
9989331 --T---TTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989355 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989384 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * *
9989413 CCTAATTTAATGAAAAAATCCTAACCCTAA
1 CCTAACTTAAT-TAAAAACCCTAACCCTAA
*
9989443 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9989472 CCTAACTTAATTAAAAACCTTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9989501 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989530 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAACTTAATT--AAA----AACCCTAACCCTAA
9989565 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * *
9989594 CCTAATTTAATGAAAAAATCCTAACCCTAA
1 CCTAACTTAAT-TAAAAACCCTAACCCTAA
*
9989624 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9989653 CCTAACTTAATTAAAAACCCTAA
1 CCTAACTTAATTAAAAACCCTAA
9989676 ATTAATTAAA
Statistics
Matches: 1091, Mismatches: 123, Indels: 244
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.00
21 3 0.00
22 3 0.00
23 65 0.06
24 93 0.09
25 21 0.02
26 25 0.02
27 29 0.03
28 37 0.03
29 624 0.57
30 88 0.08
31 32 0.03
32 2 0.00
33 12 0.01
34 5 0.00
35 49 0.04
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9988398 original size:111 final size:108
Alignment explanation
Indices: 9988265--9989647 Score: 1054
Period size: 111 Copynumber: 12.5 Consensus size: 108
9988255 AATTAAAACC
* *
9988265 CTAACTTAATTAAGAACCCTAACCCTAACCTAACTTAATTAAAAATCCTAACTTAATTAAAAACC
1 CTAA-TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACC
9988330 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCCTAA
65 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA-CCTAA
* * * * ** * *
9988375 CCTAAATTAATTAAAAACCCTAA-CTTAA-TTAA--AAACCCTAACCCTAGCCTAATTTAATTAA
1 -CT-AATTAATTAAAAACCCTAACCCTAACCTAACTTAA--TTAA--AAACCCTAACTTAATTAA
*
9988436 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
60 AAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
*
9988485 C---TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACATTAACTTAACTTA
1 CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAA--C---C-----C-TAACTTA
*
9988547 ATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCAAACCTAA
55 ATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
*
9988601 -T--TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAATTTAATTAAAAACCC
1 CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCC
*
9988663 TAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
66 TAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* * *
9988706 CTTAATTAA--AAACCCTAACCTTAACCCTAACCTAAATTAACTAAAAACCCTAACTTAATTAAA
1 C-TAATTAATTAAA----AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
* *
9988769 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAA
61 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
9988817 C---TTAATTAAAAACCCTAACCCTAATCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCT
1 CTAATTAATTAAAAACCCTAACCCTAA-CCTAA-C----TTAATT--AAA----AACCCTAA-C-
* * * * * *
9988879 AATTTAATTAAAAACCCTAACCTTAAACTAAATTAATT-AAAACCCTAA-CTTGA-TTAA
52 ---TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* * **** ** * * *
9988936 -AAACCCTAA-CCCTAACCCTAA-CCTAATTTAA-TTAA-AAACCCTAACCCTAACCTAACTTAA
1 CTAA--TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAA---AAACCCTAACTTAA-TTAA
*
9988996 TTAAA----AA--C---CCTAACTTAATTAAAAACCCTAACCCTAACTTAA
60 --AAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* * * *
9989038 -T--TTAATTTAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA-CTTAA-TTAA--AA
* * *
9989100 A--TTAA---AAACCCTAACTTAATTAAAAACTCTAACCCTAACC---
62 ACCCTAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* *
9989140 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAGCTCTAACTTAATTAAAAACC
1 CTAA-TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACC
* *
9989205 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGA
65 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* *
9989249 CTTAATTAA-AAAATCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACTTAATTAAAA
1 C-TAATTAATTAAA---AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAA
* *
9989313 ACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
62 ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
9989360 C---TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA--CT----TAA--T-
* *
9989422 ATGAAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
57 -T--AAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* *
9989477 C---TTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTA
1 CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATT--AAA----AA--C---CCTAACTTA
9989539 ATTAAAAACCCTAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
55 ATTAAAAA------CCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* * *
9989599 -T--TTAATGAAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 CTAATTAAT-TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
9989648 CCTAACCTAA
Statistics
Matches: 1056, Mismatches: 95, Indels: 241
0.76 0.07 0.17
Matches are distributed among these distances:
98 3 0.00
99 26 0.02
100 31 0.03
101 7 0.01
102 10 0.01
103 1 0.00
104 8 0.01
105 161 0.15
106 86 0.08
107 24 0.02
108 9 0.01
109 22 0.02
110 21 0.02
111 268 0.25
112 8 0.01
113 4 0.00
114 5 0.00
115 3 0.00
116 102 0.10
117 93 0.09
118 2 0.00
119 6 0.01
120 7 0.01
121 17 0.02
122 92 0.09
123 32 0.03
125 1 0.00
126 2 0.00
128 5 0.00
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.27
Consensus pattern (108 bp):
CTAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCC
TAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
Found at i:9988652 original size:18 final size:18
Alignment explanation
Indices: 9988625--9988777 Score: 77
Period size: 18 Copynumber: 9.3 Consensus size: 18
9988615 CTAACCCTAA
9988625 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9988643 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9988661 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9988672 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9988690 CCTAAC---CCT---AAC
1 CCTAACTTAATTAAAAAC
9988702 -CTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
