Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008449.1 Hibiscus syriacus cultivar Beakdansim tig00111254_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: 1344907
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:975368 original size:45 final size:45
Alignment explanation
Indices: 975317--975526 Score: 257
Period size: 45 Copynumber: 4.6 Consensus size: 45
975307 GAAAGGATGC
* * *
975317 CATAATTGAAATGCATATGGGTGCATTACTGGCATGAAAATATAT
1 CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAAGATAA
* **
975362 CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAATGATGC
1 CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAAGATAA
975407 CATAATTGAAATGCATATGGGTGCATTATTGGCAT-AAAAGGA-AGA
1 CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAA-GATA-A
* * * *
975452 CATAATTAAAATGCATATGGGTGCATTATTAGCATGAAAGGAT-G
1 CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAAGATAA
975496 CTATAATTGAAAATGCATAAT-GGTGCATTAT
1 C-ATAATTG-AAATGCAT-ATGGGTGCATTAT
975527 AAACATGAAT
Statistics
Matches: 145, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
44 4 0.03
45 118 0.81
46 21 0.14
47 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (45 bp):
CATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAAGATAA
Found at i:975392 original size:23 final size:23
Alignment explanation
Indices: 975321--975437 Score: 78
Period size: 23 Copynumber: 5.2 Consensus size: 23
975311 GGATGCCATA
975321 ATTGAAATGCATATGGGTGCATT
1 ATTGAAATGCATATGGGTGCATT
* ** * * *** *
975344 ACTGGCATGAAAATATAT-CATA
1 ATTGAAATGCATATGGGTGCATT
975366 ATTGAAATGCATATGGGTGCATT
1 ATTGAAATGCATATGGGTGCATT
** * * *
975389 ATTGGCATG-AAAT-GATGCCATA
1 ATTGAAATGCATATGGGTG-CATT
975411 ATTGAAATGCATATGGGTGCATT
1 ATTGAAATGCATATGGGTGCATT
975434 ATTG
1 ATTG
975438 GCATAAAAGG
Statistics
Matches: 62, Mismatches: 28, Indels: 8
0.63 0.29 0.08
Matches are distributed among these distances:
21 3 0.05
22 26 0.42
23 30 0.48
24 3 0.05
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTGAAATGCATATGGGTGCATT
Found at i:975440 original size:90 final size:90
Alignment explanation
Indices: 975307--975526 Score: 320
Period size: 90 Copynumber: 2.4 Consensus size: 90
975297 AAGGATATTG
* * * *
975307 GAAAGGATGCCATAATTGAAATGCATATGGGTGCATTACTGGCATGAAAA-TATA-TCATAATTG
1 GAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATTGGCAT-AAAAGGA-AGACATAATTA
*
975370 AAATGCATATGGGTGCATTATTGGCAT
64 AAATGCATATGGGTGCATTATTAGCAT
*
975397 GAAATGATGCCATAATTGAAATGCATATGGGTGCATTATTGGCATAAAAGGAAGACATAATTAAA
1 GAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATTGGCATAAAAGGAAGACATAATTAAA
975462 ATGCATATGGGTGCATTATTAGCAT
66 ATGCATATGGGTGCATTATTAGCAT
*
975487 GAAAGGATGCTATAATTGAAAATGCATAAT-GGTGCATTAT
1 GAAAGGATGCCATAATTG-AAATGCAT-ATGGGTGCATTAT
975527 AAACATGAAT
Statistics
Matches: 118, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
89 5 0.04
90 93 0.79
91 18 0.15
92 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (90 bp):
GAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATTGGCATAAAAGGAAGACATAATTAAA
ATGCATATGGGTGCATTATTAGCAT
Found at i:979464 original size:23 final size:23
Alignment explanation
Indices: 979438--979496 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
979428 ATAGCCTCCA
*
979438 ATGATTTTCATT-TTAATATAAAT
1 ATGATTTTAATTGTTAAT-TAAAT
*
979461 ATGATTTTAATTGTTGATTAAAT
1 ATGATTTTAATTGTTAATTAAAT
* *
979484 ATTAATTTAATTG
1 ATGATTTTAATTG
979497 ATATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (23 bp):
ATGATTTTAATTGTTAATTAAAT
Found at i:979738 original size:18 final size:18
Alignment explanation
Indices: 979715--979759 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
979705 TTTTAGAGAT
979715 GAAAATATATTATCAATA
1 GAAAATATATTATCAATA
979733 GAAAATATATTATCAATA
1 GAAAATATATTATCAATA
*
979751 TAAAATATA
1 GAAAATATA
979760 AAAAATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (18 bp):
GAAAATATATTATCAATA
Found at i:982743 original size:37 final size:37
Alignment explanation
Indices: 982693--982768 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
982683 CCAAGCATAT
982693 CATTACAATCCATAAAATATCTGCATCTGAAGGAACC
1 CATTACAATCCATAAAATATCTGCATCTGAAGGAACC
982730 CATTACAGA-CCATAAAATATCTGCATCTGAAGGAACC
1 CATTACA-ATCCATAAAATATCTGCATCTGAAGGAACC
982767 CA
1 CA
982769 AAAACCTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (37 bp):
CATTACAATCCATAAAATATCTGCATCTGAAGGAACC
Found at i:985010 original size:20 final size:21
Alignment explanation
Indices: 984987--985029 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
984977 GGTAAAAAAA
*
984987 TTACATAAAA-ATTATTATTT
1 TTACATAAAATATTAATATTT
*
985007 TTACCTAAAATATTAATATTT
1 TTACATAAAATATTAATATTT
985028 TT
1 TT
985030 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
TTACATAAAATATTAATATTT
Found at i:986040 original size:22 final size:24
Alignment explanation
Indices: 986015--986069 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
986005 TTGTAATTTT
986015 AAAA-AAAATTATATAAAATTTAA
1 AAAATAAAATTATATAAAATTTAA
*
986038 AAAATAAAATTATAT--ATTTTATA
1 AAAATAAAATTATATAAAATTTA-A
986061 AAAATAAAA
1 AAAATAAAA
986070 CACATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATAAAATTATATAAAATTTAA
Found at i:986051 original size:24 final size:23
Alignment explanation
Indices: 986008--986069 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
985998 CATATTCTTG
986008 TAATTT-T-AAAA-AAAATTATA
1 TAATTTATAAAAATAAAATTATA
986028 TAAAATTTA-AAAAATAAAATTATA
1 T--AATTTATAAAAATAAAATTATA
*
986052 TATTTTATAAAAATAAAA
1 TAATTTATAAAAATAAAA
986070 CACATACATT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
22 10 0.29
23 14 0.40
24 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATTTATAAAAATAAAATTATA
Found at i:987726 original size:21 final size:21
Alignment explanation
Indices: 987686--987726 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
987676 CAACAAATCA
*
987686 CTTCATCAAATGATCTTAACT
1 CTTCATCAAATGATCATAACT
987707 CTTCATCAAAATG-TCATAAC
1 CTTCATC-AAATGATCATAAC
987727 CTTTTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (21 bp):
CTTCATCAAATGATCATAACT
Found at i:994839 original size:80 final size:80
Alignment explanation
Indices: 994697--994845 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
994687 AAGGCAATTC
* * * *
994697 CTCACTCCTACCATGCAGTTGATGCTCTCTTGATCTAAGTGGAATTGAACTCAAAAAATTTGGTC
1 CTCACTCCTACCATGCAGTCGATGCTCTCTCGAGCTAAGTGGAATCGAACTCAAAAAATTTGGTC
994762 AACAAAATAGATCTT
66 AACAAAATAGATCTT
* * * **
994777 CTCACTGCTACCATGC-GATCGATGCTCTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGT
1 CTCACTCCTACCATGCAG-TCGATGCTCTCTCGAGCTAAGTGGAATCGAACTCAAAAAATTTGGT
994841 CAACA
65 CAACA
994846 GATAACTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (80 bp):
CTCACTCCTACCATGCAGTCGATGCTCTCTCGAGCTAAGTGGAATCGAACTCAAAAAATTTGGTC
AACAAAATAGATCTT
Found at i:995186 original size:200 final size:196
Alignment explanation
Indices: 994808--995187 Score: 508
