Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 73
Found at i:11628046 original size:29 final size:30
Alignment explanation
Indices: 11628014--11628081 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
11628004 TAAAAAACAA
11628014 AAAAAAAAAAAATATATATTATATAT-TCT
1 AAAAAAAAAAAATATATATTATATATATCT
* * *
11628043 AAAAATAAAAACTATATATTATATATATTT
1 AAAAAAAAAAAATATATATTATATATATCT
11628073 AAAAAAAAA
1 AAAAAAAAA
11628082 TTCAAGAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAAAAAAAAATATATATTATATATATCT
Found at i:11628047 original size:31 final size:32
Alignment explanation
Indices: 11628012--11628107 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 32
11628002 AATAAAAAAC
11628012 AAAAAAAAAAAAAATATATATTATATAT-TCT
1 AAAAAAAAAAAAAATATATATTATATATATCT
* * *
11628043 --AAAAATAAAAACTATATATTATATATATTT
1 AAAAAAAAAAAAAATATATATTATATATATCT
11628073 AAAAAAAAATTCAAGAAACTATATATTATATATAT
1 AAAAAAAAA---AA-AAA-TATATATTATATATAT
11628108 ATTTTCAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
29 24 0.46
30 2 0.04
32 6 0.12
35 2 0.04
36 2 0.04
37 16 0.31
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (32 bp):
AAAAAAAAAAAAAATATATATTATATATATCT
Found at i:11628145 original size:38 final size:37
Alignment explanation
Indices: 11628048--11628410 Score: 288
Period size: 38 Copynumber: 9.9 Consensus size: 37
11628038 ATTCTAAAAA
* ****
11628048 TAAAAACTATATATTATATATA-TTTAAAAAAAAATT
1 TAAAAACTATATATTATATATATTTTCAAAATGTTTT
*
11628084 CAAGAAACTATATATTATATATATATTTTCAAAATGTTTTT
1 TAA-AAACTATATA-T-TATATATATTTTCAAAATG-TTTT
*
11628125 TAAAAACTATATATTATATATATATTTTCAAAATATTTT
1 TAAAAACTATATA-T-TATATATATTTTCAAAATGTTTT
*
11628164 TAAAAA--ACTATATTATATATA---T--ATATG-TTT
1 TAAAAACTA-TATATTATATATATTTTCAAAATGTTTT
* * * * *
11628194 TCAAAACTATATAATATATTTTTTTTTAAAAATGTTTT
1 TAAAAACTATATATTATA-TATATTTTCAAAATGTTTT
* *
11628232 CAAAAACTATATATTATATATATGTTTTAAAAATGTTTT
1 TAAAAACTATATATTATATATA--TTTTCAAAATGTTTT
* *
11628271 CT-AAACCTATATATTATATATATTTTCGAAAACGTTTT
1 -TAAAAACTATATATTATATATATTTTC-AAAATGTTTT
* * *
11628309 CAAAAACTATATATTATATATGTTTTCAAGAA--ATTT
1 TAAAAACTATATATTATATATATTTTCAA-AATGTTTT
*
11628345 TCAAAACTATATA--ATATATATTTTCAAAATG-TTT
1 TAAAAACTATATATTATATATATTTTCAAAATGTTTT
* * *
11628379 TCAAAACTATATAATATATATATTTTCGAAAT
1 TAAAAACTATATATTATATATATTTTCAAAAT
11628411 CTGCTTCCTA
Statistics
Matches: 270, Mismatches: 32, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.03
31 11 0.04
32 3 0.01
33 3 0.01
34 29 0.11
35 1 0.00
36 40 0.15
37 24 0.09
38 57 0.21
39 52 0.19
40 38 0.14
41 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (37 bp):
TAAAAACTATATATTATATATATTTTCAAAATGTTTT
Found at i:11628185 original size:42 final size:40
Alignment explanation
Indices: 11628049--11628199 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
11628039 TTCTAAAAAT
* * ** *
11628049 AAAAACTATATA-T-TATATATA-TTTAAAAAAAAATTCA
1 AAAAACTATATATTATATATATATTTTCAAAATATTTTTA
* * *
11628086 AGAAACTATATATTATATATATATTTTCAAAATGTTTTTT
1 AAAAACTATATATTATATATATATTTTCAAAATATTTTTA
11628126 AAAAACTATATATTATATATATATTTTCAAAATATTTTTA
1 AAAAACTATATATTATATATATATTTTCAAAATATTTTTA
*
11628166 AAAAACTATATTATATATATATATGTTTTCAAAA
1 AAAAACTATA-TAT-TATATATATATTTTCAAAA
11628200 CTATATAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
37 11 0.11
38 1 0.01
39 8 0.08
40 56 0.58
41 3 0.03
42 18 0.19
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (40 bp):
AAAAACTATATATTATATATATATTTTCAAAATATTTTTA
Found at i:11628189 original size:29 final size:27
Alignment explanation
Indices: 11628157--11628225 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
11628147 TATTTTCAAA
11628157 ATATTTTTAAAAAACTATATTATATATAT
1 ATATTTTTAAAAAACTATA-TA-ATATAT
*
11628186 ATATGTTTT-CAAAACTATATAATATAT
1 ATAT-TTTTAAAAAACTATATAATATAT
* *
11628213 TTTTTTTTAAAAA
1 ATATTTTTAAAAA
11628226 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.12
27 11 0.32
28 2 0.06
29 13 0.38
30 4 0.12
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (27 bp):
ATATTTTTAAAAAACTATATAATATAT
Found at i:11628237 original size:67 final size:66
Alignment explanation
Indices: 11628122--11628264 Score: 191
Period size: 67 Copynumber: 2.1 Consensus size: 66
11628112 TCAAAATGTT
11628122 TTTTAAAAACTATATATTATATATATATTTTCAAAATATTTTTAAAAAACTATATTATATATATA
1 TTTTAAAAACTATATA-TATATATATATTTTCAAAATATTTTTAAAAAACTATA-TAT-TATATA
11628187 TATG
63 TATG
* * * * *
11628191 TTTTCAAAACTATATA-ATATATTTTTTTTTAAAA-ATGTTTTCAAAAACTATATATTATATATA
1 TTTTAAAAACTATATATATATATATATTTTCAAAATAT-TTTTAAAAAACTATATATTATATATA
11628254 TG
65 TG
11628256 TTTTAAAAA
1 TTTTAAAAA
11628265 TGTTTTCTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
65 18 0.27
66 5 0.07
67 29 0.43
69 15 0.22
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (66 bp):
TTTTAAAAACTATATATATATATATATTTTCAAAATATTTTTAAAAAACTATATATTATATATAT
G
Found at i:11628320 original size:108 final size:106
Alignment explanation
Indices: 11628101--11628409 Score: 275
Period size: 108 Copynumber: 2.9 Consensus size: 106
11628091 CTATATATTA
* * *
11628101 TATATATATTTTCAAAATGTTTTTTAAAAACTATATATTATATATATATTTTCAAAATAT-TTTT
1 TATATATGTTTTAAAAATG-TTTTCAAAAACTATATATTATATATAT-TTTT-AAAA-ATGTTTT
* *
11628165 AAAAAACTATATTATATATATATATGTTTTC-AAAACTAT-ATAATATAT
62 -CAAAACTATA-TAT-TATATATA--TTTTCGAAAACTATAAAAATATAT
11628213 T-T-T-T-TTTTAAAAATGTTTTCAAAAACTATATATTATATATATGTTTTAAAAATGTTTTCTA
1 TATATATGTTTTAAAAATGTTTTCAAAAACTATATATTATATATAT-TTTTAAAAATGTTTTC-A
* *
11628274 AACCTATATATTATATATATTTTCGAAAACGTTTTCAAAAACTATATAT
64 AAACTATATATTATATATATTTTCGAAAAC--TAT--AAAA--ATATAT
*
11628323 TATATATGTTTTCAAGAAA--TTTTC-AAAACTATATA--ATATATA-TTTTCAAAATGTTTTCA
1 TATATATGTTTT-AA-AAATGTTTTCAAAAACTATATATTATATATATTTTTAAAAATGTTTTCA
*
11628382 AAACTATATAATATATATATTTTCGAAA
64 AAACTATATATTATATATATTTTCGAAA
11628410 TCTGCTTCCT
Statistics
Matches: 171, Mismatches: 10, Indels: 36
0.79 0.05 0.17
Matches are distributed among these distances:
102 5 0.03
103 5 0.03
104 8 0.05
105 7 0.04
106 16 0.09
107 30 0.18
108 39 0.23
109 16 0.09
110 8 0.05
111 9 0.05
112 2 0.01
113 12 0.07
114 9 0.05
115 2 0.01
116 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (106 bp):
TATATATGTTTTAAAAATGTTTTCAAAAACTATATATTATATATATTTTTAAAAATGTTTTCAAA
ACTATATATTATATATATTTTCGAAAACTATAAAAATATAT
Found at i:11628514 original size:16 final size:16
Alignment explanation
Indices: 11628493--11628527 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11628483 ACATATATAA
*
11628493 AAAATAATATAAAAAC
1 AAAATAAAATAAAAAC
11628509 AAAATAAAATAAAAAC
1 AAAATAAAATAAAAAC
11628525 AAA
1 AAA
11628528 TCCAGACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAAAC
Found at i:11636350 original size:17 final size:17
Alignment explanation
Indices: 11636328--11636367 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
11636318 AGACCGAACA
11636328 TTATGTTTAGTGTTTGC
1 TTATGTTTAGTGTTTGC
11636345 TTATGTTTAGTGTTTGC
1 TTATGTTTAGTGTTTGC
11636362 TTATGT
1 TTATGT
11636368 GATAGATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (17 bp):
TTATGTTTAGTGTTTGC
Found at i:11647756 original size:36 final size:36
Alignment explanation
Indices: 11647716--11647786 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
11647706 ATGAGATTGT
* *
11647716 TTTCTCTAGAAACAAATTTTGTCTCGCTTGAGACAA
1 TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACAA
*
11647752 TTTCTCTCGAAACAAATTTTATCTCGCTAGAGACA
1 TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACA
11647787 GTTTTCCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACAA
Found at i:11648175 original size:21 final size:20
Alignment explanation
Indices: 11648127--11648219 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
11648117 AAAAATCTTG
*
11648127 AGTTTGTTTCCCTTGAAACA
1 AGTTTGTCTCCCTTGAAACA
*
11648147 AGTTTGTCTCCCTTGAACCA
1 AGTTTGTCTCCCTTGAAACA
*
11648167 AGTTTTGTCTCCCTTGAGAC-
1 AG-TTTGTCTCCCTTGAAACA
11648187 AG-TT-TCT--CTTGAAACA
1 AGTTTGTCTCCCTTGAAACA
*
11648203 AGTTTTGTCTCTCTTGA
1 AG-TTTGTCTCCCTTGA
11648220 GATAGTTTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.11
16 2 0.03
17 3 0.05
18 4 0.07
19 3 0.05
20 22 0.36
21 20 0.33
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (20 bp):
AGTTTGTCTCCCTTGAAACA
Found at i:11648205 original size:36 final size:36
Alignment explanation
Indices: 11648158--11648236 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
11648148 GTTTGTCTCC
*
11648158 CTTGAACCAAGTTTTGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
* *
11648194 CTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCT
1 CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
*
11648230 CTGGAAA
1 CTTGAAA
11648237 TATTATTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (36 bp):
CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
Found at i:11651841 original size:225 final size:227
Alignment explanation
Indices: 11651449--11651900 Score: 890
Period size: 225 Copynumber: 2.0 Consensus size: 227
11651439 GATCGGGTAC
11651449 TTGGCAATTCGATGTTTACTCTACTGTGATTTGTCAAGTCAAATACTTTGTGACAACATGAATCC
1 TTGGCAATTCGATGTTTACTCTACTGTGATTTGTCAAGTCAAATACTTTGTGACAACATGAATCC
11651514 TTCAGCTATCCAGATAAAGGAAGTTATAAAATATATATGTACAATAAAGATGAATTCTGCTAGCC
66 TTCAGCTATCCAGATAAAGGAAGTTATAAAATATATATGTACAATAAAGATGAATTCTGCTAGCC
11651579 AAACAATGGCAAATTAAATCAAATTTACTAAATAAGGATTTTCGATGAATATGGACTAAGGGAGT
131 AAACAATGGCAAATTAAATCAAATTTACTAAATAAGGATTTTCGATGAATATGGACTAAGGGAGT
11651644 TGAGGAACA-TTGTTATAGTCGAATTCACACA
196 TGAGGAACACTTGTTATAGTCGAATTCACACA
11651675 TTGGCAATTCGATGTTTACTCTACTGTGATTTGTCAAGTC-AATACTTTGTGACAACATGAATCC
1 TTGGCAATTCGATGTTTACTCTACTGTGATTTGTCAAGTCAAATACTTTGTGACAACATGAATCC
11651739 TTCAGCTATCCAGATAAAGGAAGTTATAAAATATATATGTACAATAAAGATGAATTCTGCTAGCC
66 TTCAGCTATCCAGATAAAGGAAGTTATAAAATATATATGTACAATAAAGATGAATTCTGCTAGCC
11651804 AAACAATGGCAAATTAAATCAAATTTACTAAATAAGGATTTTCGATGAATATGGACTAAGGGAGT
131 AAACAATGGCAAATTAAATCAAATTTACTAAATAAGGATTTTCGATGAATATGGACTAAGGGAGT
11651869 TGAGGAACACTTGTTATAGTCGAATTCACACA
196 TGAGGAACACTTGTTATAGTCGAATTCACACA
11651901 AGCACTCAGG
Statistics
Matches: 225, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
225 163 0.72
226 62 0.28
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (227 bp):
TTGGCAATTCGATGTTTACTCTACTGTGATTTGTCAAGTCAAATACTTTGTGACAACATGAATCC
TTCAGCTATCCAGATAAAGGAAGTTATAAAATATATATGTACAATAAAGATGAATTCTGCTAGCC
AAACAATGGCAAATTAAATCAAATTTACTAAATAAGGATTTTCGATGAATATGGACTAAGGGAGT
TGAGGAACACTTGTTATAGTCGAATTCACACA