****
9988719 CCTAACCTTAA-CCCTAA-
1 CCTAA-CTTAATTAAAAAC
* *
9988736 CCTAAATTAACTAAAAAC
1 CCTAACTTAATTAAAAAC
9988754 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9988772 CCTAAC
1 CCTAAC
9988778 CCTAACCTAA
Statistics
Matches: 95, Mismatches: 23, Indels: 34
0.62 0.15 0.22
Matches are distributed among these distances:
11 10 0.11
12 5 0.05
14 2 0.02
15 2 0.02
16 4 0.04
17 12 0.13
18 55 0.58
19 5 0.05
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9988835 original size:18 final size:18
Alignment explanation
Indices: 9988812--9988870 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9988802 CTAACCCTAA
9988812 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ***
9988830 CCTAACCCTAA-TCCTAA-
1 CCTAA-CTTAATTAAAAAC
*
9988847 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9988865 CCTAAC
1 CCTAAC
9988871 CCTAACCTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 3 0.11
17 8 0.29
18 13 0.46
19 4 0.14
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989009 original size:18 final size:18
Alignment explanation
Indices: 9988986--9989027 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
9988976 CTAACCCTAA
9988986 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989004 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989022 CCTAAC
1 CCTAAC
9989028 CCTAACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989118 original size:18 final size:18
Alignment explanation
Indices: 9989091--9989209 Score: 75
Period size: 18 Copynumber: 7.3 Consensus size: 18
9989081 CTAACCCTAA
*
9989091 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989109 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* **
9989127 TCTAAC---CCT---AAC
1 CCTAACTTAATTAAAAAC
9989139 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9989157 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9989168 CCTAACTTAATTAAAAGC
1 CCTAACTTAATTAAAAAC
*
9989186 TCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989204 CCTAAC
1 CCTAAC
9989210 CCTAACCTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 26
0.64 0.13 0.23
Matches are distributed among these distances:
11 6 0.08
12 10 0.14
14 1 0.01
15 3 0.04
17 1 0.01
18 52 0.71
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989306 original size:18 final size:18
Alignment explanation
Indices: 9989279--9989320 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9989269 CTAACCCTAA
*
9989279 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989297 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9989315 CTTAAC
1 CCTAAC
9989321 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989453 original size:88 final size:87
Alignment explanation
Indices: 9988311--9989675 Score: 1289
Period size: 87 Copynumber: 16.3 Consensus size: 87
9988301 AATTAAAAAT
* * *
9988311 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAA-CCTAA-
*
9988376 CTAAATTAATTAAA----AA--C---
64 CTTAATTAA--AAACCCTAACCCTAA
* * * *
9988393 CCTAACTTAATTAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
9988458 TAATTAAAAACCCTAACCCTAA
66 TAATTAAAAACCCTAACCCTAA
* * ** *
9988480 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACATTAACTTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
9988545 TAATTAAAAACCCTAACCCTAA
66 TAATTAAAAACCCTAACCCTAA
* * *
9988567 CCTAACTTAATTAAAAACCCTAACCCAAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
9988632 TAATT--AAA----AACCCTAA
66 TAATTAAAAACCCTAACCCTAA
* *
9988648 --T---TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
*
9988708 TAATTAAAAACCCTAACCTTAA
66 TAATTAAAAACCCTAACCCTAA
* * *
9988730 CCCTAACCTAAATTAACTAAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAACCT
1 -CCTAA-CTTAATTAA--AAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCT
* *
9988786 AATTTAATTAAAAACTCTAACCCTAA
62 AACTTAATTAAAAACCCTAACCCTAA
* *
9988812 CCTAACTTAATTAAAAACCCTAACCCTAATCCTAACCTAAATTAATTAAAAACCCTAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAA-CCTAA--T---TTAATAAAAAATCCTAACCCTAAC
* *
9988877 CTAATTTAATTAAAAACCCTAACCTTAA
60 CTAACTTAATTAAAAACCCTAACCCTAA
* * * * *
9988905 ACTAAATTAATT-AAAACCCTAA--CT----TGA-TTAA-AAACCCTAACCCTAACCCTAACCTA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAA---AAATCCTAACCCTAACCTA
*
9988961 ATTTAATTAAAAACCCTAACCCTAA
63 ACTTAATTAAAAACCCTAACCCTAA
* *
9988986 CCTAACTTAATTAAAAACCCTAA--CT----TAA-TTAA-AAACCCTAACCCTAAC--T----TA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAA---AAATCCTAACCCTAACCTA
* *
9989037 ATTTAATTTAAAACCCTAACCCTAA
63 ACTTAATTAAAAACCCTAACCCTAA
*
9989062 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT--TAAA----AA--C---CCTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
*
9989116 TAATTAAAAACTCTAACCCTAA
66 TAATTAAAAACCCTAACCCTAA
* * *
9989138 CCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT---TAA----AA-GCT---CTAAC
1 -CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAAC
9989192 TTAATTAAAAACCCTAACCCTAA
65 TTAATTAAAAACCCTAACCCTAA
* * *
9989215 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAAAT-CTAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TAAAAAATCCTAACCCTAA-CCTAA
*
9989279 CCTAAATTAATTAAA----AA--C---
64 -CTTAATTAA--AAACCCTAACCCTAA
* ** * * * *
9989297 CCTAACTTAATTAAAAACCTTAACCCTAACCT-AATTTAATTAAAAACCCTAACCCTAACCTAAC
1 CCTAACTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAAC
9989361 TTAATTAAAAACCCTAACCCTAA
65 TTAATTAAAAACCCTAACCCTAA
*
9989384 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATGAAAAAATCCTAACCCTAACCTAAT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT-AAAAAATCCTAACCCTAACCTAAC
9989449 TTAATTAAAAACCCTAACCCTAA
65 TTAATTAAAAACCCTAACCCTAA
* * *
9989472 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
9989537 TAATTAAAAACCCTAACCCTAACCCTAA
66 TAATT--AAA----AACCCTAACCCTAA
*
9989565 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATGAAAAAATCCTAACCCTAACCTAAT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT-AAAAAATCCTAACCCTAACCTAAC
9989630 TTAATTAAAAACCCTAACCCTAA
65 TTAATTAAAAACCCTAACCCTAA
9989653 CCTAACTTAATTAAAAACCCTAA
1 CCTAACTTAATTAAAAACCCTAA
9989676 ATTAATTAAA
Statistics
Matches: 1119, Mismatches: 72, Indels: 178
0.82 0.05 0.13
Matches are distributed among these distances:
75 2 0.00
76 177 0.16
77 68 0.06
78 16 0.01
79 7 0.01
80 26 0.02
81 81 0.07
82 197 0.18
83 10 0.01
84 5 0.00
85 7 0.01
86 5 0.00
87 215 0.19
88 124 0.11
89 18 0.02
90 2 0.00
91 6 0.01
92 13 0.01
93 113 0.10
94 27 0.02
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (87 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATAAAAAATCCTAACCCTAACCTAACT
TAATTAAAAACCCTAACCCTAA
Found at i:9989553 original size:18 final size:18
Alignment explanation
Indices: 9989530--9989588 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9989520 CTAACCCTAA
9989530 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ****
9989548 CCTAACCCTAA-CCCTAA-
1 CCTAA-CTTAATTAAAAAC
9989565 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989583 CCTAAC
1 CCTAAC
9989589 CCTAACCTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989680 original size:18 final size:18
Alignment explanation
Indices: 9989653--9989693 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9989643 CTAACCCTAA
*
9989653 CCTAACTTAATTAAAAAC
1 CCTAAATTAATTAAAAAC
9989671 CCTAAATTAATTAAAAAC
1 CCTAAATTAATTAAAAAC
9989689 CCTAA
1 CCTAA
9989694 CCCTAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (18 bp):
CCTAAATTAATTAAAAAC
Found at i:9989734 original size:123 final size:117
Alignment explanation
Indices: 9989317--9989754 Score: 397
Period size: 117 Copynumber: 3.6 Consensus size: 117
9989307 TTAAAAACCT
** *
9989317 TAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCT
1 TAACCCTAACCTAACCTAATT-AAAA-CCTAA--CAAACCTAACTTAATTAAAAA-CCTAACCCT
* * * **
9989382 AACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TGAAAA----AATCC
61 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAAAC
** *
9989434 TAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCTTAACCCT
1 TAACCCTAACCTAACCTAATT-AAAA-CCTAA--CAAACCTAACTTAATTAAAAACC-TAACCCT
**
9989499 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCC
61 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAAAC
* * * *
9989556 TAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATGAAAAAATCCTAACCC
1 TAACCCTAACCTAACCTAATT-AAAA-CCTAA--CAAACCTAACTTAAT-TAAAAA-CCTAACCC
*
9989621 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAATTAAT
60 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT-AA--AAC
* * * *
9989682 TAAAAACCCTAACCCTAACCTAATT-TAA-TTAA-AAATCTTAACTTAATTAAAAACCCTAACAC
1 T---AACCCTAA-CCTAACCTAATTAAAACCTAACAAA-CCTAACTTAATTAAAAA-CCTAACCC
9989744 TAACCTAATTT
60 TAACCTAATTT
9989755 TACATAATTT
Statistics
Matches: 286, Mismatches: 19, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
116 2 0.01
117 101 0.35
118 5 0.02
122 51 0.18
123 89 0.31
124 13 0.05
126 4 0.01
128 2 0.01
129 8 0.03
130 11 0.04
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (117 bp):
TAACCCTAACCTAACCTAATTAAAACCTAACAAACCTAACTTAATTAAAAACCTAACCCTAACCT
AATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAAAC
Found at i:9989741 original size:18 final size:18
Alignment explanation
Indices: 9989700--9989741 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9989690 CTAACCCTAA
* *
9989700 CCTAATTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
*
9989718 CTTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9989736 CCTAAC
1 CCTAAC
9989742 ACTAACCTAA
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:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9989752 original size:47 final size:47
Alignment explanation
Indices: 9989624--9989754 Score: 208
Period size: 47 Copynumber: 2.8 Consensus size: 47
9989614 CTAACCCTAA
* *
9989624 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
9989671 CCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAT
1 CCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
* * *
9989718 CTTAACTTAATTAAAAACCCTAACACTAACCTAATTT
1 CCTAAATTAATTAAAAACCCTAACCCTAACCTAATTT
9989755 TACATAATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.30
Consensus pattern (47 bp):
CCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:9989809 original size:55 final size:55
Alignment explanation
Indices: 9989749--9989885 Score: 265
Period size: 55 Copynumber: 2.5 Consensus size: 55
9989739 AACACTAACC
9989749 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
*
9989804 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
9989859 TAATTTTACATAATTTGATAATTTTAC
1 TAATTTTACATAATTTGATAATTTTAC
9989886 CTAATTTAAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
Found at i:9989881 original size:18 final size:18
Alignment explanation
Indices: 9989858--9989892 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9989848 TTTGGACTTA
9989858 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
9989876 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
9989893 AATTAAAATT
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:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:9989903 original size:55 final size:54
Alignment explanation
Indices: 9989749--9989927 Score: 252
Period size: 55 Copynumber: 3.2 Consensus size: 54
9989739 AACACTAACC
*
9989749 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAA-CATTAACACAATTTTTGGACTTAA
9989804 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAA-CATTAACACAATTTTTGGACTTAA
* * * * *
9989859 TAATTTTACATAATTTGATAATTTTACCTAA-TTTAATTAAAATTTTTTTGTCTTAA
1 TAATTTTACATAATTTGATAATTTTA-CTAACATTAA-CACAA-TTTTTGGACTTAA
9989915 TAATTTTACATAA
1 TAATTTTACATAA
9989928 ATTTACATAA
Statistics
Matches: 115, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
54 4 0.03
55 83 0.72
56 28 0.24
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (54 bp):
TAATTTTACATAATTTGATAATTTTACTAACATTAACACAATTTTTGGACTTAA
Found at i:9993436 original size:124 final size:124
Alignment explanation
Indices: 9993087--9993422 Score: 618
Period size: 124 Copynumber: 2.7 Consensus size: 124
9993077 CCCAAACTTG
9993087 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
9993152 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
9993211 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
9993276 TAGAGGGGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* *
9993335 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