Period size: 196 Copynumber: 1.9 Consensus size: 196
994798 ATGCTCTCTC
* * * *
994808 GAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCAACAGATAACTCTTCTCGCCTTAAGTTATGT
1 GAGCTGAGTGGAATCAAACTCGAAAGGTTTGGTCAACAGATAACTCTTATCACCTTAAGCTATGT
* * *
994873 CGAAACTTGACTGAGAAGTGGTTATTTTAACATTACAGTTAACCTAGGTCTTCTTCTTGGCTTAA
66 CGAAACTTAACTGAGAAATGGTTATTTTAACATCACAGTTAACCTAGGTCTTCTTCTTGGCTTAA
* * * *
994938 AGACCTCGGTTTGAATTTTGAGCGGAAGGTAGTTCCTTGTTGCTACCATGTGGTCAATACACACT
131 AGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATGTGGTCAATACACACT
995003 A
196 A
* * * *
995004 GAGCTGAGTGGAATCAAACTCGAAAGGTTTGGTCGACATATAGCTCTTATTACCTTAAGCTATGT
1 GAGCTGAGTGGAATCAAACTCGAAAGGTTTGGTCAACAGATAACTCTTATCACCTTAAGCTATGT
* * * * *
995069 CGAAACTTAACTGGGAAATGGTTTTTTGTTGCCACATCGCAGTTAACCTTGGTCTTCTTCTTGGC
66 CGAAACTTAACTGAGAAATGG-TTATT-TT--AACATCACAGTTAACCTAGGTCTTCTTCTTGGC
* * * *
995134 TTAAAGACATCGGTTTGAGTTTTTAATGGAAGGTAATTCTTTGTTACTACCATG
127 TTAAAGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATG
995188 AAATTAATGC
Statistics
Matches: 156, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
196 75 0.48
197 4 0.03
198 2 0.01
200 75 0.48
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (196 bp):
GAGCTGAGTGGAATCAAACTCGAAAGGTTTGGTCAACAGATAACTCTTATCACCTTAAGCTATGT
CGAAACTTAACTGAGAAATGGTTATTTTAACATCACAGTTAACCTAGGTCTTCTTCTTGGCTTAA
AGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATGTGGTCAATACACACT
A
Found at i:995226 original size:200 final size:196
Alignment explanation
Indices: 994803--995249 Score: 534
Period size: 200 Copynumber: 2.3 Consensus size: 196
994793 GATCGATGCT
* * * *
994803 CTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCAACAGATAACTCTTCTCGCCTTAAGT
1 CTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCGACAGATAACTCTTATCACCTTAAGC
* * *
994868 TATGTCGAAACTTGACTGAGAAGTGGTTATTTTAACATTACAGTTAACCTAGGTCTTCTTCTTGG
66 TATGTCGAAACTTAACTGAGAAATGGTTATTTTAACATCACAGTTAACCTAGGTCTTCTTCTTGG
* * * * ***
994933 CTTAAAGACCTCGGTTTGAATTTTGAGCGGAAGGTAGTTCCTTGTTGCTACCATGTGGTCAATAC
131 CTTAAAGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATGAAATCAATAC
994998 A
196 A
* * * * * *
994999 CACTAGAGCTGAGTGGAATCAAACTCGAAAGGTTTGGTCGACATATAGCTCTTATTACCTTAAGC
1 CTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCGACAGATAACTCTTATCACCTTAAGC
* * * * *
995064 TATGTCGAAACTTAACTGGGAAATGGTTTTTTGTTGCCACATCGCAGTTAACCTTGGTCTTCTTC
66 TATGTCGAAACTTAACTGAGAAATGG-TTATT-TT--AACATCACAGTTAACCTAGGTCTTCTTC
* * * * *
995129 TTGGCTTAAAGACATCGGTTTGAGTTTTTAATGGAAGGTAATTCTTTGTTACTACCATGAAATTA
127 TTGGCTTAAAGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATGAAATCA
*
995194 ATGCA
192 ATACA
* * * * *
995199 TTCTCGAGCTCAGTGAAATCGAACTCGAAAGCTTTGGTTGACAGATAACTC
1 CTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCGACAGATAACTC
995250 CTTTTACTTG
Statistics
Matches: 206, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
196 78 0.38
197 4 0.02
198 2 0.01
200 122 0.59
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (196 bp):
CTCTCGAGCTGAGTGGAATCGAACTCGAAAGGTTTGGTCGACAGATAACTCTTATCACCTTAAGC
TATGTCGAAACTTAACTGAGAAATGGTTATTTTAACATCACAGTTAACCTAGGTCTTCTTCTTGG
CTTAAAGACATCGGTTTGAATTTTGAACGGAAGGTAATTCCTTGTTACTACCATGAAATCAATAC
A
Found at i:999055 original size:18 final size:18
Alignment explanation
Indices: 999032--999066 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
999022 ACCTAGAAAA
999032 CCCATCCACGAATGAGGT
1 CCCATCCACGAATGAGGT
* *
999050 CCCATCTATGAATGAGG
1 CCCATCCACGAATGAGG
999067 AAAGGGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
CCCATCCACGAATGAGGT
Found at i:1005370 original size:14 final size:14
Alignment explanation
Indices: 1005338--1005376 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1005328 TTAATATGAT
*
1005338 GAAGAGAAG-AAAA
1 GAAGAAAAGAAAAA
1005351 -AAGAAAAGAAAAA
1 GAAGAAAAGAAAAA
1005364 GAAGAAAAGAAAA
1 GAAGAAAAGAAAA
1005377 TAAACAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 12 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
GAAGAAAAGAAAAA
Found at i:1007715 original size:17 final size:17
Alignment explanation
Indices: 1007674--1007715 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1007664 AAATGAAAAT
*
1007674 AAATAAAAAACAAAGAG
1 AAATAAAAAACAAAGAA
*
1007691 AAAGAAAAAA-AGAAGAA
1 AAATAAAAAACA-AAGAA
1007708 AAATAAAA
1 AAATAAAA
1007716 TTAAAAAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (17 bp):
AAATAAAAAACAAAGAA
Found at i:1007816 original size:14 final size:14
Alignment explanation
Indices: 1007797--1007823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1007787 TATAATATAT
1007797 TATGTTTTCAAAAC
1 TATGTTTTCAAAAC
1007811 TATGTTTTCAAAA
1 TATGTTTTCAAAA
1007824 ATTATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
TATGTTTTCAAAAC
Found at i:1007894 original size:19 final size:18
Alignment explanation
Indices: 1007833--1007894 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
1007823 AATTATATAT
*
1007833 TATATGTGTTTTCAAAAA
1 TATATATGTTTTCAAAAA
* *
1007851 T-TATATATTTTCAAAAT
1 TATATATGTTTTCAAAAA
1007868 TATAATATGTTTTCAAAAA
1 TAT-ATATGTTTTCAAAAA
1007887 CTATATAT
1 -TATATAT
1007895 ATTATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.39
18 2 0.06
19 17 0.47
20 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (18 bp):
TATATATGTTTTCAAAAA
Found at i:1007913 original size:30 final size:29
Alignment explanation
Indices: 1007866--1007949 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 29
1007856 TATTTTCAAA
1007866 ATTATAATATGTTTTCAAAAACTATATAT
1 ATTATAATATGTTTTCAAAAACTATATAT
*
1007895 ATTATATATATTTTTTCAAAAA-T-TATAT
1 ATTATA-ATATGTTTTCAAAAACTATATAT
1007923 A--AT-ATA--TTTTCAAAAACTATATTAT
1 ATTATAATATGTTTTCAAAAACTATA-TAT
1007948 AT
1 AT
1007950 ATTTTTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
22 10 0.20
23 1 0.02
24 5 0.10
25 4 0.08
26 2 0.04
28 6 0.12
29 7 0.14
30 14 0.29
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (29 bp):
ATTATAATATGTTTTCAAAAACTATATAT
Found at i:1007932 original size:22 final size:22
Alignment explanation
Indices: 1007895--1007978 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
1007885 AACTATATAT
*
1007895 ATTATAT-ATATTTTTTCAAAA
1 ATTATATAATATATTTTCAAAA
1007916 ATTATATAATATATTTTCAAAA
1 ATTATATAATATATTTTCAAAA
* * **
1007938 ACTATATTATATATTTT-TTAA
1 ATTATATAATATATTTTCAAAA
*
1007959 A-TATATAA-ATATATTCAAAA
1 ATTATATAATATATTTTCAAAA
1007979 CCACATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
19 6 0.12
20 8 0.15
21 10 0.19
22 28 0.54
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTATATAATATATTTTCAAAA
Found at i:1007934 original size:52 final size:50
Alignment explanation
Indices: 1007852--1007949 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 50
1007842 TTTCAAAAAT
*
1007852 TATATATTTTCAAAATTATAATATGTTTTCAAAAACTATA-TATATTATA
1 TATATATTTTCAAAATTATAATATATTTTCAAAAACTATATTATATTATA
*
1007901 TATATTTTTTCAAAAATTATATAATATATTTTCAAAAACTATATTATAT