Found at i:11653170 original size:36 final size:36
Alignment explanation
Indices: 11653130--11653200 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
11653120 ATGAGATTGT
* *
11653130 TTTCTCTAGAAACAAATTTTGTCTCGCTTGAGACAA
1 TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACAA
*
11653166 TTTCTCTCGAAACAAATTTTATCTCGCTAGAGACA
1 TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACA
11653201 GTTTTCCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TTTCTCTAGAAACAAATTTTATCTCGCTAGAGACAA
Found at i:11653491 original size:38 final size:36
Alignment explanation
Indices: 11653411--11653494 Score: 109
Period size: 35 Copynumber: 2.3 Consensus size: 36
11653401 GTTTTACTTG
* * *
11653411 AAACA-AAATTAATCTCACTTGAAATTTTTTCTTTC
1 AAACACAAATTCATCTCACTTGAAAATTTTTCTTTA
11653446 AAA-ACAAATTCATCTCACTTGAGATAATTTTTCTTTA
1 AAACACAAATTCATCTCACTTGA-A-AATTTTTCTTTA
11653483 AAACACAAATTC
1 AAACACAAATTC
11653495 GAAAATTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 1 0.02
35 19 0.45
36 1 0.02
37 13 0.31
38 8 0.19
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (36 bp):
AAACACAAATTCATCTCACTTGAAAATTTTTCTTTA
Found at i:11653580 original size:101 final size:102
Alignment explanation
Indices: 11653383--11653594 Score: 218
Period size: 101 Copynumber: 2.1 Consensus size: 102
11653373 TTTTCCCCAG
** * * ** * *
11653383 AACACAAATTTTAAAGTTGTTTTACTTGAAACAAAATTAATCTCACTTGAAATTTTTTCTTTCAA
1 AACACAAATTCGAAAATTGTTTCACTTGAAACAAAATTAAAATCACTTGAAATTTTTCCCTTCAA
*
11653448 AACAAATTCATCTCACTTGAGATAATTTTTCT-TTAA
66 AACAAATTCATCTCACTTGAGATAATGTTTCTCTTAA
*
11653484 AACACAAATTCGAAAATTGTTTCACTTGAAACAAAATTGACAAATC-CTTGATATTGTTTCCCTT
1 AACACAAATTCGAAAATTGTTTCACTTGAAACAAAATT-A-AAATCACTTGAAATT-TTTCCCTT
** * *
11653548 -AAAACAAATTTTGTCTCCCTTGAGAT-A-GTTTCTCTTGA
63 CAAAACAAA-TTCATCTCACTTGAGATAATGTTTCTCTTAA
*
11653586 AACAAAAAT
1 AACACAAAT
11653595 CTTTGAGTCT
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
101 39 0.43
102 29 0.32
103 23 0.25
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (102 bp):
AACACAAATTCGAAAATTGTTTCACTTGAAACAAAATTAAAATCACTTGAAATTTTTCCCTTCAA
AACAAATTCATCTCACTTGAGATAATGTTTCTCTTAA
Found at i:11653640 original size:67 final size:67
Alignment explanation
Indices: 11653537--11653770 Score: 337
Period size: 67 Copynumber: 3.5 Consensus size: 67
11653527 ATCCTTGATA
*
11653537 TTGTTTCCCTTAAAACAAA-TTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGA
11653601 GT
66 GT
* * * * * * *
11653603 CTATTTCCTTTGAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTCGAAATAAAAAGCTTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGA
11653668 GT
66 GT
* * * * *
11653670 TTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGGAACAAAAATCTTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGA
11653735 GT
66 GT
11653737 TTGTTTCCCTTGAAAC-AAGTTTTGTCTCCCTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGA
11653771 ACCAAGTTTT
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
66 32 0.22
67 116 0.78
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (67 bp):
TTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGA
GT
Found at i:11653761 original size:21 final size:21
Alignment explanation
Indices: 11653736--11653827 Score: 106
Period size: 21 Copynumber: 4.7 Consensus size: 21
11653726 AATCTTTGAG
*
11653736 TTTGTTTCCCTTGAAACAAGT
1 TTTGTCTCCCTTGAAACAAGT
*
11653757 TTTGTCTCCCTTGAACCAAGT
1 TTTGTCTCCCTTGAAACAAGT
*
11653778 TTTGTCTCCCTTGAGAC-AG-
1 TTTGTCTCCCTTGAAACAAGT
11653797 -TT-TCT--CTTGAAACAAGT
1 TTTGTCTCCCTTGAAACAAGT
*
11653814 TTTGTCTCTCTTGA
1 TTTGTCTCCCTTGA
11653828 GATAGTTTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.12
16 2 0.03
17 3 0.05
18 4 0.07
19 3 0.05
20 2 0.03
21 39 0.65
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTGTCTCCCTTGAAACAAGT
Found at i:11653813 original size:36 final size:36
Alignment explanation
Indices: 11653766--11653844 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
11653756 TTTTGTCTCC
*
11653766 CTTGAACCAAGTTTTGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
* *
11653802 CTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCT
1 CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
*
11653838 CTGGAAA
1 CTTGAAA
11653845 TATTATCCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (36 bp):
CTTGAAACAAGTTTTGTCTCCCTTGAGACAGTTTCT
Found at i:11654091 original size:134 final size:134
Alignment explanation
Indices: 11653846--11654247 Score: 536
Period size: 134 Copynumber: 3.0 Consensus size: 134
11653836 CTCTGGAAAT
* * * * * *
11653846 ATTATCCTTAAAGACGGCCAGCCGTTCTCATCACGTAGAAACTGTGTCATCCACCAACCAGATCT
1 ATTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * * *
11653911 CCTCATCACATTA-GAGTCGCGTCAACCTTAGATAACCAACCGTCCTCATCACGTAGGAACTGTG
66 CCTCATCAC-GTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCCTCATCACGTAGGAACTGTG
11653975 TTATC
130 TTATC
* * * * *
11653980 ATTATCCCTAAAGATGGTCAGCCATCCTCATCATGTAGGAACCGTTTCATCTACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * *
11654045 CATCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCCTCATCATGTAGGAACCGTGC
66 CCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCCTCATCACGTAGGAACTGTGT
11654110 TATC
131 TATC
* * * *
11654114 ATCATCCCTAAAGATGGCCAGCCGTCCTCATCGCGTAGGAGCCGTGTCATCCACCGACCAAATCT
1 ATTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * *
11654179 CCTCATCACGTAGGAGCTGTGTCAGCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACTGTGT
66 CCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCCTCATCACGTAGGAACTGTGT
11654244 TATC
131 TATC
11654248 TCCATTTACT
Statistics
Matches: 230, Mismatches: 37, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
133 2 0.01
134 228 0.99
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (134 bp):
ATTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
CCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCCTCATCACGTAGGAACTGTGT
TATC
Found at i:11654094 original size:43 final size:43
Alignment explanation
Indices: 11654047--11654236 Score: 118
Period size: 43 Copynumber: 4.3 Consensus size: 43
11654037 CCAGATCTCA
*
11654047 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCTTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACTTCC
* * * ** * *
11654090 TCATCATGTAGGAACCGTGCTATCATCATCCCTAAAGATGGCCAGCCGTCC
1 TCATCACGTAGGAGCCGTG---TCA--A--CCT-TAGATAACCAGACTTCC
* * *** *
11654141 TCATCGCGTAGGAGCCGTGTCATCC--A-CCGACCA-AATCTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACT-TCC
* * *
11654181 TCATCACGTAGGAGCTGTGTCAGCCTTAGATAGCCAGACTTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACTTCC
11654224 TCATCACGTAGGA
1 TCATCACGTAGGA
11654237 ACTGTGTTAT
Statistics
Matches: 110, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
40 29 0.26
41 1 0.01
42 1 0.01
43 36 0.33
44 4 0.04
46 3 0.03
48 4 0.04
50 3 0.03
51 29 0.26
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (43 bp):
TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACTTCC
Found at i:11654498 original size:3 final size:3
Alignment explanation
Indices: 11654441--11654487 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
11654431 TCTATGTTTG
* * * *
11654441 TTA TT- TTA ATA TTA TTA TTG CTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11654488 AATAATTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11670147 original size:83 final size:83
Alignment explanation
Indices: 11669983--11670154 Score: 335
Period size: 83 Copynumber: 2.1 Consensus size: 83
11669973 TTGTTTTGCG
11669983 TATGGTTTACTTTTCATTTACTCCTTAATGTTTCCGGTTTAGTTATTTTAGTCCGTAAACATTAT
1 TATGGTTTACTTTTCATTTACTCCTTAATGTTTCCGGTTTAGTTATTTTAGTCCGTAAACATTAT
11670048 TTATGAGTTATTTTAGTT
66 TTATGAGTTATTTTAGTT
11670066 TATGGTTTACTTTTCATTTACTCCTTAATGTTTCCGGTTTAGTTATTTTAGTCCGTAAACATTAT
1 TATGGTTTACTTTTCATTTACTCCTTAATGTTTCCGGTTTAGTTATTTTAGTCCGTAAACATTAT
11670131 TTATGAGTTATTTTAGTT
66 TTATGAGTTATTTTAGTT
*
11670149 TTTGGT
1 TATGGT
11670155 ACCTATATTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 88 1.00
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (83 bp):
TATGGTTTACTTTTCATTTACTCCTTAATGTTTCCGGTTTAGTTATTTTAGTCCGTAAACATTAT
TTATGAGTTATTTTAGTT
Found at i:11681732 original size:18 final size:17
Alignment explanation
Indices: 11681710--11681750 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11681700 GACCCGAACT
11681710 ATTGACCTGACCCGACCC
1 ATTGACCTGA-CCGACCC
* *
11681728 GTTGACTTGACCGACCC
1 ATTGACCTGACCGACCC
11681745 ATTGAC
1 ATTGAC
11681751 TTTCGTCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (17 bp):
ATTGACCTGACCGACCC
Found at i:11681743 original size:17 final size:18
Alignment explanation
Indices: 11681700--11681752 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
11681690 GGCCTAACCC
* * *
11681700 GACCCGAACTATTGACCT
1 GACCCGACCCATTGACTT
*
11681718 GACCCGACCCGTTGACTT
1 GACCCGACCCATTGACTT
11681736 GA-CCGACCCATTGACTT
1 GACCCGACCCATTGACTT
11681753 TCGTCAGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.23
Consensus pattern (18 bp):
GACCCGACCCATTGACTT
Found at i:11689349 original size:22 final size:22
Alignment explanation
Indices: 11689323--11689403 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
11689313 ATAGGGCAGA
*
11689323 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
*
11689345 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
*
11689368 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
11689387 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
11689404 GAGGGTTCTG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.30
21 1 0.02
22 14 0.26
23 22 0.42
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:11689365 original size:23 final size:23
Alignment explanation
Indices: 11689323--11689384 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
11689313 ATAGGGCAGA
* *
11689323 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
11689345 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
11689368 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
11689385 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:11695144 original size:18 final size:18
Alignment explanation
Indices: 11695121--11695156 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11695111 AGATGTTCTT
*
11695121 GAGTCCTAGTTAAGTTAA
1 GAGTCCTAGCTAAGTTAA
11695139 GAGTCCTAGCTAAGTTAA
1 GAGTCCTAGCTAAGTTAA
11695157 TTTTATCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTCCTAGCTAAGTTAA
Found at i:11697356 original size:19 final size:20
Alignment explanation
Indices: 11697309--11697356 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
11697299 AACCGCTAAA
* *
11697309 GAACCGGTAGAACCGGTTGG
1 GAACCGGCAAAACCGGTTGG
* *
11697329 GAACAGGCAAAACCGG-TGT
1 GAACCGGCAAAACCGGTTGG
11697348 GAACCGGCA
1 GAACCGGCA
11697357 GTTCAAGCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.10
Consensus pattern (20 bp):
GAACCGGCAAAACCGGTTGG
Found at i:11697623 original size:2 final size:2
Alignment explanation
Indices: 11697616--11697669 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
11697606 AACAGTGCTG
** *
11697616 TA TA TA TA TA TA TA TA TA T- TA TA CC T- TT TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11697655 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
11697670 TGCTTTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11697758 original size:8 final size:8
Alignment explanation
Indices: 11697745--11697769 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11697735 TAACCACGGT
11697745 TGAACCAG
1 TGAACCAG
11697753 TGAACCAG
1 TGAACCAG
11697761 TGAACCAG
1 TGAACCAG
11697769 T
1 T
11697770 ACCTTCACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (8 bp):
TGAACCAG
Found at i:11698305 original size:60 final size:59
Alignment explanation
Indices: 11698173--11698322 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
11698163 TATATACATT
* * * * * *
11698173 TAGTTTGGGATAAAATTGGAATGTTCAAAAAATTTGGGAACTAATTTAGAATGAATGTCA
1 TAGTTTAGGATGAAATTGAAATATTC-AAAAATTTGAGAACTAATTTAGAATGAATATCA
* * *
11698233 TAGTTTGGGATGAAATTGAAATATTCAAAAGTTTGAGAATTAATTTAGAATG-ATAATCA
1 TAGTTTAGGATGAAATTGAAATATTCAAAAATTTGAGAACTAATTTAGAATGAAT-ATCA
*
11698292 TAGTTTAAGGATGAAATTAGAAA-ATTTAAAA
1 TAGTTT-AGGATGAAATT-GAAATATTCAAAA
11698323 TTTTAGGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.03
59 32 0.41
60 40 0.51
61 4 0.05
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.34
Consensus pattern (59 bp):
TAGTTTAGGATGAAATTGAAATATTCAAAAATTTGAGAACTAATTTAGAATGAATATCA
Found at i:11699668 original size:30 final size:30
Alignment explanation
Indices: 11699617--11699991 Score: 281
Period size: 30 Copynumber: 12.6 Consensus size: 30
11699607 TTAATTTTGC
* *
11699617 ATCTTAACATTA-AAATTATATTTTATTTTT
1 ATCTTAAC-TTATAAAATATATTTTATTCTT
* * * *
11699647 ATATCAATTTATTAAATATATTTTATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
*
11699677 ATCTTAACCTA-AAAATATATTTTATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* *
11699706 ATTTTAACTTA-AAAATATATTTTAGTCTTT
1 ATCTTAACTTATAAAATATATTTTATTC-TT
* *
11699736 ATCTTAACTTAAAAAAATATATTTTATTTTT
1 ATCTTAACTT-ATAAAATATATTTTATTCTT
* * *
11699767 ATCTTAACTTATTACATATATTATATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* * *
11699797 AACTTAAAC-TATTAAATATATTCTATTCTT
1 ATCTT-AACTTATAAAATATATTTTATTCTT
* * * *
11699827 ATCTTAAATTATCAAATATAATTAATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* * * *
11699857 ATTTTAAATTAAAAAATATATTTTTTATTCTA
1 ATCTTAACTTATAAAATATA--TTTTATTCTT
11699889 ATCTTAACTTA-AAAATATATTTTTATT-TT
1 ATCTTAACTTATAAAATATA-TTTTATTCTT
* *
11699918 AAC-TAA---A-AAATATATATTTTATT-TC
1 ATCTTAACTTATAAA-ATATATTTTATTCTT
* * ** *
11699943 ATCTTAACTGCAAAAAATATATTAGATTTTT
1 ATCTTAACT-TATAAAATATATTTTATTCTT
*
11699974 ATCTTAAATT-TAAAATAT
1 ATCTTAACTTATAAAATAT
11699992 TATCATAATA
Statistics
Matches: 280, Mismatches: 49, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
25 14 0.05
26 8 0.03
28 3 0.01
29 56 0.20
30 133 0.47
31 36 0.13
32 30 0.11
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (30 bp):
ATCTTAACTTATAAAATATATTTTATTCTT
Found at i:11699757 original size:120 final size:120
Alignment explanation
Indices: 11699617--11699880 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
11699607 TTAATTTTGC
* * * *
11699617 ATCTTAACATT-AAAATTATATTTTATTTTTATATCAATTTATTAAATATATTTTATTCTTATCT
1 ATCTTAA-ATTAAAAAATATATTTTATTTTTATATCAACTTATTAAATATATTATATTCTTAACT
* * * * * *
11699681 TAACCTA-AAAATATATTTTATTCTTATTTTAACTTA-AAAATATATTTTAGTCTTT
65 TAAACTATAAAATATATTCTATTCTTATCTTAAATTATAAAATATAATTAAGTC-TT
* * * *
11699736 ATCTTAACTTAAAAAAATATATTTTATTTTTATCTTAACTTATTACATATATTATATTCTTAACT
1 ATCTTAAATT-AAAAAATATATTTTATTTTTATATCAACTTATTAAATATATTATATTCTTAACT
* * *
11699801 TAAACTATTAAATATATTCTATTCTTATCTTAAATTATCAAATATAATTAATTCTT
65 TAAACTATAAAATATATTCTATTCTTATCTTAAATTATAAAATATAATTAAGTCTT
*
11699857 ATTTTAAATTAAAAAATATATTTT
1 ATCTTAAATTAAAAAATATATTTT
11699881 TTATTCTAAT
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
118 2 0.02
119 7 0.06
120 66 0.54
121 35 0.29
122 12 0.10
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (120 bp):
ATCTTAAATTAAAAAATATATTTTATTTTTATATCAACTTATTAAATATATTATATTCTTAACTT
AAACTATAAAATATATTCTATTCTTATCTTAAATTATAAAATATAATTAAGTCTT
Found at i:11699919 original size:24 final size:25
Alignment explanation
Indices: 11699892--11699941 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
11699882 TATTCTAATC
*
11699892 TTAACTTAAAAATATAT-TTTTATT
1 TTAACTAAAAAATATATATTTTATT
11699916 TTAACTAAAAAATATATATTTTATT
1 TTAACTAAAAAATATATATTTTATT
11699941 T
1 T
11699942 CATCTTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAACTAAAAAATATATATTTTATT
Found at i:11699959 original size:56 final size:56
Alignment explanation
Indices: 11699855--11699965 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 56
11699845 TAATTAATTC
* * *
11699855 TTATTTTAAATTAAAAAATATATTTTTTATTCTAATCTTAACTTAAAAATATATTT
1 TTATTTTAAACTAAAAAATATATATTTTATTCTAATCTTAACTAAAAAATATATTT
*
11699911 TTATTTT-AACTAAAAAATATATATTTTATT-TCATCTTAACTGCAAAAAATATATT
1 TTATTTTAAACTAAAAAATATATATTTTATTCTAATCTTAACT--AAAAAATATATT
11699966 AGATTTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 10 0.20
55 21 0.43
56 18 0.37
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (56 bp):
TTATTTTAAACTAAAAAATATATATTTTATTCTAATCTTAACTAAAAAATATATTT
Found at i:11700069 original size:29 final size:29
Alignment explanation
Indices: 11700019--11700134 Score: 90
Period size: 31 Copynumber: 3.8 Consensus size: 29
11700009 AGTATTCAAG
* * *
11700019 TTAAGATAAAAATAAATTATATATTTTTAAT
1 TTAAAATAAGAATAAA--ATATATTTTTAAA
** *
11700050 TTATGATAAGATTAAAATATATTTTTTAAAA
1 TTAAAATAAGAATAAAATATA-TTTTT-AAA
**
11700081 TTAAAATAAGAATAAAATATATTTTTAGG
1 TTAAAATAAGAATAAAATATATTTTTAAA
*
11700110 TTACAGA-AAGAATAAAAATATATTT
1 TTA-AAATAAGAAT-AAAATATATTT
11700135 AATAAGTAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
29 15 0.21
30 23 0.32
31 33 0.46
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.41
Consensus pattern (29 bp):
TTAAAATAAGAATAAAATATATTTTTAAA
Found at i:11700186 original size:18 final size:18
Alignment explanation
Indices: 11700150--11700205 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
11700140 GTAAAGATAA
11700150 AAAATTAATGTTAAGATGT
1 AAAATTAAT-TTAAGATGT
*
11700169 AAAATTAATTTAATATGT
1 AAAATTAATTTAAGATGT
* * *
11700187 GAATTTAAGTTAAGATGT
1 AAAATTAATTTAAGATGT
11700205 A
1 A
11700206 TAAACAAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (18 bp):
AAAATTAATTTAAGATGT
Found at i:11700645 original size:18 final size:19
Alignment explanation
Indices: 11700622--11700660 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
11700612 CCAAGCTTCA
11700622 CGTGCTCCCCT-CTGCTCC
1 CGTGCTCCCCTCCTGCTCC
11700640 CGTGCTCCCCTCCTGCTCC
1 CGTGCTCCCCTCCTGCTCC
11700659 CG
1 CG
11700661 CTGCATGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.00, C:0.56, G:0.18, T:0.26
Consensus pattern (19 bp):
CGTGCTCCCCTCCTGCTCC
Found at i:11700892 original size:26 final size:26
Alignment explanation
Indices: 11700859--11700916 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
11700849 ACATAAAAGA
*
11700859 AAGAAAGGGAGAAGAGATTGCAGCAG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
*
11700885 AAGAAAGGGAGAAGAAATTGCAGCCG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
11700911 -AGAAAG
1 AAGAAAG
11700917 AAAGAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.48, C:0.09, G:0.36, T:0.07
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAAATTGCAGCAG
Found at i:11700938 original size:13 final size:13
Alignment explanation
Indices: 11700915--11700961 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
11700905 CAGCCGAGAA
11700915 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
11700927 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
11700940 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
11700954 AGATAAGG
1 AGA-AAGG
11700962 CTCTTGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:11701086 original size:22 final size:21
Alignment explanation
Indices: 11701061--11701101 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11701051 GTTAATTAGT
*
11701061 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
11701083 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
11701102 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:11701157 original size:39 final size:38
Alignment explanation
Indices: 11701114--11701236 Score: 97
Period size: 39 Copynumber: 3.1 Consensus size: 38
11701104 TACATAAATA
11701114 AAAAATTATTTAATTAGTATGTTTGATAGTTATATAGTT
1 AAAAATTATTTAATTAGT-TGTTTGATAGTTATATAGTT
* * * *
11701153 AAAAAATAATTAATTAGTTTGTTTTGTTAATCGTTAGTTATA-TAA
1 AAAAATTATTTAATTAG-TTG-TTTG---ATAGTTA--TATAGT-T
* *
11701198 AAAAATTATTTAATTAGTT-TGTGATAGTTAAATAGTT
1 AAAAATTATTTAATTAGTTGTTTGATAGTTATATAGTT
11701235 AA
1 AA
11701237 GTTATATTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
37 5 0.08
38 1 0.02
39 23 0.35
40 5 0.08
42 3 0.05
43 6 0.09
44 3 0.05
45 19 0.29
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (38 bp):
AAAAATTATTTAATTAGTTGTTTGATAGTTATATAGTT
Found at i:11701436 original size:15 final size:14
Alignment explanation
Indices: 11701416--11701446 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11701406 GTTTGTTAGT
11701416 TTATTATATTATAAG
1 TTATTATATTA-AAG
11701431 TTATTATATTAAAG
1 TTATTATATTAAAG
11701445 TT
1 TT
11701447 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:11703538 original size:14 final size:14
Alignment explanation
Indices: 11703519--11703566 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11703509 TTCAAGTCGT
11703519 AAATCATTACTATC
1 AAATCATTACTATC
11703533 AAATCATTAC--T-
1 AAATCATTACTATC
*
11703544 AAATCATTAATATC
1 AAATCATTACTATC
11703558 AAATCATTA
1 AAATCATTA
11703567 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:11703546 original size:25 final size:25
Alignment explanation