9993400 TAGAAGTGATTTTATACTATTTG
66 TAGAGGCGATTTTATACTATTTG
9993423 ACCAAAAATG
Statistics
Matches: 206, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 206 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:9997136 original size:9 final size:9
Alignment explanation
Indices: 9997122--9997147 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9997112 TTTATTTTTA
9997122 AAAATATTT
1 AAAATATTT
9997131 AAAATATTT
1 AAAATATTT
9997140 AAAATATT
1 AAAATATT
9997148 AATATAAAAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:9997276 original size:31 final size:30
Alignment explanation
Indices: 9997214--9997279 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
9997204 TTTAGTCATA
9997214 TAATAAATTATTAATATAAATTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
9997244 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
9997275 TAATA
1 TAATA
9997280 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 10 0.30
31 14 0.42
32 3 0.09
33 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:9998303 original size:15 final size:16
Alignment explanation
Indices: 9998247--9998325 Score: 76
Period size: 15 Copynumber: 5.1 Consensus size: 16
9998237 AAATCTAAGT
9998247 ATAAGAATAATAAATAAA
1 ATAA-AATAATAAAT-AA
*
9998265 ATAAAATAA-AAATTA
1 ATAAAATAATAAATAA
*
9998280 GTAAAATAA-AAATAA
1 ATAAAATAATAAATAA
*
9998295 ATAATATAATAAAT-A
1 ATAAAATAATAAATAA
*
9998310 ATAATA-AATAAATAA
1 ATAAAATAATAAATAA
9998325 A
1 A
9998326 ATAGAAGGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
14 7 0.13
15 30 0.56
16 8 0.15
17 5 0.09
18 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
ATAAAATAATAAATAA
Found at i:9998307 original size:18 final size:17
Alignment explanation
Indices: 9998247--9998326 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 17
9998237 AAATCTAAGT
*
9998247 ATAAGAATAATAAATAA
1 ATAAAAATAATAAATAA
*
9998264 A-ATAAAATAAAAATTAGTAAA
1 ATA-AAAATAATAA--A-T-AA
9998285 ATAAAAATAA-ATAATATA
1 ATAAAAATAATA-AATA-A
9998303 ATAAATAATAATAAATAA
1 ATAAA-AATAATAAATAA
9998321 ATAAAA
1 ATAAAA
9998327 TAGAAGGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
16 1 0.02
17 11 0.22
18 13 0.25
19 11 0.22
20 3 0.06
21 11 0.22
22 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
ATAAAAATAATAAATAA
Found at i:9998315 original size:22 final size:23
Alignment explanation
Indices: 9998283--9998328 Score: 51
Period size: 22 Copynumber: 2.0 Consensus size: 23
9998273 AAAATTAGTA
* *
9998283 AAATAA-AAATAAATAATATAAT
1 AAATAATAAATAAATAAAAAAAT
9998305 AAATAAT-AATAAATAAATAAAAT
1 AAATAATAAATAAATAAA-AAAAT
9998328 A
1 A
9998329 GAAGGGGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATAATAAATAAATAAAAAAAT
Found at i:10002076 original size:51 final size:51
Alignment explanation
Indices: 10002018--10002193 Score: 212
Period size: 51 Copynumber: 3.5 Consensus size: 51
10002008 TTTGAGGGTT
* * * *
10002018 TTCACATAGTACCACTCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATCTTTCGATACACGTAGTAGCC
* * * * *
10002069 TTCACATAGTACTACACACGTGACTA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATC-TTTCGATACACGTAGTAGCC
* *
10002120 TTCACTTAGTACTACACATGTGACCATTAT-TTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATCTT-TCGATACACGTAGTAGCC
*
10002171 TTCACATAATACTACACATGTGA
1 TTCACATAGTACTACACATGTGA
10002194 TCATCGATAC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.04
51 99 0.95
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACTATTATCTTTCGATACACGTAGTAGCC
Found at i:10009698 original size:50 final size:49
Alignment explanation
Indices: 10009638--10009829 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 49
10009628 TATCATTCGA
*
10009638 TACACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC-G
* *
10009688 TCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTAC-G
* * * * * *
10009739 TATACATAGTAGCCTTCACTTAGTACTACACATGTGAAC-ATTATTTATCG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CG
* *
10009789 ATACACGTAGTACCCTTCACATAGTACTACACACATGATCA
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA
10009830 TCGATACTTT
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 37 0.32
51 71 0.61
52 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACG
Found at i:10017446 original size:51 final size:50
Alignment explanation
Indices: 10017380--10017566 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
10017370 TTGGTTCACA
** *
10017380 TAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * *
10017431 TAGTACCCTACACATAGTACTACACACGTGATCGAAACTATCCAGTATGCA--
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATCC-G-ATACACG
* * * * * *
10017482 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATACCA-TCCGATACACG
10017532 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
10017567 CACTTTCACT
Statistics
Matches: 107, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 33 0.31
51 61 0.57
52 3 0.03
53 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:10017555 original size:101 final size:101
Alignment explanation
Indices: 10017378--10017562 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
10017368 GTTTGGTTCA
* *
10017378 CATAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTACCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTACCCTACA
10017443 CATAGTACTACACACGTGATCGAAACTATCCAGTATG
65 CATAGTACTACACACGTGATCGAAACTATCCAGTATG
* * * *
10017480 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTACCCTACA
10017544 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
10017563 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTACCCTACAC
ATAGTACTACACACGTGATCGAAACTATCCAGTATG
Found at i:10023083 original size:27 final size:27
Alignment explanation
Indices: 10023053--10023130 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
10023043 ACTTAACTTT
10023053 TAAACCATAAACCTAAACTCAAAACAC
1 TAAACCATAAACCTAAACTCAAAACAC
* * * *
10023080 TAAACCTTAAGCATTAAAGTC-AAACAC
1 TAAACCATAAAC-CTAAACTCAAAACAC
*
10023107 TAAACCCTAAATCCTAAAC-CAAAA
1 TAAACCATAAA-CCTAAACTCAAAA
10023131 TGCCAAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 32 0.80
28 7 0.17
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.18
Consensus pattern (27 bp):