1 TATATATTTTC-AAAA-T-TATAATATATTTTCAAAAACTATATTATAT
1007950 ATTTTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 10 0.23
50 4 0.09
51 1 0.02
52 23 0.53
53 5 0.12
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (50 bp):
TATATATTTTCAAAATTATAATATATTTTCAAAAACTATATTATATTATA
Found at i:1010741 original size:45 final size:45
Alignment explanation
Indices: 1010690--1010776 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
1010680 TTTCTCTCAA
1010690 TATGTTGGAACTATTACCAACATTACCAAACTTATTTCCTAAGAC
1 TATGTTGGAACTATTACCAACATTACCAAACTTATTTCCTAAGAC
* * * *
1010735 TATGTTGGAGCTATTACTAGCATTACCCAACTTATTTCCTAA
1 TATGTTGGAACTATTACCAACATTACCAAACTTATTTCCTAA
1010777 ACCTCTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (45 bp):
TATGTTGGAACTATTACCAACATTACCAAACTTATTTCCTAAGAC
Found at i:1015827 original size:102 final size:102
Alignment explanation
Indices: 1015651--1015855 Score: 324
Period size: 102 Copynumber: 2.0 Consensus size: 102
1015641 ACTTCAAATC
* *
1015651 TTTTTTTAAACATACTTTAAGGGGAGTCATCTCATCACACTTCCATCCCACACTCTAAGTGAAAG
1 TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGAAAG
*
1015716 GGAGCATACCTTCCATCCCC-GAGCTAGTC-GAGTAGAG
66 GAAGCATACCTTCCA-CCCCTGAGCTAGTCAG-GTAGAG
* * *
1015753 TTTTTTTAAGCATACTTTAAGGGGAGTCAGCTCGTCACACTACCATCTCACACTCTAAGTGAAAG
1 TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGAAAG
1015818 GAAGCATACCTTCCACCCCTGAGCTAGTCAGGTAGAG
66 GAAGCATACCTTCCACCCCTGAGCTAGTCAGGTAGAG
1015855 T
1 T
1015856 AATCTCGTGA
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 4 0.04
102 90 0.95
103 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (102 bp):
TTTTTTTAAACATACTTTAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGAAAG
GAAGCATACCTTCCACCCCTGAGCTAGTCAGGTAGAG
Found at i:1023686 original size:221 final size:223
Alignment explanation
Indices: 1023287--1023732 Score: 878
Period size: 221 Copynumber: 2.0 Consensus size: 223
1023277 TACAAAACAA
1023287 AATTGTTATTTAGATTTTACAAATTTTAAGATTATATTCGATTTAATCATTCGAATATATACAAT
1 AATTGTTATTTAGATTTTACAAATTTTAAGATTATATTCGATTTAATCATTCGAATATATACAAT
1023352 TATTCTTTAAAGTTAAAATGTCATTTTTTTACTCCACACTCTACTGAAAATTTGAGTCCTATACT
66 TATTCTTTAAAGTTAAAATGTCATTTTTTTACTCCACACTCTACTGAAAATTTGAGTCCTATACT
1023417 GGAAATATTTTTGAAATAATTTTTGCTGAGGATTTCAAACTTTAATCGAGTCAAAAATTATTTTA
131 GGAAATATTTTTGAAATAATTTTTGCTGAGGATTTCAAACTTTAATCGAGTCAAAAATTATTTTA
1023482 AGTAAAGTAGTACAGATACTACTGGAAC
196 AGTAAAGTAGTACAGATACTACTGGAAC
1023510 AATTGTTATTTAGA-TTTACAAATTTTAAGATTATATTCGA-TTAATCATTCGAATATATACAAT
1 AATTGTTATTTAGATTTTACAAATTTTAAGATTATATTCGATTTAATCATTCGAATATATACAAT
1023573 TATTCTTTAAAGTTAAAATGTCATTTTTTTACTCCACACTCTACTGAAAATTTGAGTCCTATACT
66 TATTCTTTAAAGTTAAAATGTCATTTTTTTACTCCACACTCTACTGAAAATTTGAGTCCTATACT
1023638 GGAAATATTTTTGAAATAATTTTTGCTGAGGATTTCAAACTTTAATCGAGTCAAAAATTATTTTA
131 GGAAATATTTTTGAAATAATTTTTGCTGAGGATTTCAAACTTTAATCGAGTCAAAAATTATTTTA
1023703 AGTAAAGTAGTACAGATACTACTGGAAC
196 AGTAAAGTAGTACAGATACTACTGGAAC
1023731 AA
1 AA
1023733 CACCGATACT
Statistics
Matches: 223, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
221 183 0.82
222 26 0.12
223 14 0.06
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (223 bp):
AATTGTTATTTAGATTTTACAAATTTTAAGATTATATTCGATTTAATCATTCGAATATATACAAT
TATTCTTTAAAGTTAAAATGTCATTTTTTTACTCCACACTCTACTGAAAATTTGAGTCCTATACT
GGAAATATTTTTGAAATAATTTTTGCTGAGGATTTCAAACTTTAATCGAGTCAAAAATTATTTTA
AGTAAAGTAGTACAGATACTACTGGAAC
Found at i:1027188 original size:14 final size:14
Alignment explanation
Indices: 1027163--1027198 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1027153 ATGATGGTAA
1027163 AAGAATAAAAAGATC
1 AAGAA-AAAAAGATC
*
1027178 AAGAAAAAAAGATG
1 AAGAAAAAAAGATC
1027192 AAGAAAA
1 AAGAAAA
1027199 TAAGGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (14 bp):
AAGAAAAAAAGATC
Found at i:1035803 original size:75 final size:76
Alignment explanation
Indices: 1035736--1035899 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 76
1035726 AAAAAATAAT
* *
1035736 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1035800 AAAATATAAAA
66 AAAATATAAAA
* *
1035811 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAACGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
* * *
1035875 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
1035887 ATATTATCCTAAA
1 ATAATATCCTAAA
1035900 TTTGAGTTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.41
76 47 0.59
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
AAAATATAAAA
Found at i:1044478 original size:69 final size:69
Alignment explanation
Indices: 1044367--1044503 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
1044357 TTTATACATT
1044367 CATGAGAACATCATTTGCATAAAAGAAAATGCATTACACTGATACATTTAATTGCATTCGTGTTT
1 CATGAGAACATCATTTGCATAAAAGAAAATGCATTACACTGATACATTTAATTGCATTCGTGTTT
1044432 CATG
66 CATG
1044436 CATGAGAACATCATTTGCATAAAAGAAAATGCATTACACTGATACATTTAATTGCATTCGTGTTT
1 CATGAGAACATCATTTGCATAAAAGAAAATGCATTACACTGATACATTTAATTGCATTCGTGTTT
1044501 CAT
66 CAT
1044504 TCATAAGCAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (69 bp):
CATGAGAACATCATTTGCATAAAAGAAAATGCATTACACTGATACATTTAATTGCATTCGTGTTT
CATG
Found at i:1045072 original size:42 final size:42
Alignment explanation
Indices: 1045026--1045107 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
1045016 AAGTCCTTCG
*
1045026 GGCCATAAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAA
1 GGCCATAAATAAGTCTTTCGAGCATGATGATTAAATCCTTAA
* *
1045068 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
1 GGCCATAAATAAGTCTTTCGAGCATGATGATTAAATCCTT
1045108 CGGGTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (42 bp):
GGCCATAAATAAGTCTTTCGAGCATGATGATTAAATCCTTAA
Found at i:1045166 original size:80 final size:80
Alignment explanation
Indices: 1045070--1045320 Score: 430
Period size: 80 Copynumber: 3.1 Consensus size: 80
1045060 ATCCTTAAGG
*
1045070 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1045135 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* *
1045150 CCATCAGTAAGGCTTTCAAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCAAAG
1 CCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1045215 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* * * *
1045230 TCATCAGTAAGGCTTTCGAGCATGATGATTAAGTCTTTCAGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
*
1045295 AGTAATGAAGCAAAT
66 AGTAGTGAAGCAAAT
1045310 CCATCAGTAAG
1 CCATCAGTAAG
1045321 TGTCATCAGT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 160 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (80 bp):
CCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
AGTAGTGAAGCAAAT
Found at i:1045362 original size:22 final size:21
Alignment explanation
Indices: 1045330--1045404 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
1045320 GTGTCATCAG
*
1045330 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
1045351 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