Indices: 11703518--11703566 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11703508 GTTCAAGTCG
*
11703518 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
11703543 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
11703567 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:11703582 original size:21 final size:22
Alignment explanation
Indices: 11703518--11703576 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
11703508 GTTCAAGTCG
*
11703518 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
11703541 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
11703565 TAAAT-ATTAATA
1 TAAATCATTAATA
11703577 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:11703587 original size:21 final size:22
Alignment explanation
Indices: 11703518--11703587 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
11703508 GTTCAAGTCG
* *
11703518 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATC-AA--ATTAT
*
11703543 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATTAT
11703565 TAAAT-ATTAATAAT-AAATTAT
1 TAAATCATTAAT-ATCAAATTAT
11703586 TA
1 TA
11703588 TTACTAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.35
22 10 0.25
24 2 0.05
25 14 0.35
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATTAT
Found at i:11703602 original size:10 final size:10
Alignment explanation
Indices: 11703587--11703613 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11703577 ATAAATTATT
11703587 ATTACTAATC
1 ATTACTAATC
11703597 ATTACTAATC
1 ATTACTAATC
11703607 ATTACTA
1 ATTACTA
11703614 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:11703693 original size:60 final size:60
Alignment explanation
Indices: 11703534--11703786 Score: 429
Period size: 60 Copynumber: 4.2 Consensus size: 60
11703524 ATTACTATCA
*
11703534 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
11703593 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
11703652 AATCATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAATTTCATTACTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
11703712 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
11703772 AATCATTACTAAATC
1 AATCATTACTAAATC
11703787 TTATAAATAC
Statistics
Matches: 181, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
58 36 0.20
59 29 0.16
60 116 0.64
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:11703728 original size:11 final size:12
Alignment explanation
Indices: 11703701--11703744 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 12
11703691 AATAATAATT
11703701 TCATTACTACTAA
1 TCATTACTAC-AA
11703714 TCATTACTA-AA
1 TCATTACTACAA
11703725 TCATTACTATCAAA
1 TCATTACTA-C-AA
11703739 TCATTA
1 TCATTA
11703745 AATATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.39
13 9 0.32
14 8 0.29
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (12 bp):
TCATTACTACAA
Found at i:11707339 original size:28 final size:30
Alignment explanation
Indices: 11707291--11707352 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
11707281 TTTTTTTATA
11707291 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
11707321 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
11707349 TAAT
1 TAAT
11707353 TAACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:11707734 original size:23 final size:23
Alignment explanation
Indices: 11707704--11707759 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
11707694 AATTAACGCT
11707704 TATGGATGCAGGAATCTCCCAGC
1 TATGGATGCAGGAATCTCCCAGC
*
11707727 TATGGATGTAGGAATCTCCCAGC
1 TATGGATGCAGGAATCTCCCAGC
11707750 TATGGATGCA
1 TATGGATGCA
11707760 ACCCATGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (23 bp):
TATGGATGCAGGAATCTCCCAGC
Found at i:11707803 original size:22 final size:22
Alignment explanation
Indices: 11707775--11707816 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11707765 TGCACGAGGG
*
11707775 AACAGGGTTAAGTTTGGTCGTC
1 AACAGGGATAAGTTTGGTCGTC
11707797 AACAGGGATAAGTTTGGTCG
1 AACAGGGATAAGTTTGGTCG
11707817 AGGCTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (22 bp):
AACAGGGATAAGTTTGGTCGTC
Found at i:11707885 original size:29 final size:29
Alignment explanation
Indices: 11707853--11707911 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
11707843 GACCTACAAA
*
11707853 GTCGCTGGGAGTGCATGGCGACCTTGTAG
1 GTCGCTGGGAGTGCATGGCAACCTTGTAG
*
11707882 GTCGCTGGGAGTGCTTGGCAACCTTGTAG
1 GTCGCTGGGAGTGCATGGCAACCTTGTAG
11707911 G
1 G
11707912 GGTGTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.20, G:0.41, T:0.25
Consensus pattern (29 bp):
GTCGCTGGGAGTGCATGGCAACCTTGTAG
Found at i:11725428 original size:71 final size:70
Alignment explanation
Indices: 11725337--11725489 Score: 180
Period size: 70 Copynumber: 2.2 Consensus size: 70
11725327 ATTCAAATAG
* * * * *
11725337 TATCGATAGCAAGGGTTTAATGGTTATAACTTTGACCCTTAGGATGCTCAGTCTCGATACCAACA
1 TATCGATACCAAGGGTTTAATAGCTATAAATTTGACCCTT-GGATGCTCAGTCTCGATACAAACA
*
11725402 TCTCAA
65 TCCCAA
* ** * * *
11725408 TATTGATACCAAGGGTTTAATAGCTATAAATTTGACTGTTGGATGCTCGGTCTTGATATAAACAT
1 TATCGATACCAAGGGTTTAATAGCTATAAATTTGACCCTTGGATGCTCAGTCTCGATACAAACAT
*
11725473 CCCGA
66 CCCAA
11725478 TATCGATACCAA
1 TATCGATACCAA
11725490 ATGTACAGGT
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
70 35 0.51
71 33 0.49
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (70 bp):
TATCGATACCAAGGGTTTAATAGCTATAAATTTGACCCTTGGATGCTCAGTCTCGATACAAACAT
CCCAA
Found at i:11728690 original size:24 final size:24
Alignment explanation
Indices: 11728663--11728733 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
11728653 AGGGGGAGAA
11728663 ATATGTGTAAGTGTAAAAATTGCT
1 ATATGTGTAAGTGTAAAAATTGCT
*
11728687 ATATGTGTAAGTGT-AAAATT-TT
1 ATATGTGTAAGTGTAAAAATTGCT
* *
11728709 ATATGTGTAAATGTAAAATTTGCT
1 ATATGTGTAAGTGTAAAAATTGCT
11728733 A
1 A
11728734 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.34
23 11 0.27
24 16 0.39
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (24 bp):
ATATGTGTAAGTGTAAAAATTGCT
Found at i:11728714 original size:22 final size:22
Alignment explanation
Indices: 11728663--11728729 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
11728653 AGGGGGAGAA
*
11728663 ATATGTGTAAGTGTAAAAATTGCT
1 ATATGTGTAAGTGT-AAAATT-TT
11728687 ATATGTGTAAGTGTAAAATTTT
1 ATATGTGTAAGTGTAAAATTTT
*
11728709 ATATGTGTAAATGTAAAATTT
1 ATATGTGTAAGTGTAAAATTT
11728730 GCTAGTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 21 0.51
23 6 0.15
24 14 0.34
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (22 bp):
ATATGTGTAAGTGTAAAATTTT
Found at i:11736656 original size:83 final size:83
Alignment explanation
Indices: 11736517--11736683 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
11736507 ACCAACATCA
11736517 ATAGACGTTTAGAGCAAAAATTGTCAGATTCTTTGTGACACACTTGTGAACTACATTTTTAATAT
1 ATAGACGTTTAGAGCAAAAATTGTCAGATTCTTTGTGACACACTTGTGAACTACATTTTTAATAT
11736582 AACACCTATATCTCGTAT
66 AACACCTATATCTCGTAT
11736600 ATAGACGTTTAGAGCAAAAATTGTCAGATTCTTTGTGACACACTTGTGAACTACATTTTTAATAT
1 ATAGACGTTTAGAGCAAAAATTGTCAGATTCTTTGTGACACACTTGTGAACTACATTTTTAATAT
11736665 AACACCTATATCTCGTAT
66 AACACCTATATCTCGTAT
11736683 A
1 A
11736684 CTTTTTCGTA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (83 bp):
ATAGACGTTTAGAGCAAAAATTGTCAGATTCTTTGTGACACACTTGTGAACTACATTTTTAATAT
AACACCTATATCTCGTAT
Found at i:11738008 original size:46 final size:45
Alignment explanation
Indices: 11737958--11738329 Score: 353
Period size: 46 Copynumber: 8.1 Consensus size: 45
11737948 TATGATCTCT
** *
11737958 TTTCATCCATTAATAAATCTGTTCATGCATTTTAATCATGGCATCC
1 TTTCATCC-TTAATGCATCTGTTCATGCATTTTAATTATGGCATCC
** * * ** *
11738004 TTTCATGCCTTAATGCATCCATTCATACATTTTAATCATGTAATCTT
1 TTTCAT-CCTTAATGCATCTGTTCATGCATTTTAATTATGGCATC-C
*
11738051 TTTCATTCCTTAATTCA-CTCGTTCATGCA-TTTAATTATGGCATCC
1 TTTCA-TCCTTAATGCATCT-GTTCATGCATTTTAATTATGGCATCC
*
11738096 TTTCATTCCTTAATGCAT-TCGTTCATGTATTTTAATTATGGCATCC
1 TTTCA-TCCTTAATGCATCT-GTTCATGCATTTTAATTATGGCATCC
* * *
11738142 TTTCATGCCATAATGCATC-GATTCGTGCATTTTAATCATGGCATCC
1 TTTCAT-CCTTAATGCATCTG-TTCATGCATTTTAATTATGGCATCC
* * *
11738188 TTTCATGACTTAATGCATCCGTTCATGCATTTTAATTGTGGCATCC
1 TTTCAT-CCTTAATGCATCTGTTCATGCATTTTAATTATGGCATCC
** *
11738234 TTTCATGCAATAATGCATCTGTTCATGCATTTTAATTATGTCATCC
1 TTTCAT-CCTTAATGCATCTGTTCATGCATTTTAATTATGGCATCC
* * * *
11738280 TTTCATGCCTTAATGCACCT-AT-ATACATTATT-ATTTTGGCATCC
1 TTTCAT-CCTTAATGCATCTGTTCATGCATT-TTAATTATGGCATCC
11738324 TTTCAT
1 TTTCAT
11738330 GCCTAAAATG
Statistics
Matches: 275, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
44 22 0.08
45 31 0.11
46 197 0.72
47 24 0.09
48 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (45 bp):
TTTCATCCTTAATGCATCTGTTCATGCATTTTAATTATGGCATCC
Found at i:11738051 original size:92 final size:92
Alignment explanation
Indices: 11737958--11738329 Score: 420
Period size: 92 Copynumber: 4.1 Consensus size: 92
11737948 TATGATCTCT
**
11737958 TTTCATCCATTAATAAATCTGTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCATC
1 TTTCATCCATTAATGCATCTGTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCATC
* * * ** *
11738023 CATTCATACATTTTAATCATGTAATCTT
66 CGTTCATGCATTTTAATTATGGCATC-C
* * *
11738051 TTTCATTCC-TTAATTCA-CTCGTTCATGCA-TTTAATTATGGCATCCTTTCATTCCTTAATGCA
1 TTTCA-TCCATTAATGCATCT-GTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCA
* *
11738113 TTCGTTCATGTATTTTAATTATGGCATCC
64 TCCGTTCATGCATTTTAATTATGGCATCC
* *
11738142 TTTCATGCCA-TAATGCATC-GATTCGTGCATTTTAATCATGGCATCCTTTCATGACTTAATGCA
1 TTTCAT-CCATTAATGCATCTG-TTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCA
*
11738205 TCCGTTCATGCATTTTAATTGTGGCATCC
64 TCCGTTCATGCATTTTAATTATGGCATCC
* * * *
11738234 TTTCATGCAATAATGCATCTGTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCA-C
1 TTTCATCCATTAATGCATCTGTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCATC
* *
11738298 C-TAT-ATACATTATT-ATTTTGGCATCC
66 CGT-TCATGCATT-TTAATTATGGCATCC
11738324 TTTCAT
1 TTTCAT
11738330 GCCTAAAATG
Statistics
Matches: 241, Mismatches: 27, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
90 26 0.11
91 27 0.11
92 164 0.68
93 21 0.09
94 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (92 bp):
TTTCATCCATTAATGCATCTGTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCATC
CGTTCATGCATTTTAATTATGGCATCC
Found at i:11738222 original size:138 final size:138
Alignment explanation
Indices: 11737974--11738296 Score: 445
Period size: 138 Copynumber: 2.3 Consensus size: 138
11737964 CCATTAATAA
*
11737974 ATCTGTTCATGCATTTTAATCATGGCATCCTTTCATGCCTTAATGCATCCATTCATACATTTTAA