TAAACCATAAACCTAAACTCAAAACAC
Found at i:10023161 original size:14 final size:14
Alignment explanation
Indices: 10023138--10023167 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10023128 AAATGCCAAA
*
10023138 TTCAAGGTTTTGGG
1 TTCAAAGTTTTGGG
10023152 TTCAAAGTTTTGGG
1 TTCAAAGTTTTGGG
10023166 TT
1 TT
10023168 TTCGGTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (14 bp):
TTCAAAGTTTTGGG
Found at i:10023227 original size:26 final size:26
Alignment explanation
Indices: 10023198--10023252 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
10023188 CGAGGTTTGA
*
10023198 GTTTGGGTTCGAATTCAC-AGTTCAAG
1 GTTTGAGTTCGAATTCACGA-TTCAAG
* *
10023224 GTTTGAGTTTGAGTTCACGATTCAAG
1 GTTTGAGTTCGAATTCACGATTCAAG
10023250 GTT
1 GTT
10023253 CAATGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (26 bp):
GTTTGAGTTCGAATTCACGATTCAAG
Found at i:10023742 original size:19 final size:19
Alignment explanation
Indices: 10023718--10023790 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
10023708 AATCTTCAAG
10023718 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10023737 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
10023756 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10023775 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10023791 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10023816 original size:22 final size:21
Alignment explanation
Indices: 10023718--10023816 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
10023708 AATCTTCAAG
*
10023718 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10023737 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10023756 AATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10023775 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
10023797 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
10023817 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:10033589 original size:17 final size:18
Alignment explanation
Indices: 10033567--10033600 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10033557 CTCAACAACC
10033567 AAAGGTATTGTC-CCTGG
1 AAAGGTATTGTCTCCTGG
*
10033584 AAAGGTTTTGTCTCCTG
1 AAAGGTATTGTCTCCTG
10033601 TGCTCTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (18 bp):
AAAGGTATTGTCTCCTGG
Found at i:10044081 original size:27 final size:25
Alignment explanation
Indices: 10044043--10044212 Score: 124
Period size: 27 Copynumber: 6.4 Consensus size: 25
10044033 TGCAAGTTGA
*
10044043 GTTCGCCAGTTGGTTTGGCGAGCTGGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
* * *
10044070 GTTCGCCAGTTGAGTTGTGAATTAGGG
1 GTTCGCCAGTTG-GTTGCGAACT-GGT
* * *
10044097 GTTCACTAGTTAAGTTGCGAACTGGT
1 GTTCGCCAGTT-GGTTGCGAACTGGT
* * *
10044123 GTTCGCCATTTGGTTTGGCGAGCTAGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
** *
10044150 GTTCGCCAGTTGAGTTATGAACTGAT
1 GTTCGCCAGTTG-GTTGCGAACTGGT
*
10044176 GGTTCGCTAGTTGAGTTGCGAACTGGT
1 -GTTCGCCAGTTG-GTTGCGAACTGGT
10044203 GTTCGCCAGT
1 GTTCGCCAGT
10044213 CAAAAAGTCA
Statistics
Matches: 109, Mismatches: 27, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
25 1 0.01
26 30 0.28
27 76 0.70
28 2 0.02
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (25 bp):
GTTCGCCAGTTGGTTGCGAACTGGT
Found at i:10044180 original size:80 final size:80
Alignment explanation
Indices: 10044043--10044212 Score: 261
Period size: 80 Copynumber: 2.1 Consensus size: 80
10044033 TGCAAGTTGA
* * *
10044043 GTTCGCCAGTTGGTTTGGCGAGCTGGTGTTCGCCAGTTGAGTTGTGAATTAGGGGTTCACTAGTT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAATGAGGGGTTCACTAGTT
10044108 AAGTTGCGAACTGGT
66 AAGTTGCGAACTGGT
* * *
10044123 GTTCGCCATTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAACTGA-TGGTTCGCTAGT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAA-TGAGGGGTTCACTAGT
*
10044187 TGAGTTGCGAACTGGT
65 TAAGTTGCGAACTGGT
10044203 GTTCGCCAGT
1 GTTCGCCAGT
10044213 CAAAAAGTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 79 0.98
81 2 0.02
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (80 bp):
GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAATGAGGGGTTCACTAGTT
AAGTTGCGAACTGGT
Found at i:10061119 original size:44 final size:43
Alignment explanation
Indices: 10060993--10061457 Score: 282
Period size: 44 Copynumber: 10.7 Consensus size: 43
10060983 CCACCCTTAG
* * * ***
10060993 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-AGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCAGTTTTAA
* * * * *
10061034 TCTACT-CTCTGTAACTTCAGAGAGATAAGA-TCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTC-A-GTTTTAA
*
10061077 TCTGCTCCACTGCAACCTT-AGGGAGATAGGATTATCAGTTTTAA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGATT-TCAGTTTTAA
* * *
10061121 TCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTT--CAGT-TTTAA
* * *
10061166 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGC-GTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTTCAGT-TTTAA
* * * * *
10061210 TCTACTCCACTGCAACTTCAGAGAGATAAGA-CT-AGATGTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCAGTTTTAA
* * *
10061251 TCTGAT-CTCTGCAACTTCAGGGAGATAAGA-TCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTC-A-GTTTTAA
* * * * *
10061294 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TCAGTTTTAA
* *
10061338 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTT--CAGT-TTTAA
* * *
10061383 TTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT--GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTCAG-TT--TTAA
10061427 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
10061458 CTAGATGCGA
Statistics
Matches: 329, Mismatches: 60, Indels: 67
0.72 0.13 0.15
Matches are distributed among these distances:
40 42 0.13
41 11 0.03
42 4 0.01
43 23 0.07
44 172 0.52
45 73 0.22
46 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCAGTTTTAA
Found at i:10061363 original size:217 final size:217
Alignment explanation
Indices: 10060988--10061497 Score: 835
Period size: 217 Copynumber: 2.4 Consensus size: 217
10060978 CAAACCCACC
* *
10060988 CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCT-ACTCTCTGTAACTTC
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGA-TCTCTGCAACTTC