1045372 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
1045393 TTAAATCCTTCG
1 -TAAGTCCTTCG
1045405 GGTAATTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 2 0.05
22 20 0.49
23 4 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:1045382 original size:20 final size:19
Alignment explanation
Indices: 1045324--1045387 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
1045314 CAGTAAGTGT
1045324 CATCAGTAAGTCTTTCGAG
1 CATCAGTAAGTCTTTCGAG
* * *
1045343 CATGATGATGAAGTCCTTCGGG
1 CATCA-G-T-AAGTCTTTCGAG
1045365 CCATCAGTAAGTCTTTCGAG
1 -CATCAGTAAGTCTTTCGAG
1045385 CAT
1 CAT
1045388 GATGATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 2 0.06
22 11 0.31
23 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (19 bp):
CATCAGTAAGTCTTTCGAG
Found at i:1045383 original size:42 final size:42
Alignment explanation
Indices: 1045324--1045406 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
1045314 CAGTAAGTGT
*
1045324 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
*
1045366 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGG
1045407 TAATTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
Found at i:1046089 original size:106 final size:106
Alignment explanation
Indices: 1045904--1046156 Score: 337
Period size: 106 Copynumber: 2.4 Consensus size: 106
1045894 TAAATCACAC
* * **
1045904 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGAGAACGAACCCGTAAACAGAAGATTGTT
* * *
1045969 CGAGTTCTACTCCCTAAAGCAAGAGGGATCAAACCCGTAAG
66 CGAGTTATACTCCCTAAAGCAAGAGGGAGCAAACCCATAAG
1046010 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGAGAACGAACCCGTAAACAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGAGAACGAACCCGTAAACAGAAGATTGTT
* * * ***
1046075 CGAGTTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTT
66 CGAGTTATACTCCCTAAAGCAAGAGGGAGCAAACCCATAAG
* * *
1046116 TAAAAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGAGA
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGAGA
1046157 GACACATCAT
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
106 109 0.84
107 10 0.08
108 10 0.08
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (106 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGAGAACGAACCCGTAAACAGAAGATTGTT
CGAGTTATACTCCCTAAAGCAAGAGGGAGCAAACCCATAAG
Found at i:1046133 original size:53 final size:53
Alignment explanation
Indices: 1045904--1046110 Score: 333
Period size: 53 Copynumber: 3.9 Consensus size: 53
1045894 TAAATCACAC
*
1045904 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
1045957 CAGAAGATTGTTCGAGTTCTACTCCCTAAAGCAAGAGGGATCAAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
1046010 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGAGAACGAACCCGTAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
1046063 CAGAAGATTGTTCGAGTTATACTCCCTGAAGCAATAGGGAGCGAACCC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC
1046111 ATTTTTAAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 141 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:1049422 original size:14 final size:14
Alignment explanation
Indices: 1049381--1049433 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
1049371 TAAAGCTCGC
1049381 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
**
1049395 -AAATAAAACGAAAA
1 TAAA-AAAATAAAAA
1049409 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
* *
1049423 CAAAAATATAA
1 TAAAAAAATAA
1049434 CAAAATGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 3 0.10
14 25 0.81
15 3 0.10
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:1049422 original size:20 final size:20
Alignment explanation
Indices: 1049384--1049430 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1049374 AGCTCGCTAA
1049384 AAAAATAAAAAAAATAAAAC
1 AAAAATAAAAAAAATAAAAC
*
1049404 GAAAAT-AAAAAAATAAAAAC
1 AAAAATAAAAAAAAT-AAAAC
1049424 AAAAATA
1 AAAAATA
1049431 TAACAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAATAAAAAAAATAAAAC
Found at i:1049427 original size:19 final size:20
Alignment explanation
Indices: 1049385--1049421 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
1049375 GCTCGCTAAA
1049385 AAAATAAAAAAAATAAAACG
1 AAAATAAAAAAAATAAAACG
1049405 AAAAT-AAAAAAATAAAA
1 AAAATAAAAAAAATAAAA
1049422 ACAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAATAAAAAAAATAAAACG
Found at i:1055103 original size:22 final size:23
Alignment explanation
Indices: 1055078--1055120 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1055068 AAAAAATAAG
1055078 AATTAAAAAAATTAA-ATAAACA
1 AATTAAAAAAATTAAGATAAACA
* *
1055100 AATTAAAGAGATTAAGATAAA
1 AATTAAAAAAATTAAGATAAA
1055121 GAGAAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (23 bp):
AATTAAAAAAATTAAGATAAACA
Found at i:1055905 original size:76 final size:74
Alignment explanation
Indices: 1055737--1055905 Score: 223
Period size: 76 Copynumber: 2.2 Consensus size: 74
1055727 AAATACCTAA
*
1055737 AAAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAATAT--TATTCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAA
1055802 AGATAAAATAT
64 AGATAAAATAT
* * *
1055813 AAAAGTAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAA-TATTATTCTAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAA
* *
1055878 A-ATATAATGTTT
64 AGATA-AA-ATAT
1055890 AAAATATTATTCTAAA
1 AAAATATTATTCTAAA
1055906 TTTGAGTTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
75 25 0.31
76 48 0.59
77 8 0.10
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (74 bp):
AAAATATTATTCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAG
ATAAAATAT
Found at i:1067143 original size:22 final size:23
Alignment explanation
Indices: 1067099--1067162 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
1067089 AAAATAATAT
1067099 AATATATTATTAT-ATA--AATG
1 AATATATTATTATAATATTAATG
1067119 AATATATTATTATAATATTAA-G
1 AATATATTATTATAATATTAATG
*
1067141 AATAT-TATATTATATTATTAAT
1 AATATAT-TATTATAATATTAAT
1067163 ATATTAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 13 0.34
21 4 0.11
22 19 0.50
23 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
AATATATTATTATAATATTAATG
Found at i:1067186 original size:50 final size:50
Alignment explanation
Indices: 1067072--1067187 Score: 139
Period size: 50 Copynumber: 2.4 Consensus size: 50
1067062 ATGATTCATT
*
1067072 ATATATTATTAAAATA--AAAAATAATATAATATATTATTATATAAATGA
1 ATATATTATTAAAATATTAAGAATAATATAATATATTATTATATAAATGA
* * * * *
1067120 ATATATTATTATAATATTAAGAATATTATATTATATTATTA-ATATATTA
1 ATATATTATTAAAATATTAAGAATAATATAATATATTATTATATAAATGA
*
1067169 ATATATTTTTTAAAATATT
1 ATATA-TTATTAAAATATT
1067188 TTGATAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
48 15 0.26
49 11 0.19
50 31 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (50 bp):
ATATATTATTAAAATATTAAGAATAATATAATATATTATTATATAAATGA
Found at i:1069695 original size:17 final size:17
Alignment explanation
Indices: 1069669--1069820 Score: 169
Period size: 17 Copynumber: 8.9 Consensus size: 17
1069659 AATTGAGAGT