1 ATCTGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCATTCATACATTTTAA
* * ** * *
11738039 TCATGTAATCTTTTTCATTCCTTAATTCACTCGTTCATGCATTTAATTATGGCATCCTTTCATTC
66 TCATGGAATCTCTTTCATGACTTAATGCACTCGTTCATGCATTTAATTATGGCATCCTTTCATGC
**
11738104 CTTAATGC
131 AATAATGC
* * * * *
11738112 AT-TCGTTCATGTATTTTAATTATGGCATCCTTTCATGCCATAATGCATCGATTCGTGCATTTTA
1 ATCT-GTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCATTCATACATTTTA
* *
11738176 ATCATGGCATC-CTTTCATGACTTAATGCA-TCCGTTCATGCATTTTAATTGTGGCATCCTTTCA
65 ATCATGGAATCTCTTTCATGACTTAATGCACT-CGTTCATGCA-TTTAATTATGGCATCCTTTCA
11738239 TGCAATAATGC
128 TGCAATAATGC
*
11738250 ATCTGTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCA
1 ATCTGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCA
11738297 CCTATATACA
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
136 1 0.01
137 25 0.15
138 135 0.83
139 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (138 bp):
ATCTGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCATTCATACATTTTAA
TCATGGAATCTCTTTCATGACTTAATGCACTCGTTCATGCATTTAATTATGGCATCCTTTCATGC
AATAATGC
Found at i:11738238 original size:26 final size:24
Alignment explanation
Indices: 11738072--11738287 Score: 83
Period size: 26 Copynumber: 9.3 Consensus size: 24
11738062 AATTCACTCG
11738072 TTCATGCA-TTTAATTATGGCATCCT
1 TTCATGCATTTTAA-T-TGGCATCCT
* * * *
11738097 TTCATTC--CTTAA-T-GCATTCG
1 TTCATGCATTTTAATTGGCATCCT
*
11738117 TTCATGTATTTTAATTATGGCATCCT
1 TTCATGCATTTTAA-T-TGGCATCCT
**
11738143 TTCATGCCA---TAA-T-GCATCGA
1 TTCATG-CATTTTAATTGGCATCCT
*
11738163 TTCGTGCATTTTAATCATGGCATCCT
1 TTCATGCATTTTAAT--TGGCATCCT
* *
11738189 TTCATG-A-CTTAA-T-GCATCCG
1 TTCATGCATTTTAATTGGCATCCT
11738209 TTCATGCATTTTAATTGTGGCATCCT
1 TTCATGCATTTTAA-T-TGGCATCCT
*
11738235 TTCATGCA--ATAA-T-GCAT-CT
1 TTCATGCATTTTAATTGGCATCCT
*
11738254 GTTCATGCATTTTAATTATGTCATCCT
1 -TTCATGCATTTTAA-T-TGGCATCCT
11738281 TTCATGC
1 TTCATGC
11738288 CTTAATGCAC
Statistics
Matches: 140, Mismatches: 23, Indels: 55
0.64 0.11 0.25
Matches are distributed among these distances:
19 4 0.03
20 44 0.31
21 5 0.04
22 14 0.10
24 14 0.10
25 11 0.08
26 45 0.32
27 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (24 bp):
TTCATGCATTTTAATTGGCATCCT
Found at i:11738355 original size:45 final size:45
Alignment explanation
Indices: 11738051--11738407 Score: 261
Period size: 46 Copynumber: 7.9 Consensus size: 45
11738041 ATGTAATCTT
* * * *
11738051 TTTCATTCCT-TAATTCACTCGTTCATGCATT-TAATTATGGCATCC
1 TTTCATGCCTATAATGCAC-CGTT-ATGCATTATTATTTTGGCATCC
* * * *
11738096 TTTCATTCCT-TAATGCATTCGTTCATGTATT-TTAATTATGGCATCC
1 TTTCATGCCTATAATGCA-CCGTT-ATGCATTATT-ATTTTGGCATCC
* * **
11738142 TTTCATGCC-ATAATGCATCGATTCGTGCATT-TTAATCATGGCATCC
1 TTTCATGCCTATAATGCACCG-TT-ATGCATTATT-ATTTTGGCATCC
* *
11738188 TTTCATGACT-TAATGCATCCGTTCATGCATT-TTAATTGTGGCATCC
1 TTTCATGCCTATAATGCA-CCGTT-ATGCATTATT-ATTTTGGCATCC
* * * *
11738234 TTTCATG-CAATAATGCATCTGTTCATGCATT-TTAATTATGTCATCC
1 TTTCATGCCTATAATGCA-CCGTT-ATGCATTATT-ATTTTGGCATCC
*
11738280 TTTCATGCCT-TAATGCACC-TATATACATTATTATTTTGGCATCC
1 TTTCATGCCTATAATGCACCGT-TATGCATTATTATTTTGGCATCC
* ** * *
11738324 TTTCATGCCTAAAATGCACCCATATGCATTATTATTTTGGTATCA
1 TTTCATGCCTATAATGCACCGTTATGCATTATTATTTTGGCATCC
* *
11738369 TTTTATGCCTATAATGCACCTTTATGCATTATTATTTTG
1 TTTCATGCCTATAATGCACCGTTATGCATTATTATTTTG
11738408 TTCATTCGTT
Statistics
Matches: 269, Mismatches: 31, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
44 27 0.10
45 99 0.37
46 140 0.52
47 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (45 bp):
TTTCATGCCTATAATGCACCGTTATGCATTATTATTTTGGCATCC
Found at i:11738887 original size:19 final size:19
Alignment explanation
Indices: 11738818--11738888 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 19
11738808 TGGCTCCTCA
* *
11738818 GTATCGATACCCCTACCATG
1 GTATCGATA-CTCTACTATG
*
11738838 GTATCGATACTACTATATTATG
1 GTATCGATACT-C--TACTATG
11738860 GTA-CTGATACTCTACTATG
1 GTATC-GATACTCTACTATG
11738879 GTATCGATAC
1 GTATCGATAC
11738889 CATTTTTTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.36
20 11 0.26
21 2 0.05
22 14 0.33
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (19 bp):
GTATCGATACTCTACTATG
Found at i:11740661 original size:2 final size:2
Alignment explanation
Indices: 11740654--11740719 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
11740644 AGGCATAACC
11740654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11740696 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
11740720 TATTTTCTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11743111 original size:61 final size:63
Alignment explanation
Indices: 11743026--11743147 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 63
11743016 ACCTAAGGGA
* * *
11743026 ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAG-T-TCGGGGCCATAGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
* *
11743087 ACATCTTAGGGCC-GCATG-GCCTACCCGAGAATGATCTCAGGGCCACAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-A-GAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGA
11743148 GTCATATTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
60 1 0.02
61 27 0.52
62 2 0.04
63 22 0.42
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
Found at i:11747672 original size:26 final size:26
Alignment explanation
Indices: 11747643--11747768 Score: 98
Period size: 26 Copynumber: 5.3 Consensus size: 26
11747633 TAATACATAT
11747643 TTTCATGCATTTTAATAATGGCATCC
1 TTTCATGCATTTTAATAATGGCATCC
*
11747669 TTTCATGC---CT--TAAT-GCAT-C
1 TTTCATGCATTTTAATAATGGCATCC
*
11747688 TGTTCATGCATTTTAATTATGGCATCC
1 T-TTCATGCATTTTAATAATGGCATCC
*
11747715 TTTCATG---TCT--TAAT-GCATCC
1 TTTCATGCATTTTAATAATGGCATCC
* * *
11747735 ATTCATGCATTTTAATTATGGCATCT
1 TTTCATGCATTTTAATAATGGCATCC
11747761 TTTCATGC
1 TTTCATGC
11747769 CTTAATGCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 28
0.67 0.09 0.25
Matches are distributed among these distances:
19 2 0.03
20 23 0.30
21 7 0.09
23 6 0.08
25 6 0.08
26 30 0.39
27 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (26 bp):
TTTCATGCATTTTAATAATGGCATCC
Found at i:11747673 original size:46 final size:46
Alignment explanation
Indices: 11747644--11747935 Score: 390
Period size: 46 Copynumber: 6.3 Consensus size: 46
11747634 AATACATATT
* *
11747644 TTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCATCTG
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
* *
11747690 TTCATGCATTTTAATTATGGCATCCTTTCATGTCTTAATGCATCCA
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
* *
11747736 TTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAATGCACCCG
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
* ** *
11747782 TTCATGCATTTTAATCATGAAATCCTTTCATGCCTTAATGCATCCC
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
* * * * * *
11747828 TTTATGAAATTTAATTATGGCATCATTTCATGCCTTAATGTATCTG
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
*
11747874 TTCATGCATTTTAATTATGACATCCTTTCATGCCTATAATGCATCC-
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCT-TAATGCATCCG
*
11747920 AT-ATGCATTATTAATT
1 TTCATGCATT-TTAATT
11747936 TGTTCATTCG
Statistics
Matches: 212, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 7 0.03
46 197 0.93
47 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (46 bp):
TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCG
Found at i:11747734 original size:20 final size:21
Alignment explanation
Indices: 11747658--11747741 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 21
11747648 TGCATTTTAA
*
11747658 TAATGGCATCCTTTCATGCCT
1 TAATGGCATCCTTTCATGTCT
*
11747679 TAAT-GCAT-CTGTTCATGCATTT
1 TAATGGCATCCT-TTCATG--TCT
11747701 TAATTATGGCATCCTTTCATGTCT
1 T-A--ATGGCATCCTTTCATGTCT
*
11747725 TAAT-GCATCCATTCATG
1 TAATGGCATCCTTTCATG
11747742 CATTTTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
19 2 0.04
20 22 0.43
21 6 0.12
22 2 0.04
23 2 0.04
24 3 0.06
25 2 0.04
26 10 0.20
27 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (21 bp):
TAATGGCATCCTTTCATGTCT
Found at i:11748418 original size:19 final size:19
Alignment explanation
Indices: 11748349--11748419 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 19
11748339 TGGCTCCTCA
* *
11748349 GTATCGATAACCCTACCATG
1 GTATCGAT-ACTCTACTATG
*
11748369 GTATCGATACTACTATATTATG
1 GTATCGATACT-C--TACTATG
11748391 GTA-CTGATACTCTACTATG
1 GTATC-GATACTCTACTATG
11748410 GTATCGATAC
1 GTATCGATAC
11748420 CATTTTTGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 16 0.38
20 10 0.24
21 2 0.05
22 14 0.33
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (19 bp):
GTATCGATACTCTACTATG
Found at i:11750384 original size:19 final size:19
Alignment explanation
Indices: 11750357--11750394 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11750347 GAGATCATTG
11750357 TAAAACAAGTTTATGATTT
1 TAAAACAAGTTTATGATTT
*
11750376 TAAAGCAAGTTTATGATTT
1 TAAAACAAGTTTATGATTT
11750395 CTTCAAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TAAAACAAGTTTATGATTT
Found at i:11756753 original size:15 final size:15
Alignment explanation
Indices: 11756733--11756761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11756723 GTATTTTAGG
11756733 TTATCTAATCAATAT
1 TTATCTAATCAATAT
11756748 TTATCTAATCAATA
1 TTATCTAATCAATA
11756762 CTTCGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATCTAATCAATAT
Found at i:11761240 original size:81 final size:81
Alignment explanation
Indices: 11761105--11761439 Score: 517
Period size: 81 Copynumber: 4.1 Consensus size: 81
11761095 TGTTAAGCAT
* * * * *
11761105 TTAATCTTTTACTCAGAGACATTTAGCCTTTCATCTTACTTGCAATATTGGCACCTTTCTGCGAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
* *
11761170 ATGCAAAGCTAGGCAA
66 ATGCACAGCTAGACAA
*
11761186 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
* *
11761251 ATACGCAGCTAGACAA
66 ATGCACAGCTAGACAA
* *
11761267 TTAATCTTTTATTCAAAGGCATTTAGTCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
11761332 ATGCACAGCTAGACAA
66 ATGCACAGCTAGACAA
* * *
11761348 TTAACCTTTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCAATATTGGTACCTTTATGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
*
11761413 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGACAA
*
11761429 TTAATATTTTA
1 TTAATCTTTTA
11761440 TTTTTAAAAC
Statistics
Matches: 235, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 235 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTATGCCAA
ATGCACAGCTAGACAA
Found at i:11762003 original size:95 final size:95