* * *
10061052 AGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACCTTAGGGAGATAGGATTATCAGTT
65 AGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACCTTAGGGAGATAGGATTATCAGCT
10061117 TTAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
130 TTAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
10061182 TTCAGGAGGATAAGACTTGCGTA
195 TTCAGGAGGATAAGACTTGCGTA
* * **
10061205 CTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGATGTAATCTGATCTCTGCAACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGATCTCTGCAACTTCA
* *
10061270 GGGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAA-CTTCAGGGAGATAGGATTATCGGCT
66 GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACCTT-AGGGAGATAGGATTATCAGCT
* *
10061334 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAAC
130 TTAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
*
10061399 TTCAGGAGGATAAGACTTGCTTA
195 TTCAGGAGGATAAGACTTGCGTA
* *
10061422 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGATCTCTGCAACTTCA
*
10061487 AAGAGATAAGA
66 GAGAGATAAGA
10061498 CTTGTGATTT
Statistics
Matches: 269, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
216 3 0.01
217 265 0.99
218 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (217 bp):
CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGATCTCTGCAACTTCA
GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTACAACCTTAGGGAGATAGGATTATCAGCTT
TAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
TCAGGAGGATAAGACTTGCGTA
Found at i:10069695 original size:24 final size:24
Alignment explanation
Indices: 10069667--10069712 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10069657 ATCATTTTTT
* *
10069667 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
10069691 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
10069713 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:10078278 original size:44 final size:45
Alignment explanation
Indices: 10078214--10078316 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
10078204 ATTTCATGAT
* * *
10078214 TCGCCATAAAGGTAATACAGAATAC-ACCACAAAGGCTAAACAGAA
1 TCGCCACAAAGGCAAAACAGAAT-CTACCACAAAGGCTAAACAGAA
* *
10078259 T-GCCACAAAGGCAAAACAGAATCTGCCACAAAGGCTAAATAGAA
1 TCGCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAA
10078303 TGCGCCACAAAGGC
1 T-CGCCACAAAGGC
10078317 CAAGTAGAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 37 0.74
45 1 0.02
46 11 0.22
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.12
Consensus pattern (45 bp):
TCGCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAA
Found at i:10078331 original size:21 final size:22
Alignment explanation
Indices: 10078214--10078338 Score: 121
Period size: 23 Copynumber: 5.6 Consensus size: 22
10078204 ATTTCATGAT
*
10078214 TCGCCATAAAGG-TAATACAGAA
1 TCGCCACAAAGGCTAA-ACAGAA
*
10078236 TACACCACAAAGGCTAAACAGAA
1 T-CGCCACAAAGGCTAAACAGAA
*
10078259 T-GCCACAAAGGCAAAACAGAA
1 TCGCCACAAAGGCTAAACAGAA
*
10078280 TCTGCCACAAAGGCTAAATAGAA
1 TC-GCCACAAAGGCTAAACAGAA
* **
10078303 TGCGCCACAAAGGCCAAGTAGAA
1 T-CGCCACAAAGGCTAAACAGAA
*
10078326 -CGCCACCAAGGCT
1 TCGCCACAAAGGCT
10078339 TAGTGTTGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 30 0.34
22 1 0.01
23 53 0.60
24 4 0.05
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (22 bp):
TCGCCACAAAGGCTAAACAGAA
Found at i:10079221 original size:24 final size:24
Alignment explanation
Indices: 10079194--10079241 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10079184 AAGAGAACAT
10079194 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
10079218 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
10079242 AAGTAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAATTTTAAAAAGAAGAACTAGA
Found at i:10091738 original size:29 final size:29
Alignment explanation
Indices: 10091682--10091738 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10091672 ATCAGTTAAG
* *
10091682 TAAGGCTAGGATTTTATCAAAGATAGATC
1 TAAGGCTAGGATATTATCAAAGAAAGATC
*
10091711 TAAGGTCTA-GATATTATCAAATAAAGAT
1 TAAGG-CTAGGATATTATCAAAGAAAGAT
10091739 TAAAGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.32
Consensus pattern (29 bp):
TAAGGCTAGGATATTATCAAAGAAAGATC
Found at i:10093231 original size:46 final size:46
Alignment explanation
Indices: 10093127--10093232 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
10093117 GAAATGGGAT
* *
10093127 AAGCTCGAAACCTATTCTTGTATTCTCGAGTCCGCAACATATGCAA
1 AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
* * * * * *
10093173 GATCTTGGAACCTATTCTTATTTTCTTGAGTCAGCAACATATGCAA
1 AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
*
10093219 AAGCTCAAAACCTA
1 AAGCTCGAAACCTA
10093233 GGCAAAAGTC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (46 bp):
AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
Found at i:10093592 original size:15 final size:15
Alignment explanation
Indices: 10093572--10093602 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10093562 ACTAACCTTC
10093572 AAATTCATGCTTATA
1 AAATTCATGCTTATA
10093587 AAATTCATGCTTATA
1 AAATTCATGCTTATA
10093602 A
1 A
10093603 TCTTTTAATT
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:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATTCATGCTTATA
Found at i:10095358 original size:3 final size:3
Alignment explanation
Indices: 10095350--10095386 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10095340 TCTACATGAC
10095350 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10095387 ACATTTACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10104006 original size:31 final size:31
Alignment explanation
Indices: 10103970--10104039 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
10103960 TTCAAAATGG
*
10103970 TCAAATAAGAGCCA-AATCTTCTTGAAAGTGC
1 TCAAATAAGAGACACAA-CTTCTTGAAAGTGC
* * *
10104001 TCAAATAA-AGACACGACTTTTTGAAATTGC
1 TCAAATAAGAGACACAACTTCTTGAAAGTGC
10104031 TCAAATAAG
1 TCAAATAAG
10104040 GGCTTCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (31 bp):
TCAAATAAGAGACACAACTTCTTGAAAGTGC
Found at i:10112199 original size:26 final size:26
Alignment explanation
Indices: 10112161--10112235 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 26
10112151 GAGCCAAACC