1069669 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
*
1069686 TAGCTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
1069703 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
1069720 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
1069737 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
1069754 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* *
1069771 TAACTTTATTAAATGAAC
1 T-AGTTTAATAAATGAAC
** * * *
1069789 TAGAGTCATGAATGAAG
1 TAGTTTAATAAATGAAC
*
1069806 TAGTTTACTAAATGA
1 TAGTTTAATAAATGA
1069821 TCTAAAGGCA
Statistics
Matches: 109, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
17 95 0.87
18 14 0.13
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:1072909 original size:45 final size:44
Alignment explanation
Indices: 1072816--1073185 Score: 465
Period size: 45 Copynumber: 8.3 Consensus size: 44
1072806 ATAAAATGAG
* * *
1072816 TGGCACCTTTTAGGCCAATAATGCACTTTATGCATTTTCA-TTA
1 TGGCACCTTTTATGCCGATAATGCACGTTATGCATTTTCATTTA
* *
1072859 GTGGCACCTTTTATGCCGATAATGCATCATTATGTATTTTCATTTA
1 -TGGCACCTTTTATGCCGATAATGCA-CGTTATGCATTTTCATTTA
***
1072905 TGGCACCTTTTATGTTAATAATGCACTGTTATGCATTTTCATTTA
1 TGGCACCTTTTATGCCGATAATGCAC-GTTATGCATTTTCATTTA
* * *
1072950 TGACATCTTTTATGCCGATAAAGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTTATGCCGATAATGCA-CGTTATGCATTTTCATTTA
**
1072995 TGGCACCTTTTATGTTGATAATGCACTGTTATGCA-TTTCATTTA
1 TGGCACCTTTTATGCCGATAATGCAC-GTTATGCATTTTCATTTA
*
1073039 TGGCACCTTTTATGCCGATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTTATGCCGATAATGCA-CGTTATGCATTTTCATTTA
* * *
1073084 TGGCACCTTTTATGTCGATAATGCACTTTTATGCATTTTTATTTA
1 TGGCACCTTTTATGCCGATAATGCAC-GTTATGCATTTTCATTTA
* * * *
1073129 TGGCACCTTTTATGCTGAAAATGAACCGTTATGGATTTTCATTTA
1 TGGCACCTTTTATGCCGATAATGCA-CGTTATGCATTTTCATTTA
1073174 TGGCACCTTTTA
1 TGGCACCTTTTA
1073186 AGTTGATTCA
Statistics
Matches: 284, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
44 65 0.23
45 214 0.75
46 5 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (44 bp):
TGGCACCTTTTATGCCGATAATGCACGTTATGCATTTTCATTTA
Found at i:1072964 original size:90 final size:90
Alignment explanation
Indices: 1072816--1073185 Score: 539
Period size: 90 Copynumber: 4.1 Consensus size: 90
1072806 ATAAAATGAG
* *
1072816 TGGCACCTTTTAGGCCAATAATGCACT-TTATGCATTTTCA-TTAGTGGCACCTTTTATGCCGAT
1 TGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTA-TGGCACCTTTTATGCCGAT
* *
1072879 AATGCATCATTATGTATTTTCATTTA
65 AATGCACCATTATGCATTTTCATTTA
* * *
1072905 TGGCACCTTTTATGTTAATAATGCACTGTTATGCATTTTCATTTATGACATCTTTTATGCCGATA
1 TGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTTATGCCGATA
* *
1072970 AAGCACCGTTATGCATTTTCATTTA
66 ATGCACCATTATGCATTTTCATTTA
**
1072995 TGGCACCTTTTATGTTGATAATGCACTGTTATGCA-TTTCATTTATGGCACCTTTTATGCCGATA
1 TGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTTATGCCGATA
1073059 ATGCACCATTATGCATTTTCATTTA
66 ATGCACCATTATGCATTTTCATTTA
* * * * *
1073084 TGGCACCTTTTATGTCGATAATGCACTTTTATGCATTTTTATTTATGGCACCTTTTATGCTGAAA
1 TGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTTATGCCGATA
* * *
1073149 ATGAACCGTTATGGATTTTCATTTA
66 ATGCACCATTATGCATTTTCATTTA
1073174 TGGCACCTTTTA
1 TGGCACCTTTTA
1073186 AGTTGATTCA
Statistics
Matches: 256, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
89 107 0.42
90 146 0.57
91 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (90 bp):
TGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTTATGCCGATA
ATGCACCATTATGCATTTTCATTTA
Found at i:1073097 original size:26 final size:26
Alignment explanation
Indices: 1073067--1073143 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
1073057 TAATGCACCA
1073067 TTATGCATTTTCATTTATGGCACCTT
1 TTATGCATTTTCATTTATGGCACCTT
*
1073093 TTATG-----TCGA-TAAT-GCA-CTT
1 TTATGCATTTTC-ATTTATGGCACCTT
*
1073112 TTATGCATTTTTATTTATGGCACCTT
1 TTATGCATTTTCATTTATGGCACCTT
1073138 TTATGC
1 TTATGC
1073144 TGAAAATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 5 0.13
22 1 0.03
23 1 0.03
24 4 0.10
25 3 0.08
26 14 0.36
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (26 bp):
TTATGCATTTTCATTTATGGCACCTT
Found at i:1073118 original size:179 final size:179
Alignment explanation
Indices: 1072833--1073192 Score: 564
Period size: 179 Copynumber: 2.0 Consensus size: 179
1072823 TTTTAGGCCA
* *
1072833 ATAATGCACTTTATGCATTTTCATTAGTGGCACCTTTTATGCCGATAATGCATCATTATGTATTT
1 ATAATGCACTTTATGCATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCATTT
* *
1072898 TCATTTATGGCACCTTTTATGTTAATAATGCACTGTTATGCATTTTCATTTATGACATCTTTTAT
66 TCATTTATGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGACACCTTTTAT
* *
1072963 GCCGATAAA-GCACCGTTATGCATTTTCATTTATGGCACCTTTTATGTTG
131 GCCGA-AAATGAACCGTTATGCATTTTCATTTATGGCACCTTTTAAGTTG
1073012 ATAATGCACTGTTATGCA-TTTCATTTA-TGGCACCTTTTATGCCGATAATGCACCATTATGCAT
1 ATAATGCACT-TTATGCATTTTCA-TTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* * * *
1073075 TTTCATTTATGGCACCTTTTATGTCGATAATGCACTTTTATGCATTTTTATTTATGGCACCTTTT
64 TTTCATTTATGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGACACCTTTT
* *
1073140 ATGCTGAAAATGAACCGTTATGGATTTTCATTTATGGCACCTTTTAAGTTG
129 ATGCCGAAAATGAACCGTTATGCATTTTCATTTATGGCACCTTTTAAGTTG
1073191 AT
1 AT
1073193 TCATAGATTT
Statistics
Matches: 166, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
178 3 0.02
179 153 0.92
180 10 0.06
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (179 bp):
ATAATGCACTTTATGCATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCATTT
TCATTTATGGCACCTTTTATGTCAATAATGCACTGTTATGCATTTTCATTTATGACACCTTTTAT
GCCGAAAATGAACCGTTATGCATTTTCATTTATGGCACCTTTTAAGTTG
Found at i:1073666 original size:34 final size:34
Alignment explanation
Indices: 1073627--1073710 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 34
1073617 ATTCCTCCTA
*
1073627 GTATCGATACCATTTCTGTATTCTGGAATCCATG
1 GTATCGATACCATTTCTGTATTCTAGAATCCATG
* *
1073661 GTATCGATACCATTTTTGTATTCTAGAATCTATG
1 GTATCGATACCATTTCTGTATTCTAGAATCCATG
1073695 GTATCGATA-CATTTCT
1 GTATCGATACCATTTCT
1073711 CTTAGTATCG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 6 0.13
34 40 0.87
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (34 bp):
GTATCGATACCATTTCTGTATTCTAGAATCCATG
Found at i:1074420 original size:8 final size:8
Alignment explanation
Indices: 1074407--1074433 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1074397 CCAAAATACC
1074407 CTTTCATT
1 CTTTCATT
1074415 CTTTCATT
1 CTTTCATT
1074423 CTTTCATT
1 CTTTCATT
1074431 CTT
1 CTT
1074434 ACTAATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (8 bp):
CTTTCATT
Found at i:1080211 original size:45 final size:45
Alignment explanation
Indices: 1080143--1080341 Score: 247
Period size: 45 Copynumber: 4.4 Consensus size: 45
1080133 ATACCATAAG
* * * *
1080143 TGGCACCTTTTATG-CAAATAATGCACCGTTATACATTTTCATTAA
1 TGGCACCTTTTATGTC-GATAATGCACCATTATGCATTTTCATTTA
* * * * * *
1080188 TGGTACCTTTCATGCCGATAATGCACCGTTATGTATTCTCATTTA
1 TGGCACCTTTTATGTCGATAATGCACCATTATGCATTTTCATTTA