Alignment explanation
Indices: 11761861--11762055 Score: 232
Period size: 95 Copynumber: 2.1 Consensus size: 95
11761851 ACCATGGTAT
* * * *
11761861 CGATACTTCTATACTATGATACCGATACTCTCTTTCAGTATTAATACTATTTC-GACATTTTGGA
1 CGATACTTCTATAATATGATACCGATACTCTCTTACAGTATCAATACTATTTCTG-CATTCTGGA
** * * *
11761925 ATCCATTGTATCGATACCTTTCTCCTAGTAC
65 ATAAATGGTATCGATACCTTCCTCATAGTAC
* * * *
11761956 CGATACTTCTATAATATGGTATCGATACTC-CATTACAGTATCGATACTATTTCTGTATTCTGGA
1 CGATACTTCTATAATATGATACCGATACTCTC-TTACAGTATCAATACTATTTCTGCATTCTGGA
*
11762020 ATAAATGGTATCGATACCTTCCTCATAGTAT
65 ATAAATGGTATCGATACCTTCCTCATAGTAC
11762051 CGATA
1 CGATA
11762056 ACCCATCAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 82 0.98
96 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (95 bp):
CGATACTTCTATAATATGATACCGATACTCTCTTACAGTATCAATACTATTTCTGCATTCTGGAA
TAAATGGTATCGATACCTTCCTCATAGTAC
Found at i:11769260 original size:55 final size:57
Alignment explanation
Indices: 11769201--11769327 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 57
11769191 AACTCTCTCA
* *
11769201 TTTTATCCTTATCTTATAAATATTTAA-TTATTTATTTTATTATTTTATCCTTAT-T
1 TTTTATCTTTATCTGATAAATATTTAATTTATTTATTTTATTATTTTATCCTTATCT
*** ** * * *
11769256 TTTTAT-TTTAAAAGATTTATATTTAATTTTTTTATTTTTTTATTTTATTCTTATCT
1 TTTTATCTTTATCTGATAAATATTTAATTTATTTATTTTATTATTTTATCCTTATCT
11769312 TTTTATCTTTATCTGA
1 TTTTATCTTTATCTGA
11769328 AATTATATCT
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
54 13 0.23
55 30 0.54
56 7 0.12
57 6 0.11
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (57 bp):
TTTTATCTTTATCTGATAAATATTTAATTTATTTATTTTATTATTTTATCCTTATCT
Found at i:11769285 original size:27 final size:26
Alignment explanation
Indices: 11769220--11769286 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
11769210 TATCTTATAA
** *
11769220 ATATTTAATTATTTATTTTATTATTTT
1 ATATTTAATT-TTTATTTTAAAAATTT
** *
11769247 ATCCTTATTTTTTATTTTAAAAGATTT
1 ATATTTAATTTTTATTTTAAAA-ATTT
11769274 ATATTTAATTTTT
1 ATATTTAATTTTT
11769287 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
ATATTTAATTTTTATTTTAAAAATTT
Found at i:11771764 original size:159 final size:160
Alignment explanation
Indices: 11771469--11771787 Score: 631
Period size: 159 Copynumber: 2.0 Consensus size: 160
11771459 CAATGGGAGT
11771469 GATAGAAAATGTCTTAGTAAAGGTCGATGTATTATTTTTTCCTGTAGATTTCTATGTCATTGACA
1 GATAGAAAATGTCTTAGTAAAGGTCGATGTATTATTTTTTCCTGTAGATTTCTATGTCATTGACA
11771534 TGAAACATGATAGGTCGGATTCTTATTCTGAAGTACTATTAGGTCGACCCTTCCTAAGCACCGCA
66 TGAAACATGATAGGTCGGATTCTTATTCTGAAGTACTATTAGGTCGACCCTTCCTAAGCACCGCA
11771599 CATGCAAAGATCGATGTTAGAAGTGGTATA
131 CATGCAAAGATCGATGTTAGAAGTGGTATA
11771629 GATAG-AAATGTCTTAGTAAAGGTCGATGTATTATTTTTTCCTGTAGATTTCTATGTCATTGACA
1 GATAGAAAATGTCTTAGTAAAGGTCGATGTATTATTTTTTCCTGTAGATTTCTATGTCATTGACA
11771693 TGAAACATGATAGGTCGGATTCTTATTCTGAAGTACTATTAGGTCGACCCTTCCTAAGCACCGCA
66 TGAAACATGATAGGTCGGATTCTTATTCTGAAGTACTATTAGGTCGACCCTTCCTAAGCACCGCA
11771758 CATGCAAAGATCGATGTTAGAAGTGGTATA
131 CATGCAAAGATCGATGTTAGAAGTGGTATA
11771788 CTGACAATGG
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 154 0.97
160 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (160 bp):
GATAGAAAATGTCTTAGTAAAGGTCGATGTATTATTTTTTCCTGTAGATTTCTATGTCATTGACA
TGAAACATGATAGGTCGGATTCTTATTCTGAAGTACTATTAGGTCGACCCTTCCTAAGCACCGCA
CATGCAAAGATCGATGTTAGAAGTGGTATA
Found at i:11786521 original size:36 final size:36
Alignment explanation
Indices: 11786378--11786514 Score: 143
Period size: 38 Copynumber: 3.8 Consensus size: 36
11786368 TATGAGATTG
* * *
11786378 TTTTTCTAAAAACAAATTTCGTCTTG-TT-AGAGAA
1 TTTTTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * ** * *
11786412 TTTTTTTAAAAAACAAATTTTATCTAACTTGAGATAG
1 TTTTTCT-AAAAACAAATTTTGTCTCGCTTGAGACAA
11786449 TTTTCTCTAAAAACAAAATTTTGTCTCGCTTGAGACAA
1 TTTT-TCTAAAAAC-AAATTTTGTCTCGCTTGAGACAA
*
11786487 TTTTTCTCAAAACAAATTTTGTCTCGCT
1 TTTTTCTAAAAACAAATTTTGTCTCGCT
11786515 ATAGACATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 6 0.07
35 15 0.18
36 17 0.20
37 22 0.26
38 24 0.29
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (36 bp):
TTTTTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:11786890 original size:29 final size:29
Alignment explanation
Indices: 11786848--11786965 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 29
11786838 TTGTTAAAAC
* *
11786848 CTTTAAGATTGTTTCTCTTGAAACATCAT
1 CTTTGAGATCGTTTCTCTTGAAACATCAT
11786877 CTTTGAGATCGTTT-TCCTTGAAACGAATTTTGTC-T
1 CTTTGAGATCGTTTCT-CTTGAAAC--A-----TCAT
* *
11786912 CTCTTGAGATAGTTTCTATTGAAACATCAT
1 CT-TTGAGATCGTTTCTCTTGAAACATCAT
* *
11786942 CTTTGAGATCATTTCCCTTGAAAC
1 CTTTGAGATCGTTTCTCTTGAAAC
11786966 GAATTTTGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
28 1 0.01
29 40 0.57
30 3 0.04
31 1 0.01
34 1 0.01
35 3 0.04
36 20 0.29
37 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (29 bp):
CTTTGAGATCGTTTCTCTTGAAACATCAT
Found at i:11786940 original size:65 final size:66
Alignment explanation
Indices: 11786853--11787133 Score: 329
Period size: 65 Copynumber: 4.2 Consensus size: 66
11786843 AAAACCTTTA
* ** *
11786853 AGATTGTTTCTCTTGAAACATCATCTTTGAGATC-GTTTTCCTTGAAACGAA-TTTTGTCTCTCT
1 AGATAGTTTCTCTTGAAACAAAATCTTTGAG-TCTGTTTCCCTTGAAACGAAGTTTTGTCTCTCT
11786916 TG
65 TG
* ** *
11786918 AGATAGTTTCTATTGAAACATCATCTTTGAGATC-ATTTCCCTTGAAACGAA-TTTTGTCTCTCT
1 AGATAGTTTCTCTTGAAACAAAATCTTTGAG-TCTGTTTCCCTTGAAACGAAGTTTTGTCTCTCT
11786981 TG
65 TG
* * * *
11786983 AGACAGTTTCTCTTGAAACAAAAGTATTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGACTCTCT
1 AGATAGTTTCTCTTGAAACAAAA-TCTTTGAGTCTGTTTCCCTTGAAACGAAGTTTTGTCTCTCT
11787048 TG
65 TG
*
11787050 AGACAGTTTCTCTTGAAACAAAAAAAAATCTTTGAGTCTGTTTCCCTTGAAAC-AAGTTTTGTCT
1 AGATAGTTTCTCTTGAAAC-----AAAATCTTTGAGTCTGTTTCCCTTGAAACGAAGTTTTGTCT
11787114 CTCTTG
61 CTCTTG
*
11787120 AGATAGATTCTCTT
1 AGATAGTTTCTCTT
11787134 AAAATAAATC
Statistics
Matches: 192, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
65 82 0.43
66 22 0.11
67 32 0.17
70 28 0.15
71 24 0.12
72 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (66 bp):
AGATAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACGAAGTTTTGTCTCTCTT
G
Found at i:11787114 original size:137 final size:130
Alignment explanation
Indices: 11786858--11787133 Score: 324
Period size: 137 Copynumber: 2.1 Consensus size: 130
11786848 CTTTAAGATT
** * * * * *
11786858 GTTTCTCTTGAAACATCATCTTTGAGATCGTTTTCCTTGAAACGAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTGAAACAAAATATTTGAGATCGTTTCCCTTGAAACAAATTTTGACTCTCTTGAGACA
**
11786923 GTTTCTATTGAAACATCATCTTTGAGATCATTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
66 GTTTCTATTGAAACAAAATCTTTGAGATCATTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
11786988 GTTTCTCTTGAAACAAAAGTATTTGAG-TCTGTTTCCCTTGAAACAAAGTTTTGACTCTCTTGAG
1 GTTTCTCTTGAAACAAAA-TATTTGAGATC-GTTTCCCTTGAAACAAA-TTTTGACTCTCTTGAG
* *
11787052 ACAGTTTCTCTTGAAACAAAAAAAAATCTTTGAG-TCTGTTTCCCTTGAAAC-AAGTTTTGTCTC
63 ACAGTTTCTATTGAAAC-----AAAATCTTTGAGATC-ATTTCCCTTGAAACGAA-TTTTGTCTC
*
11787115 TCTTGAGATA
121 TCTTGAGACA
*
11787125 GATTCTCTT
1 GTTTCTCTT
11787134 AAAATAAATC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
130 18 0.15
131 22 0.18
132 30 0.24
136 4 0.03
137 49 0.40
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (130 bp):
GTTTCTCTTGAAACAAAATATTTGAGATCGTTTCCCTTGAAACAAATTTTGACTCTCTTGAGACA
GTTTCTATTGAAACAAAATCTTTGAGATCATTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
Found at i:11787384 original size:131 final size:131
Alignment explanation
Indices: 11787141--11787631 Score: 533
Period size: 131 Copynumber: 3.7 Consensus size: 131
11787131 CTTAAAATAA
* * * * * *
11787141 ATCCCTAAAGATGGTCAGTCATCCTCATCGCGTAGGAGCCGTGTCATCCACCAACCAGATCTCCT
1 ATCCCTAAAGATGGCCAATCATCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATCTCCT
* ** * * * *
11787206 CATCACGTAGGAGCCGCATCAACCTTAGATAAT-CAGTCATCCTCATCATGTAGGAATCATGTTA
66 CATCACGTAGGAGTCGTGTCACCCTTAGAT-ATCCAGTCGTCCTCATCACGTAGGAACCATGTTA
11787270 TC
130 TC
* * * *
11787272 ATCCCTAAAGATAGTCAACCATCCTCATCACGTAGGAACTGTGTCATCC-CTCGACCAGATATCC
1 ATCCCTAAAGATGGCCAATCATCCTCATCACGTAGGAACTGTGTCATCCAC-CGACCAGATCTCC
* * * * *
11787336 TCATCACGTAGGAGTCATGTCACCCTTAGATATCCAGCCGTCCACATCACATAGGAACCGTGTTA
65 TCATCACGTAGGAGTCGTGTCACCCTTAGATATCCAGTCGTCCTCATCACGTAGGAACCATGTTA
11787401 TC
130 TC
* * * ** * *
11787403 ATCCCTAAAGATGACCTATCATCATCATTGCATAGGAA-TCGTGTCATCCACCGACCAGACCTCC
1 ATCCCTAAAGATGGCCAATCATCCTCATCACGTAGGAACT-GTGTCATCCACCGACCAGATCTCC
* * * *
11787467 TCATCACGTAGGAG-CTGTTTCA-CCTCTAGATAACCAGTCGTCCTTATCGCGTAGGAACCATGT
65 TCATCACGTAGGAGTC-GTGTCACCCT-TAGATATCCAGTCGTCCTCATCACGTAGGAACCATGT
11787530 TATC
128 TATC
* * *
11787534 ACCCTCCCTAAAGATGGCCAGTCATCCTTATCACGTAGGAACAGTGTCATCCACCGACCAGATCT
1 A---TCCCTAAAGATGGCCAATCATCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATCT
* *
11787599 CCTCATCACGTATGAATCGTGTCACCCTTAGAT
63 CCTCATCACGTAGGAGTCGTGTCACCCTTAGAT
11787632 GACCAAAATT
Statistics
Matches: 295, Mismatches: 53, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
130 8 0.03
131 208 0.71
132 1 0.00
134 74 0.25
135 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (131 bp):
ATCCCTAAAGATGGCCAATCATCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATCTCCT
CATCACGTAGGAGTCGTGTCACCCTTAGATATCCAGTCGTCCTCATCACGTAGGAACCATGTTAT
C
Found at i:11787825 original size:3 final size:3
Alignment explanation
Indices: 11787819--11787882 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
11787809 TCTAAAAAAA
*
11787819 TAT TAT TAAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11787865 TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT T
11787883 TACATATGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11795995 original size:2 final size:2
Alignment explanation
Indices: 11795988--11796017 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11795978 TGATAAAATA
11795988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11796018 TCTAGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11796994 original size:23 final size:22
Alignment explanation
Indices: 11796961--11797006 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
11796951 CATAAAAAGG
*
11796961 TTTTCATATTATATTATTTTTATA
1 TTTTCATATTA-ATT-TTTTCATA
11796985 TTTTC-TATTAATTTTTTCATA
1 TTTTCATATTAATTTTTTCATA
11797006 T
1 T
11797007 AATTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 5 0.24
24 5 0.24
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCATATTAATTTTTTCATA
Found at i:11798671 original size:21 final size:20
Alignment explanation
Indices: 11798644--11798693 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
11798634 GACATCATGC
*
11798644 TAAAATATGATTTATCGTTTT
1 TAAAATATGATTT-TAGTTTT
* *
11798665 TTAAATAGTTATTTTAGTTTT
1 TAAAATA-TGATTTTAGTTTT
11798686 TAAAATAT
1 TAAAATAT
11798694 TTTAGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (20 bp):
TAAAATATGATTTTAGTTTT
Found at i:11798796 original size:60 final size:61
Alignment explanation
Indices: 11798732--11798859 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 61
11798722 TAAAGCACAT
* * *
11798732 AAATGGTCCTTT-GACTATA-AGATATTATTTTATTAAGTCTCTCGATTATTAAAAGTTGCA
1 AAATGGTCCTTTCGACTATAGAGA-ATTATTTTATTAAGTCTCTCGACTATTAAAAATTACA
* * * * * *
11798792 AAATGAT-TTTTCGACTATAGGGAGTTATTTTGTTAAGTCTCTTGACTATTAAAAATTACA
1 AAATGGTCCTTTCGACTATAGAGAATTATTTTATTAAGTCTCTCGACTATTAAAAATTACA
11798852 AAATGGTC
1 AAATGGTC
11798860 ACCCAACTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
59 3 0.05
60 50 0.91
61 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (61 bp):
AAATGGTCCTTTCGACTATAGAGAATTATTTTATTAAGTCTCTCGACTATTAAAAATTACA
Found at i:11801829 original size:14 final size:14
Alignment explanation
Indices: 11801810--11801839 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11801800 TCAGAGCTAT
11801810 TTTTCGATTGAAGA
1 TTTTCGATTGAAGA
11801824 TTTTCGATTGAAGA
1 TTTTCGATTGAAGA
11801838 TT
1 TT
11801840 ATCGTTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (14 bp):
TTTTCGATTGAAGA
Found at i:11802790 original size:23 final size:24
Alignment explanation
Indices: 11802740--11802791 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
11802730 CTTAGCATTT
* *
11802740 TAAAGATAAAGAAAACTTTCAAAG
1 TAAAAATAAAGAAAACATTCAAAG
*
11802764 -AAAAATAAAGAAAA-ATTGAAAG
1 TAAAAATAAAGAAAACATTCAAAG
11802786 TAAAAA
1 TAAAAA
11802792 AATAGAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.67, C:0.04, G:0.12, T:0.17
Consensus pattern (24 bp):
TAAAAATAAAGAAAACATTCAAAG
Found at i:11805358 original size:22 final size:23
Alignment explanation
Indices: 11805330--11805385 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
11805320 CTATATGAAC
11805330 AGTATCGATACCATAAG-GAAGG
1 AGTATCGATACCATAAGTGAAGG
* *
11805352 AGTATCGATACC-TATGTGGAGG
1 AGTATCGATACCATAAGTGAAGG
11805374 -GTATCGATACCA
1 AGTATCGATACCA
11805386 GGGAACATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (23 bp):
AGTATCGATACCATAAGTGAAGG
Found at i:11805379 original size:21 final size:21
Alignment explanation
Indices: 11805308--11805384 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
11805298 ATTGTACATG
* *
11805308 GGGTATCGATATCTATATGAA
1 GGGTATCGATACCTATGTGAA
** *
11805329 CAGTATCGATACCATAAG-GAA
1 GGGTATCGATACC-TATGTGAA
*
11805350 GGAGTATCGATACCTATGTGGA
1 GG-GTATCGATACCTATGTGAA
11805372 GGGTATCGATACC
1 GGGTATCGATACC
11805385 AGGGAACATC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 27 0.61
22 17 0.39
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (21 bp):
GGGTATCGATACCTATGTGAA
Found at i:11806494 original size:32 final size:32
Alignment explanation
Indices: 11806448--11806508 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
11806438 GAGTCGAGGG
*
11806448 TTACATATGTCCTTCGGGACATATGGACAAGA
1 TTACATATGTCCTTCGGGACATATAGACAAGA
*
11806480 TTACCTATGTCCTTCGGGACATATAGACA
1 TTACATATGTCCTTCGGGACATATAGACA
11806509 GGTCCATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (32 bp):
TTACATATGTCCTTCGGGACATATAGACAAGA
Found at i:11810558 original size:16 final size:18
Alignment explanation
Indices: 11810537--11810578 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11810527 AGATATAAGA
11810537 GATATATGT-GT-TACGT
1 GATATATGTGGTATACGT
*
11810553 GATATATGTGGTATATGT
1 GATATATGTGGTATACGT
11810571 GATATATG
1 GATATATG
11810579 GGGATCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 2 0.09
18 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.43
Consensus pattern (18 bp):
GATATATGTGGTATACGT
Found at i:11810569 original size:9 final size:9
Alignment explanation
Indices: 11810537--11810578 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
11810527 AGATATAAGA
11810537 GATATATGT
1 GATATATGT
*
11810546 G-T-TACGT
1 GATATATGT
11810553 GATATATGT
1 GATATATGT
*
11810562 GGTATATGT
1 GATATATGT
11810571 GATATATG
1 GATATATG
11810579 GGGATCACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
7 5 0.19
8 2 0.07
9 20 0.74
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.43
Consensus pattern (9 bp):
GATATATGT
Found at i:11814140 original size:21 final size:22
Alignment explanation
Indices: 11814109--11814153 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
11814099 AATAATGAAC
*
11814109 AAAAATGAAAATTAAAGCAAAT
1 AAAAATGAAAATTAAAGAAAAT
*
11814131 AAAAAT-AAAATTAATGAAAAT
1 AAAAATGAAAATTAAAGAAAAT
11814152 AA
1 AA
11814154 TGGGTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAATGAAAATTAAAGAAAAT
Found at i:11819835 original size:24 final size:24
Alignment explanation
Indices: 11819804--11819850 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11819794 AAATTTAATC
*
11819804 TAAAGAAAATAAAAATGTAATTTT
1 TAAAGAAAATAAAAATGAAATTTT
*
11819828 TAAAGAAAATAAAGATGAAATTT
1 TAAAGAAAATAAAAATGAAATTT
11819851 CTATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.30
Consensus pattern (24 bp):
TAAAGAAAATAAAAATGAAATTTT
Found at i:11822294 original size:6 final size:6
Alignment explanation
Indices: 11822283--11822443 Score: 250
Period size: 6 Copynumber: 26.8 Consensus size: 6
11822273 CTTCTAACAT
* * * *
11822283 TTCTTC TTCTTC TTATTC TTCTTA TTCTTA TTCTTA TTCTTC TTCTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
11822331 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
* * *
11822379 TTCTTC TTCTTC TTCTTC TTCTTC TTCGTC TTCATC TTCTTC TTCGTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
*
11822427 TTCTTC GTCTTC TTCTT
1 TTCTTC TTCTTC TTCTT
11822444 TGTTGAAAGT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 144 1.00
ACGTcount: A:0.03, C:0.30, G:0.02, T:0.65
Consensus pattern (6 bp):
TTCTTC
Found at i:11822295 original size:9 final size:9
Alignment explanation
Indices: 11822283--11822443 Score: 250
Period size: 9 Copynumber: 17.9 Consensus size: 9
11822273 CTTCTAACAT
11822283 TTCTTCTTC
1 TTCTTCTTC
*
11822292 TTCTTATTC
1 TTCTTCTTC
*
11822301 TTCTTATTC
1 TTCTTCTTC
* *
11822310 TTATTCTTA
1 TTCTTCTTC
11822319 TTCTTCTTC
1 TTCTTCTTC
11822328 TTCTTCTTC
1 TTCTTCTTC
11822337 TTCTTCTTC
1 TTCTTCTTC
11822346 TTCTTCTTC
1 TTCTTCTTC
11822355 TTCTTCTTC
1 TTCTTCTTC
11822364 TTCTTCTTC
1 TTCTTCTTC
11822373 TTCTTCTTC
1 TTCTTCTTC
11822382 TTCTTCTTC
1 TTCTTCTTC
11822391 TTCTTCTTC
1 TTCTTCTTC
*
11822400 TTCTTCGTC
1 TTCTTCTTC
*
11822409 TTCATCTTC
1 TTCTTCTTC
*
11822418 TTCTTCGTC
1 TTCTTCTTC
*
11822427 TTCTTCGTC
1 TTCTTCTTC
11822436 TTCTTCTT
1 TTCTTCTT
11822444 TGTTGAAAGT
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 140 1.00
ACGTcount: A:0.03, C:0.30, G:0.02, T:0.65
Consensus pattern (9 bp):
TTCTTCTTC
Found at i:11822595 original size:37 final size:36
Alignment explanation
Indices: 11822488--11822607 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
11822478 TGGCAACCAA
11822488 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
*
11822525 CTTTG-AAAATGGTTTACAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
11822560 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
11822597 -GTTGAAAAATG
1 CTTTGAAAAATG
11822608 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 31 0.41
36 18 0.24
37 27 0.36
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:11827153 original size:35 final size:36
Alignment explanation
Indices: 11827103--11827222 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
11827093 TGGCAACCAA
11827103 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
11827140 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
** *
11827175 CTTTGAAAAATATTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
11827212 -GTTGAAAAATG
1 CTTTGAAAAATG
11827223 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 31 0.41
36 18 0.24
37 27 0.36
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:11827566 original size:3 final size:3
Alignment explanation
Indices: 11827558--11827588 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11827548 TTTCCTAACA
*
11827558 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11827589 CACTATAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:11829258 original size:78 final size:78
Alignment explanation
Indices: 11829139--11829417 Score: 301
Period size: 78 Copynumber: 3.6 Consensus size: 78
11829129 ACCATCTTCC
* * * *
11829139 TCTCTTCCATCACCATTACTACCTGTCTCCACCCCCATTCACTCACCATCAATGTAGAATATACA
1 TCTCTTCCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCACCATCAATGCAGAATATACA
*
11829204 TTCACCAAACTTA
66 TTCACCAAACTCA
* * * *
11829217 TCTCTTTCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCACCATTAATGCATAATATATA
1 TCTCTTCCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCACCATCAATGCAGAATATACA
*
11829282 TTCACCACACTCA
66 TTCACCAAACTCA
* ** * * * * *
11829295 TCTCTTCCATAATTATTACTACATGCCTCCACCCTCGTTCACTCATCAAT-AATGCATAATCTAT
1 TCTCTTCCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCA-CCATCAATGCAGAATATAC
* *
11829359 ATTTACCATACTCA
65 ATTCACCAAACTCA
** * * *
11829373 TCTCTTCCATCATAATTATTACATCCCTCCACCCAT-GTTCACTCA
1 TCTCTTCCATCACCATTACTACCTGCCTCCACCC-TCGTTCACTCA
11829418 TCAATAGTGC
Statistics
Matches: 176, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
78 172 0.98
79 4 0.02
ACGTcount: A:0.28, C:0.35, G:0.04, T:0.33
Consensus pattern (78 bp):
TCTCTTCCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCACCATCAATGCAGAATATACA
TTCACCAAACTCA
Found at i:11829453 original size:78 final size:78
Alignment explanation
Indices: 11829139--11829463 Score: 259
Period size: 78 Copynumber: 4.2 Consensus size: 78
11829129 ACCATCTTCC
** * ** * * * * * *
11829139 TCTCTTCCATCACCATTACTACCTGTCTCCACCCCCATTCACTCA-CCATCAATGTAGAATATAC
1 TCTCTTCCATCATAATTACTACATCCCTCCACCCTCGTTCACTCATCAAT-AATGCATAATCTAC
* *
11829203 A-TTCACCAAACTTA
65 AGTT-ACCATACTCA
* ** * * * * * *
11829217 TCTCTTTCATCACCATTACTACCTGCCTCCACCCTCGTTCACTCACCATTAATGCATAATATATA
1 TCTCTTCCATCATAATTACTACATCCCTCCACCCTCGTTCACTCATCAATAATGCATAATCTACA
*
11829282 -TTCACCACACTCA
66 GTT-ACCATACTCA
* * * *
11829295 TCTCTTCCATAATTATTACTACATGCCTCCACCCTCGTTCACTCATCAATAATGCATAATCTATA