**
10112161 AACAACCGTAGCTCACCAGGCCCACT
1 AACAACCCCAGCTCACCAGGCCCACT
** *
10112187 GGCAACCCCAGCT-ATCCAAGCCCACT
1 AACAACCCCAGCTCA-CCAGGCCCACT
** *
10112213 AATGACCCCAACTCACCAGGCCC
1 AACAACCCCAGCTCACCAGGCCC
10112236 CAAACTCCTA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.29, C:0.45, G:0.15, T:0.11
Consensus pattern (26 bp):
AACAACCCCAGCTCACCAGGCCCACT
Found at i:10118249 original size:20 final size:19
Alignment explanation
Indices: 10118221--10118258 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10118211 GCTCTCCATC
10118221 TCAAAATTTTTTTCCACTTT
1 TCAAAATTTTTTT-CACTTT
*
10118241 TCAACATTTTTTTCACTT
1 TCAAAATTTTTTTCACTT
10118259 AAATCCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (19 bp):
TCAAAATTTTTTTCACTTT
Found at i:10124088 original size:17 final size:16
Alignment explanation
Indices: 10124047--10124095 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
10124037 GAATATTTTT
10124047 ATAGATTATTAATTTG
1 ATAGATTATTAATTTG
* *
10124063 AGAAAATTAGTTAATTTG
1 A-TAGATTA-TTAATTTG
10124081 ATAGATTAATTAATT
1 ATAGATT-ATTAATT
10124096 AAGGGATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 1 0.04
17 15 0.58
18 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (16 bp):
ATAGATTATTAATTTG
Found at i:10126363 original size:104 final size:104
Alignment explanation
Indices: 10126247--10126840 Score: 744
Period size: 104 Copynumber: 5.7 Consensus size: 104
10126237 CAGCTAACGA
* * *
10126247 TTATTTGAGTTAGTTGATTTAATATCGCAACTCCAAACAGCTTGCTGACCTACGTTCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
10126312 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * ** * *
10126351 TTATTTTAGTTAGTTGATTTAAGATCGCAACT-CTGAACAGATTACTAACCTACGTTCACAGCCG
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCT-AACAGCTCGCTGACCTACGTTCACAGCTG
*
10126415 ATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGT
65 ATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * * *
10126455 TTATTTGAGTTAGTTGATTTAATATCGTAACTCCGAACAGCTCACTAACCTTCGTTCACAGTTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
* **
10126520 TATTATTAAGGTTAGCTTATTTAAGATTTCAACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * *
10126559 TTTTTTGAGTTAGCTAATTTAATATCGCAAATCCTAACAGCTCGTTGACCTACGTTCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
10126624 TATTATTAAGGTTAGCTAATTTAAGATCAG-AACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATC-GCAACCTAAGT
* * * **
10126663 TTATTTGAGTTTGTTGATTTAAGATTC-CAACTCCTAACAACTCGCTGACCTATGTTCACAATTG
1 TTATTTGAGTTAGTTGATTTAAGA-TCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTG
* * * *
10126727 ATATTATTCAGTTTAGCTGATTTAATATCGCAACCTAAGT
65 ATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * * * *
10126767 TTATTTGAGTTCGCTAATTTAAGATCACAACTCCTAACAGTTCGTTGATCTACGATCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
*
10126832 TATTTTTAA
66 TATTATTAA
10126841 AGTTTCCTCG
Statistics
Matches: 422, Mismatches: 62, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
103 4 0.01
104 415 0.98
105 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (104 bp):
TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
Found at i:10133020 original size:16 final size:18
Alignment explanation
Indices: 10132981--10133024 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
10132971 TTGAATTTTA
*
10132981 AATATTTTTCATAAATAT
1 AATATTTTTCAAAAATAT
10132999 CAATATTTTT-AAAAATAT
1 -AATATTTTTCAAAAATAT
10133017 -ATATTTTT
1 AATATTTTT
10133025 TATGCAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
AATATTTTTCAAAAATAT
Found at i:10138468 original size:21 final size:21
Alignment explanation
Indices: 10138438--10138477 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10138428 GAGTGAAAAT
*
10138438 ACCTTCGATGTCACGACACTA
1 ACCTTCGATGTCACAACACTA
*
10138459 ACCTTTGATGTCACAACAC
1 ACCTTCGATGTCACAACAC
10138478 CGGACTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (21 bp):
ACCTTCGATGTCACAACACTA
Found at i:10140771 original size:45 final size:46
Alignment explanation
Indices: 10140581--10140833 Score: 388
Period size: 46 Copynumber: 5.6 Consensus size: 46
10140571 TTTGAGTACT
10140581 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10140627 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * * *
10140673 TTTGATCAAGTAACAAAGTGATAACTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10140719 TATGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10140764 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10140809 TCTAATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
10140834 ATCATATATA
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 62 0.32
46 114 0.59
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:10147823 original size:46 final size:46
Alignment explanation
Indices: 10147756--10147965 Score: 318
Period size: 46 Copynumber: 4.6 Consensus size: 46
10147746 TTTGAGTACT
*
10147756 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
10147802 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* * *
10147848 TTTGATCAAGTAACAAAGTGATAACTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
10147894 TCTGATCAAGTGACAAAGTGATAAGTGACAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
*
10147939 TCTGATC-AGGGAC-AAGTGATAAGTGAT
1 TCTGATCAAGTGACAAAGTGATAAGTGAT
10147966 CATATATAAG
Statistics
Matches: 151, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
43 13 0.09
44 5 0.03
45 19 0.13
46 114 0.75
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:10150563 original size:58 final size:55
Alignment explanation
Indices: 10150439--10150608 Score: 173
Period size: 57 Copynumber: 3.0 Consensus size: 55
10150429 CCATATAAAT
* * * **
10150439 AAGACTTTGTGGCTATCTTTGTTAAAGGAAGACTTTGTGGCGATCTCTGCTATAAGG
1 AAGACTTTGTGGCTATCTATGTTAAAGGAAG-CTTTGTGGCTATCTCTGTTA-AAAA
* *
10150496 AAGACTTTGTGGCGATCTATGTTATAAGGAAGCCTTAGTGGCTATCTCTGTTAAAAA
1 AAGACTTTGTGGCTATCTATGTTA-AAGGAAG-CTTTGTGGCTATCTCTGTTAAAAA
* *
10150553 AATG-CATTTGTGGCTATCTCA-GTTAAATGGATGCTTTGTGGCTATCTTTGTTAAAA
1 AA-GAC-TTTGTGGCTATCT-ATGTTAAA-GGAAGCTTTGTGGCTATCTCTGTTAAAA
10150609 TGATGCTTAC
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
57 50 0.52
58 45 0.47