** *
1080233 TGGCACCTTTTATGTTAATAATTCACCATTATGCATTTTCATTTA
1 TGGCACCTTTTATGTCGATAATGCACCATTATGCATTTTCATTTA
* *
1080278 TGGCATCTTTTACGTCGATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTTATGTCGATAATGCACCATTATGCATTTTCATTTA
1080323 TGGCACCTTTTATGTCGAT
1 TGGCACCTTTTATGTCGAT
1080342 TCATAGATTT
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 129 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (45 bp):
TGGCACCTTTTATGTCGATAATGCACCATTATGCATTTTCATTTA
Found at i:1091147 original size:84 final size:85
Alignment explanation
Indices: 1090976--1091139 Score: 269
Period size: 85 Copynumber: 1.9 Consensus size: 85
1090966 ATGTTTTTAA
*
1090976 TATTATATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGATGTTAGTATTTCAATTAGGATT
1 TATTTTATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGATGTTAGTATTTCAATTAGGATT
*
1091041 TAGGATATTATTTTAAATAT
66 TAAGATATTATTTTAAATAT
* *
1091061 TATTTTATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG-T-TTAAGTATTTTAATTAGGAT
1 TATTTTATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGATGTT-AGTATTTCAATTAGGAT
1091124 TTAAGATATTATTTTA
65 TTAAGATATTATTTTA
1091140 GGAATTATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 2 0.03
84 32 0.43
85 40 0.54
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (85 bp):
TATTTTATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGATGTTAGTATTTCAATTAGGATT
TAAGATATTATTTTAAATAT
Found at i:1097562 original size:5 final size:5
Alignment explanation
Indices: 1097536--1097652 Score: 87
Period size: 5 Copynumber: 22.8 Consensus size: 5
1097526 ACACATTCCT
* *
1097536 TTTTA TTTTCA TTTTA ATTTA TTTTA TTTTCT TTTTA TTTCT- TTTTA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTT-A TTTTA TTT-TA TTTTA
* ** * * *
1097583 TTTTCA TTTTA TTTTTA ATAAA CTTTA TATTA TTCTA -TTTA TTTTAA
1 TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A
1097630 TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
1097653 TTTCTCTTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
4 8 0.09
5 55 0.62
6 25 0.28
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:1097562 original size:21 final size:20
Alignment explanation
Indices: 1097536--1097652 Score: 98
Period size: 21 Copynumber: 5.8 Consensus size: 20
1097526 ACACATTCCT
1097536 TTTTATTTTCATTTTAATTTA
1 TTTTATTTTCATTTT-ATTTA
* *
1097557 TTTTATTTTCTTTTTATTTCT
1 TTTTATTTTCATTTTATTT-A
1097578 TTTTATTTTCATTTTATTT-
1 TTTTATTTTCATTTTATTTA
* * *
1097597 TTAATAAACTTT-ATATTATTCTA
1 TT--T-TATTTTCATTTTATT-TA
*
1097620 -TTTATTTTAATTTTATTTA
1 TTTTATTTTCATTTTATTTA
1097639 TTTTATTTT-ATTTT
1 TTTTATTTTCATTTT
1097653 TTTCTCTTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
19 13 0.16
20 20 0.25
21 40 0.51
22 6 0.08
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTTCATTTTATTTA
Found at i:1097573 original size:11 final size:11
Alignment explanation
Indices: 1097536--1097597 Score: 83
Period size: 11 Copynumber: 5.8 Consensus size: 11
1097526 ACACATTCCT
1097536 TTTTATTTTCA
1 TTTTATTTTCA
*
1097547 TTTTAATTT-A
1 TTTTATTTTCA
*
1097557 TTTTATTTTCT
1 TTTTATTTTCA
*
1097568 TTTTA-TTTCT
1 TTTTATTTTCA
1097578 TTTTATTTTCA
1 TTTTATTTTCA
1097589 TTTTATTTT
1 TTTTATTTT
1097598 TAATAAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 19 0.42
11 26 0.58
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:1100602 original size:37 final size:35
Alignment explanation
Indices: 1100559--1100648 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 35
1100549 AATAATTCGG
* * *
1100559 AGAAAAAAAATAAAGTTGTTCACTGTTTCGAACAGT
1 AGAAAAAAAAAAAAGATGTTCACTATTTCGAACA-T
* *
1100595 ATAAAAAAAGAAAAAAATGTTCACTATTTCGAACAT
1 AGAAAAAAA-AAAAAGATGTTCACTATTTCGAACAT
1100631 AGAAAGAAAAAAGAAAGA
1 AGAAA-AAAAAA-AAAGA
1100649 AAATTGATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 15 0.34
37 29 0.66
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (35 bp):
AGAAAAAAAAAAAAGATGTTCACTATTTCGAACAT
Found at i:1101030 original size:15 final size:15
Alignment explanation
Indices: 1101010--1101044 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1101000 TTGGGATATC
1101010 TTACTCACTTTAAAT
1 TTACTCACTTTAAAT
1101025 TTACTCACTTTAAAT
1 TTACTCACTTTAAAT
1101040 TTACT
1 TTACT
1101045 TAGTTTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTACTCACTTTAAAT
Found at i:1101664 original size:85 final size:85
Alignment explanation
Indices: 1101543--1101720 Score: 263
Period size: 85 Copynumber: 2.1 Consensus size: 85
1101533 AAATTTTAAC
* *
1101543 TATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATGTT-AGT-ATTTCAATTAGGA
1 TATTTTATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAG-TGTTAAGTGATTT-AATTAGGA
*
1101606 TTTAGGATATTATTTTA-AATAT
64 TTTAAGATATTATTTTAGAA-AT
*
1101628 TATTTTATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGTTTTAAGTGATTTAATTAGGATT
1 TATTTTATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGTGTTAAGTGATTTAATTAGGATT
1101693 TAAGATATTATTTTAGAAAT
66 TAAGATATTATTTTAGAAAT
1101713 TATCTTTA
1 TAT-TTTA
1101721 GCTTGTTTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
84 3 0.04
85 72 0.85
86 10 0.12
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.54
Consensus pattern (85 bp):
TATTTTATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGTGTTAAGTGATTTAATTAGGATT
TAAGATATTATTTTAGAAAT
Found at i:1102468 original size:19 final size:18
Alignment explanation
Indices: 1102441--1102502 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
1102431 TTACCATAAG
*
1102441 TTTTCTTTATCTTAATATA
1 TTTTATTTATCTTAAT-TA
1102460 TTTTATTTAT-TTAATTA
1 TTTTATTTATCTTAATTA
*
1102477 -TTTATTTAATCTTTATCT-
1 TTTTATTT-ATCTTAAT-TA
1102495 TTTTATTT
1 TTTTATTT
1102503 CTTTAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 9 0.24
19 17 0.46
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTTATCTTAATTA
Found at i:1102479 original size:12 final size:12
Alignment explanation
Indices: 1102462--1102486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1102452 TTAATATATT
1102462 TTATTTATTTAA
1 TTATTTATTTAA
1102474 TTATTTATTTAA
1 TTATTTATTTAA
1102486 T
1 T
1102487 CTTTATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:1103752 original size:44 final size:44
Alignment explanation
Indices: 1103703--1103792 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
1103693 GTGTTGTCCA
1103703 TGGTGCATCAAAGGTCGTTTGGTTAATATCGTTGCCGAAAAATT
1 TGGTGCATCAAAGGTCGTTTGGTTAATATCGTTGCCGAAAAATT
1103747 TGGTGCATCAAAGGTCGTTTGGTTAATATCGTTGCCGAAAAATT
1 TGGTGCATCAAAGGTCGTTTGGTTAATATCGTTGCCGAAAAATT
1103791 TG
1 TG
1103793 AGCATTGAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (44 bp):
TGGTGCATCAAAGGTCGTTTGGTTAATATCGTTGCCGAAAAATT
Found at i:1104391 original size:35 final size:35
Alignment explanation
Indices: 1104345--1104543 Score: 230
Period size: 35 Copynumber: 5.8 Consensus size: 35
1104335 TGAGCAATTA
** *
1104345 AATCGAAAGTGCTTATGCTTCCTCCCGTTCACTTG