1 TCTCTTCCATCATAATTACTACATCCCTCCACCCTCGTTCACTCATCAATAATGCATAATCTACA
*
11829360 TTTACCATACTCA
66 GTTACCATACTCA
* *
11829373 TCTCTTCCATCATAATTATTACATCCCTCCACCCAT-GTTCACTCATCAATAGTGCA-ACATAC-
1 TCTCTTCCATCATAATTACTACATCCCTCCACCC-TCGTTCACTCATCAATAATGCATA-AT-CT
*
11829435 ACAGTTATCAT-CTCCA
63 ACAGTTACCATACT-CA
11829451 TCTCTTCCATCAT
1 TCTCTTCCATCAT
11829464 CATCTAAACA
Statistics
Matches: 213, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.01
78 204 0.96
79 6 0.03
ACGTcount: A:0.28, C:0.35, G:0.04, T:0.33
Consensus pattern (78 bp):
TCTCTTCCATCATAATTACTACATCCCTCCACCCTCGTTCACTCATCAATAATGCATAATCTACA
GTTACCATACTCA
Found at i:11830213 original size:15 final size:15
Alignment explanation
Indices: 11830193--11830226 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11830183 CTTTAGGTGG
*
11830193 AGATAAGAGGATAGT
1 AGATAAGAGAATAGT
*
11830208 AGATAAGAGAATGGT
1 AGATAAGAGAATAGT
11830223 AGAT
1 AGAT
11830227 TAATGAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (15 bp):
AGATAAGAGAATAGT
Found at i:11841524 original size:21 final size:21
Alignment explanation
Indices: 11841499--11841538 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11841489 CAATGGGATT
*
11841499 AGGATTAGGAATTGGATTTTG
1 AGGATTAGGAAGTGGATTTTG
*
11841520 AGGATTTGGAAGTGGATTT
1 AGGATTAGGAAGTGGATTT
11841539 GGTTGACGGT
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:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (21 bp):
AGGATTAGGAAGTGGATTTTG
Found at i:11841857 original size:26 final size:25
Alignment explanation
Indices: 11841806--11841856 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
11841796 CAAAACACAA
11841806 TAATTTGAAAATTAACAATTTTTTT
1 TAATTTGAAAATTAACAATTTTTTT
*
11841831 TAATTTCGAAAATTTA-AATTTTTTT
1 TAATTT-GAAAATTAACAATTTTTTT
11841856 T
1 T
11841857 TGGAAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TAATTTGAAAATTAACAATTTTTTT
Found at i:11842066 original size:20 final size:20
Alignment explanation
Indices: 11842029--11842067 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11842019 AGATTGAGTG
* * *
11842029 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
11842049 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
11842068 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:11842290 original size:20 final size:20
Alignment explanation
Indices: 11842261--11842298 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11842251 CCCCTTCAAA
*
11842261 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
11842281 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
11842299 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:11848585 original size:2 final size:2
Alignment explanation
Indices: 11848578--11848618 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11848568 TATTTACAAG
11848578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11848619 TATTAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11858338 original size:37 final size:37
Alignment explanation
Indices: 11858292--11858369 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
11858282 TGCATATTGA
11858292 TAATACAATTTCCAATTTTTTAAGTGAGAAATACCAT
1 TAATACAATTTCCAATTTTTTAAGTGAGAAATACCAT
11858329 TAATACAATTTCCAATTTTTTAAGTGAGAAATACCAT
1 TAATACAATTTCCAATTTTTTAAGTGAGAAATACCAT
11858366 TAAT
1 TAAT
11858370 TTCTTTCCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (37 bp):
TAATACAATTTCCAATTTTTTAAGTGAGAAATACCAT
Found at i:11861419 original size:40 final size:41
Alignment explanation
Indices: 11861353--11861500 Score: 199
Period size: 40 Copynumber: 3.6 Consensus size: 41
11861343 ATGAATTGAA
* *
11861353 AAAGTACGAGTTTATAGCGGCGTTTGTATAAAAACACCACT
1 AAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
* * * * *
11861394 AAAGTATGAGTCTAT-GCGGCATTTGTTTAAAAATGTCACT
1 AAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
11861434 AAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAACGCCACT
1 AAAGTACGAGTCTATAGCGGCGTTTGTAT-AAAAACGCCACT
* *
11861476 AAAATACGAGTCTTTAGCGGCGTTT
1 AAAGTACGAGTCTATAGCGGCGTTT
11861501 ATTGGAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 34 0.37
41 24 0.26
42 33 0.36
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (41 bp):
AAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
Found at i:11861516 original size:42 final size:41
Alignment explanation
Indices: 11861352--11861500 Score: 183
Period size: 42 Copynumber: 3.6 Consensus size: 41
11861342 TATGAATTGA
* *
11861352 AAAAGTACGAGTTTATAGCGGCGTTTGTATAAAAACACCACT
1 AAAA-TACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
* * * * * *
11861394 AAAGTATGAGTCTAT-GCGGCATTTGTTTAAAAATGTCACT
1 AAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
*
11861434 AAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAACGCCACT
1 AAAATACGAGTCTATAGCGGCGTTTGTAT-AAAAACGCCACT
*
11861476 AAAATACGAGTCTTTAGCGGCGTTT
1 AAAATACGAGTCTATAGCGGCGTTT
11861501 ATTGGAAAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
40 34 0.38
41 20 0.22
42 36 0.40
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (41 bp):
AAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
Found at i:11865498 original size:27 final size:27
Alignment explanation
Indices: 11865449--11865501 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11865439 AATTTATGCA
*
11865449 TATTTTATATTTAGGTTGATGATTTAG
1 TATTTTATATTTAGGTTCATGATTTAG
*
11865476 TATTTTATGTTTAGG-TCACTGATTTA
1 TATTTTATATTTAGGTTCA-TGATTTA
11865502 TTTCTGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.55
Consensus pattern (27 bp):
TATTTTATATTTAGGTTCATGATTTAG
Found at i:11874305 original size:13 final size:13
Alignment explanation
Indices: 11874287--11874311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11874277 TGAAGCAAAC
11874287 CCATCAGTAAGTG
1 CCATCAGTAAGTG
11874300 CCATCAGTAAGT
1 CCATCAGTAAGT
11874312 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:11874358 original size:42 final size:42
Alignment explanation
Indices: 11874299--11874595 Score: 238
Period size: 42 Copynumber: 6.9 Consensus size: 42
11874289 ATCAGTAAGT
* *
11874299 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCAG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
*
11874341 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
** ** * * * *
11874383 GTAATTTGTAAG-CCTTC-ACCGAATAGTAGTGAAGAAAATCCATCAGTAAG
1 GCCATCAGTAAGTCTTTCGA--GCAT-G-A-TGATG-AAATCCTTC-G---G
* * * *
11874433 TGCCATCAGCAAGTCTTTCGAGCATGACGATGAAGTCATTCGG
1 -GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
** * * *
11874476 GCCATCAGTAAGTCTTTTTAGCATGATGAGGAAGTCCTTTGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
* * ** *
11874518 GCCATTAGTAAGTCTTTCGAGCATGATGATTAAATCAATCTG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
* *
11874560 GCCATCAGTAAATCTTTCGAGCATGATGATTAAATC
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATC
11874596 ATTTGGGTCA
Statistics
Matches: 199, Mismatches: 43, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.01
41 4 0.02
42 151 0.76
43 2 0.01
44 1 0.01
45 3 0.02
46 9 0.05
47 7 0.04
48 3 0.02
49 1 0.01
50 2 0.01
51 10 0.05
52 4 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
Found at i:11874514 original size:135 final size:135
Alignment explanation
Indices: 11874173--11874514 Score: 495
Period size: 135 Copynumber: 2.5 Consensus size: 135
11874163 CACACTTAGT
* * ** *
11874173 AAGTCTTTCGAGCATGAAGATGAAATCCTTTGATCCATCAGTAAGGCTTTCGAGCATGATGATTA
1 AAGTCTTTCGAGCATGAAGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
* *
11874238 AGTCTTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAATGAAGCAAACCCATCAGTAAGTGCCA
66 AGTCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAATGAAGAAAACCCATCAGTAAGTGCCA
*
11874303 TCAGT
131 TCAGC
* *
11874308 AAGTCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
1 AAGTCTTTCGAGCATGAAGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
* * * * *
11874373 AATCCTTCGGGTAATTTGTAAGCCTTCACCGAATAGTAGTGAAGAAAATCCATCAGTAAGTGCCA
66 AGTCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAATGAAGAAAACCCATCAGTAAGTGCCA
11874438 TCAGC
131 TCAGC
* * ** **
11874443 AAGTCTTTCGAGCATGACGATGAAGTCATTCGGGCCATCAGTAAGTCTTTTTAGCATGATGAGGA
1 AAGTCTTTCGAGCATGAAGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
11874508 AGTCCTT
66 AGTCCTT
11874515 TGGGCCATTA
Statistics
Matches: 184, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 184 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (135 bp):
AAGTCTTTCGAGCATGAAGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
AGTCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAATGAAGAAAACCCATCAGTAAGTGCCA
TCAGC
Found at i:11875208 original size:53 final size:53
Alignment explanation
Indices: 11875082--11875449 Score: 485
Period size: 53 Copynumber: 7.0 Consensus size: 53
11875072 AGAATCATAC
* * *
11875082 CAGAAGATTGTTCGATTTTTACTCCCTGAAGCAAGAGGGAG-G-A-CTGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
11875132 CAGAAGATTGTCCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
11875185 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* **
11875238 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGTGAGTAAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * *
11875291 CAGAAGATTGTTCGAGTTCTACCCCCTGAAGTAAGAGGGAGTGAAACCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * ***
11875344 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
11875397 TAGAAGATTGTTCGAGTTCCTTAATCCCTGAA-TAAGAGGGAGC-AGACCCGTAG
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGA-ACCCGTAG
11875450 TTCAAAGACT
Statistics
Matches: 282, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
50 39 0.14
51 1 0.00
52 1 0.00
53 215 0.76
54 16 0.06
55 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:11879002 original size:22 final size:22
Alignment explanation
Indices: 11878971--11879013 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11878961 ACTGCACCGA
11878971 TCCACATGAGCTATAACTGCAG
1 TCCACATGAGCTATAACTGCAG
* *
11878993 TCCACGTGAGCTATAATTGCA
1 TCCACATGAGCTATAACTGCA
11879014 ACTTTCAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (22 bp):
TCCACATGAGCTATAACTGCAG
Found at i:11887800 original size:2 final size:2
Alignment explanation
Indices: 11887793--11887824 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11887783 ATAATAATTC
11887793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11887825 GTTCAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.