59 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (55 bp):
AAGACTTTGTGGCTATCTATGTTAAAGGAAGCTTTGTGGCTATCTCTGTTAAAAA
Found at i:10150610 original size:29 final size:29
Alignment explanation
Indices: 10150439--10150608 Score: 168
Period size: 29 Copynumber: 5.9 Consensus size: 29
10150429 CCATATAAAT
*
10150439 AAGACTTTGTGGCTATCTTTGTT-AAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
10150467 AAGACTTTGTGGCGATCTCTGCTATAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
10150496 AAGACTTTGTGGCGATCTATGTTATAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
10150525 AAGCCTTAGTGGCTATCTCTGTTAAAA-A
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* *
10150553 AATG-CATTTGTGGCTATCTCAGTTAAATGG
1 AA-GAC-TTTGTGGCTATCTCTGTTAAAAGG
* *
10150583 ATG-CTTTGTGGCTATCTTTGTTAAAA
1 AAGACTTTGTGGCTATCTCTGTTAAAA
10150609 TGATGCTTAC
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 42 0.36
29 75 0.64
30 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
AAGACTTTGTGGCTATCTCTGTTAAAAGG
Found at i:10159400 original size:6 final size:6
Alignment explanation
Indices: 10159389--10159415 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10159379 GATTGGTTTA
10159389 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
10159416 AAGATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:10163937 original size:9 final size:9
Alignment explanation
Indices: 10163918--10163947 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10163908 AACTAAATTT
10163918 TAAAG-GTA
1 TAAAGTGTA
10163926 TAAAGTGTA
1 TAAAGTGTA
10163935 TAAAGTGTA
1 TAAAGTGTA
10163944 TAAA
1 TAAA
10163948 ATATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (9 bp):
TAAAGTGTA
Found at i:10169007 original size:6 final size:6
Alignment explanation
Indices: 10168998--10169034 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10168988 ATTATAAATG
* *
10168998 TTTTTG TTTTTG TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
10169035 ATTTCTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:10169794 original size:18 final size:18
Alignment explanation
Indices: 10169771--10169806 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10169761 TTACTATTTT
*
10169771 ATATTTTTCATGAATTAA
1 ATATTTATCATGAATTAA
*
10169789 ATATTTATGATGAATTAA
1 ATATTTATCATGAATTAA
10169807 CTTAATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (18 bp):
ATATTTATCATGAATTAA
Found at i:10172917 original size:150 final size:149
Alignment explanation
Indices: 10172654--10172933 Score: 348
Period size: 150 Copynumber: 1.9 Consensus size: 149
10172644 GATAATAACA
* *
10172654 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATGTTTCCTGTACTGCCAATGCCATATCC
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATCTTTCCTGTACTGCCAACGCCATATCC
* * ** * * **
10172719 CAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGACATGGTCTTAC
66 CAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTAC
10172784 GGGGGACCTCTCATCTTAG
131 GGGGGACCTCTCATCTTAG
* * ** * *
10172803 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTAT-CT-TGGTGCCAACGTCATG
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGA--TCTT-TCCTGTACTGCCAACGCCATA
* * *
10172866 TCCTAAACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACACCATGTCCCAGACATGGTCT
63 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCT
10172931 TAC
128 TAC
10172934 ATGGTATCTC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
149 35 0.32
150 68 0.62
151 5 0.05
152 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (149 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATCTTTCCTGTACTGCCAACGCCATATCC
CAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTAC
GGGGGACCTCTCATCTTAG
Found at i:10172945 original size:50 final size:50
Alignment explanation
Indices: 10172654--10172937 Score: 304
Period size: 50 Copynumber: 5.7 Consensus size: 50
10172644 GATAATAACA
* * * * **
10172654 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGA--TGTT-TCCTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAT-CT-TGG
* * * ** * *
10172703 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
* * ** * *
10172753 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
*
10172803 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
* * * *
10172853 TGCCAACGTCATGTCCTAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
*
10172903 TGCCAACACCATGTCCCAGACATGGTCTTACATGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
10172938 TATCTCTTTA
Statistics
Matches: 199, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 34 0.17
50 161 0.81
51 3 0.02
52 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
Found at i:10177650 original size:6 final size:6
Alignment explanation
Indices: 10177639--10177666 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10177629 ATATTTTTTT
10177639 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
10177667 ATTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:10179431 original size:68 final size:67
Alignment explanation
Indices: 10179312--10179608 Score: 274
Period size: 68 Copynumber: 4.4 Consensus size: 67
10179302 AAATTTAATG
* * * * *
10179312 TGTATGACCATAGCTTGGCTATAGTAACAAAAGGAGTCTACCAGGATGTTAAACATGAGTTCCTA
1 TGTAAGACCATAGCTCGGCTATGGCAAC-AAAGGAGTCTACCAAGATGTTAAACATGAGTTCCTA
10179377 CTA
65 CTA
* * * * * *
10179380 TGTAAGACCATAGCTTGGCAATGGCAACAAATGGAGTCTGCTAAGACGTTAAACATGGGTTCCTA
1 TGTAAGACCATAGCTCGGCTATGGCAACAAA-GGAGTCTACCAAGATGTTAAACATGAGTTCCTA
*
10179445 CTG
65 CTA
* * ** * *
10179448 TGTAAAACCATAGCTCGGTTATGGCAACAAAGGGAGTCTATTAGGATGTTAAACAT-AGGTTCTT
1 TGTAAGACCATAGCTCGGCTATGGCAACAAA-GGAGTCTACCAAGATGTTAAACATGA-GTTCCT
* *
10179512 ATTG
64 ACTA
* * * * *
10179516 TGTAAGACCATAACTCGACTATGGCAACAAAGAGAGT-TCGCCAAGATGTTAAACATGGGTTCAT
1 TGTAAGACCATAGCTCGGCTATGGCAACAAAG-GAGTCT-ACCAAGATGTTAAACATGAGTTCCT
10179580 ACTA
64 ACTA
* * *
10179584 TATAAGAACATAGCTCGGATATGGC
1 TGTAAGACCATAGCTCGGCTATGGC
10179609 GTCAGGTAAA
Statistics
Matches: 185, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
67 5 0.03
68 180 0.97
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (67 bp):
TGTAAGACCATAGCTCGGCTATGGCAACAAAGGAGTCTACCAAGATGTTAAACATGAGTTCCTAC
TA
Done.