1 AATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTG
** *
1104380 AATCGAAAGTGCCGATGCTTTATTTCGTT--CTTG
1 AATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTG
*
1104413 AATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTG
1 AATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTG
* * * *
1104448 AATCGAAAGTGCCGATGCTTCATTTCATTCTTCTTG
1 AATCGAAAGTGCCGATGCTTCCTTCCGTTC-ACTTG
*
1104484 AATCGAAAGTGTCGATG----CTTCCGTTCACTTG
1 AATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTG
*
1104515 AATCGAAAGTGCCGATGCTTCCTTTCGTT
1 AATCGAAAGTGCCGATGCTTCCTTCCGTT
1104544 GTTCTTATTC
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
31 20 0.15
32 6 0.04
33 29 0.21
35 60 0.44
36 20 0.15
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (35 bp):
AATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTG
Found at i:1104454 original size:68 final size:68
Alignment explanation
Indices: 1104345--1104543 Score: 282
Period size: 68 Copynumber: 2.9 Consensus size: 68
1104335 TGAGCAATTA
* * *
1104345 AATCGAAAGTG-CTTATGCTTCCTCCCGTTCACTTGAATCGAAAGTGCCGATGCTTTATTTCGTT
1 AATCGAAAGTGTC-GATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCGTT
1104409 CTTG
65 CTTG
*
1104413 AATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCATTC
1 AATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTC---G
1104478 TTCTTG
63 TTCTTG
*
1104484 AATCGAAAGTGTCGATG----CTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTT
1 AATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCGTT
1104544 GTTCTTATTC
Statistics
Matches: 121, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
64 2 0.02
67 39 0.32
68 56 0.46
69 1 0.01
71 23 0.19
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (68 bp):
AATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCGTTC
TTG
Found at i:1104535 original size:67 final size:67
Alignment explanation
Indices: 1104369--1104549 Score: 269
Period size: 67 Copynumber: 2.7 Consensus size: 67
1104359 ATGCTTCCTC
*
1104369 CCGTTCACTTGAATCGAAAGTGCCGATGCTTTATTTC--GTTCTTGAATCGAAAGTGTCGATGCT
1 CCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCTTGTTCTTGAATCGAAAGTGTCGATG--
1104432 TCCTT
64 -CCTT
*
1104437 CCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCATTCTTCTTGAATCGAAAGTGTCGATG-
1 CCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTC-TTGTTCTTGAATCGAAAGTGTCGATGC
1104501 CTT
65 CTT
*
1104504 CCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTGTTCTT
1 CCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTC-TTGTTCTT
1104550 ATTCACCTTC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
67 46 0.44
68 36 0.34
71 23 0.22
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (67 bp):
CCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCTTGTTCTTGAATCGAAAGTGTCGATGCC
TT
Found at i:1105743 original size:35 final size:36
Alignment explanation
Indices: 1105704--1105788 Score: 127
Period size: 35 Copynumber: 2.4 Consensus size: 36
1105694 ACATCTTTCA
*
1105704 GTTCGATTTGAATCGGAAGTGTCGATG-CTTCTTCC
1 GTTCGATTTGAATCGGAAGTGTCGATGCCTCCTTCC
* *
1105739 GTTCGATTTGAATCGGAAGTTTCTATGCCTCCTTCC
1 GTTCGATTTGAATCGGAAGTGTCGATGCCTCCTTCC
*
1105775 GTTCGATGTGAATC
1 GTTCGATTTGAATC
1105789 ATCTCTTCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 25 0.56
36 20 0.44
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (36 bp):
GTTCGATTTGAATCGGAAGTGTCGATGCCTCCTTCC
Found at i:1112256 original size:23 final size:23
Alignment explanation
Indices: 1112229--1112277 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
1112219 TGGTGGTTGG
1112229 TTTAATGG-ATATTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
1112252 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
1112275 TTT
1 TTT
1112278 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:1117436 original size:49 final size:46
Alignment explanation
Indices: 1117325--1117446 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 46
1117315 GTAACCATGC
*
1117325 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
* * * **
1117371 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTATGGAA---T-AATGGCAAGTATATTGAAAAA
*
1117420 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
1117447 AGGTAATAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.03
46 23 0.36
49 25 0.39
50 14 0.22
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
Found at i:1119158 original size:6 final size:6
Alignment explanation
Indices: 1119147--1119171 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1119137 AAGACCTATG
1119147 GGTCAT GGTCAT GGTCAT GGTCAT G
1 GGTCAT GGTCAT GGTCAT GGTCAT G
1119172 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GGTCAT
Found at i:1122647 original size:16 final size:16
Alignment explanation
Indices: 1122626--1122662 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1122616 CAAGAACGTG
1122626 AGAAAGCTTGAAGGTA
1 AGAAAGCTTGAAGGTA
1122642 AGAAAGCTTGAAGGTA
1 AGAAAGCTTGAAGGTA
1122658 AGAAA
1 AGAAA
1122663 ATATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.30, T:0.16
Consensus pattern (16 bp):
AGAAAGCTTGAAGGTA
Found at i:1130056 original size:5 final size:5
Alignment explanation
Indices: 1130043--1130076 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1130033 AAATTTAAGC
*
1130043 TTTTC TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1130077 GTAATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1130391 original size:20 final size:20
Alignment explanation
Indices: 1130368--1130412 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1130358 TTAACTTTTT
*
1130368 CTTTTCTCTTTCATCCTTAA
1 CTTTTCTATTTCATCCTTAA
**
1130388 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATCCTTAA
1130408 CTTTT
1 CTTTT
1130413 ACTTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTTCTATTTCATCCTTAA
Found at i:1133665 original size:23 final size:23
Alignment explanation
Indices: 1133638--1133686 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
1133628 TGGTGGTTGG
1133638 TTTAATGG-ATATTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
1133661 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
1133684 TTT
1 TTT
1133687 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:1135511 original size:20 final size:20
Alignment explanation
Indices: 1135486--1135530 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1135476 GTCACCACCT
1135486 TATTTGATACAAAATGTTGA
1 TATTTGATACAAAATGTTGA
1135506 TATTTGATACAAAATGTTGA
1 TATTTGATACAAAATGTTGA
*
1135526 AATTT
1 TATTT
1135531 TACAACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (20 bp):
TATTTGATACAAAATGTTGA
Found at i:1135779 original size:2 final size:2
Alignment explanation
Indices: 1135772--1135819 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1135762 ATTTACAATG
1135772 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
1135814 AT AT AT
1 AT AT AT
1135820 CATTAAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1136220 original size:12 final size:12
Alignment explanation
Indices: 1136203--1136228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1136193 TTAATAATCT
1136203 TTTTATATATAA
1 TTTTATATATAA
1136215 TTTTATATATAA
1 TTTTATATATAA
1136227 TT
1 TT
1136229 ATTAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATATATAA
Found at i:1136273 original size:26 final size:23
Alignment explanation
Indices: 1136223--1136298 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
1136213 AATTTTATAT
1136223 ATAATTATTA-A-A-TAAAAATA
1 ATAATTATTATATATTAAAAATA
1136243 A-AATTATTGATTATATTAAAAATA
1 ATAATTATT-A-TATATTAAAAATA
*
1136267 ATTAATTATTATATATAAAAAATA
1 A-TAATTATTATATATTAAAAATA
*
1136291 ATGATTAT
1 ATAATTAT
1136299 ATAAAAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
19 7 0.15
20 2 0.04
22 1 0.02
23 7 0.15
24 22 0.47
25 1 0.02
26 7 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
ATAATTATTATATATTAAAAATA
Found at i:1136297 original size:20 final size:22
Alignment explanation
Indices: 1136244--1136306 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
1136234 ATAAAAATAA
*
1136244 AATTATTGATTATAT-TAAAAAT
1 AATTAATGATTATATAT-AAAAT
*
1136266 AATTAATTATTATATATAAAA-
1 AATTAATGATTATATATAAAAT
1136287 AA-TAATGATTATATA-AAAAT
1 AATTAATGATTATATATAAAAT
1136307 CTAAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.11
20 12 0.33
21 2 0.06
22 17 0.47
23 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
AATTAATGATTATATATAAAAT
Found at i:1147903 original size:27 final size:27
Alignment explanation
Indices: 1147873--1147930 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
1147863 ATCAATTTGG
* *
1147873 TTCAAATTAATCTTAGATAAAATAA-AT
1 TTCAAATTAAGC-TAGATAAAAAAATAT
* *
1147900 TTCAATTTGAGCTAGATAAAAAAATAT
1 TTCAAATTAAGCTAGATAAAAAAATAT
1147927 TTCA
1 TTCA
1147931 TTTAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (27 bp):
TTCAAATTAAGCTAGATAAAAAAATAT
Found at i:1148615 original size:21 final size:21
Alignment explanation
Indices: 1148573--1148615 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
1148563 ATAAATATTG
1148573 TTTTTAAAAAAATAATTTTAAA
1 TTTTTAAAAAAAT-ATTTTAAA
*
1148595 TTTTTAATAAAAT-TTTATAAA
1 TTTTTAAAAAAATATTT-TAAA
1148616 CAATAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 4 0.21
22 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTTAAAAAAATATTTTAAA
Found at i:1148896 original size:25 final size:25
Alignment explanation
Indices: 1148846--1148896 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
1148836 TTTATAAATT
*
1148846 TTTAAATATTTATTATTTAATAGTA
1 TTTAAATATTTATTATTAAATAGTA
1148871 TTTAAA-ATTTAAGTTATTAAAT-GTA
1 TTTAAATATTT-A-TTATTAAATAGTA
1148896 T
1 T
1148897 ATATCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (25 bp):
TTTAAATATTTATTATTAAATAGTA
Found at i:1149659 original size:35 final size:35
Alignment explanation
Indices: 1149613--1149698 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
1149603 AAAAATTCAA
*
1149613 TGAGCTTAACGAGCAACGAAACAAGCAACGAGCAT
1 TGAGCTTAACGAGCAACGAAACAAACAACGAGCAT
**
1149648 TGAGCTTAACGAGCAACGAGGCAAACAACGAGCAT
1 TGAGCTTAACGAGCAACGAAACAAACAACGAGCAT
*
1149683 CGAGCTTAACGAGCAA
1 TGAGCTTAACGAGCAA
1149699 TAAACATCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (35 bp):
TGAGCTTAACGAGCAACGAAACAAACAACGAGCAT
Found at i:1149695 original size:16 final size:16
Alignment explanation
Indices: 1149639--1149697 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
1149629 CGAAACAAGC
*
1149639 AACGAGCATTGAGCTT
1 AACGAGCATCGAGCTT
* **
1149655 AACGAGCAACGAGGCAAAC
1 AACGAGCATCGA-GC--TT
1149674 AACGAGCATCGAGCTT
1 AACGAGCATCGAGCTT
1149690 AACGAGCA
1 AACGAGCA
1149698 ATAAACATCG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 18 0.55
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (16 bp):
AACGAGCATCGAGCTT
Found at i:1151632 original size:2 final size:2
Alignment explanation
Indices: 1151625--1151651 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1151615 CGTATACGGA
1151625 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1151652 TTCTTCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1154153 original size:2 final size:2
Alignment explanation
Indices: 1154146--1154206 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1154136 AAAACAAACT
1154146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
1154188 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1154207 GATAAAAGGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1155558 original size:20 final size:20
Alignment explanation
Indices: 1155530--1155581 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1155520 ACATGTAACG
1155530 AATTTGACAAAACCGATTGGA
1 AATTTGACAAAACCGATT-GA
*
1155551 AA-TTGACAAAACCGGTTGA
1 AATTTGACAAAACCGATTGA
1155570 AATTTGACAAAA
1 AATTTGACAAAA
1155582 TTGATTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 23 0.79
21 2 0.07
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.23
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGA
Found at i:1162816 original size:414 final size:414
Alignment explanation
Indices: 1162034--1162816 Score: 1107
Period size: 414 Copynumber: 1.9 Consensus size: 414
1162024 TTATTTTTGT
*
1162034 TGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTGATTACCAAAAACT
1 TGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACT
* *
1162099 TGATTTTTATTATCTAATGTGATAATTTTTTTCTATAACAATAACTATAAATTATAATTACAAAA
66 TGAATTTTATTATCTAATGTAATAATTTTTTTCTATAACAATAACTATAAATTATAATTACAAAA
* * *
1162164 CTTATCAATATAAATTTTTGAAACAAAAAAGTGGAAAAAAATATTTATAACAATATATGTTATCA
131 CTTATCAATATAAACTTTTGAAACAAAAAAGTGGAAAAAAATAGTTATAACAATATATGCTATCA
* **
1162229 CTATAATTAAAATTTATAGCTAAAAGTATAATTTGCCACAAAAGTGTGAATACCATTATTTTTCG
196 CTATAATTAAAATTTATAACTAAAAGTATAATTTGCCACAAAAACGTGAATACCATTATTTTTCG
* * *
1162294 TGACAATGTTTTTTTTTGTAATAATTATACACTTATAGTTACGAAAATTGTTACTATAAGATTTT
261 TGACAACG--TTTTTTTGTAATAATTATACACTTATAGTTACGAAAATTGTCACAATAAGATTTT
*
1162359 TTGGCACAAAAAATATGGAGAAAAATCTTTATGACAATATATTTTGTTACTACATAACATTTTTG
324 TTGGCACAAAAAATATAGAGAAAAATCTTTATGACAATATATTTTGTTACTACATAACATTTTTG
1162424 ACACTAAAGATAGGGAGAAATGGTTC
389 ACACTAAAGATAGGGAGAAATGGTTC
* * *
1162450 TGATAGTATTATTTTTCATAATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAACT
1 TGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACT
* * * *
1162515 TGAATTTTATTATTTGATGTAATAA-TTTTTTCTGTAACAATAACTAT-AATTATAATTATAAAA
66 TGAATTTTATTATCTAATGTAATAATTTTTTTCTATAACAATAACTATAAATTATAATTACAAAA
* * *
1162578 -TTGTCAATAT-AACTTTTGAAATAAAAAAGTTGAGAAAAAAATAGTTATGACAATATATGCTAT
131 CTTATCAATATAAACTTTTGAAACAAAAAAG-TG-GAAAAAAATAGTTATAACAATATATGCTAT
* * **
1162641 CACTATAGTTAAAATTTATAACTACAAA-TATAATTTGTCACAAAAACGTGAATAGTATTATTTT
194 CACTATAATTAAAATTTATAACTA-AAAGTATAATTTGCCACAAAAACGTGAATACCATTATTTT
*
1162705 T-GTGACAACG-TTTTTTGTAATAATTATTAACACTTATAGTTAC-AAAATTTGTCACAATATGA
258 TCGTGACAACGTTTTTTTGTAATAATTA-T-ACACTTATAGTTACGAAAA-TTGTCACAATAAGA
** * * *
1162767 CTTTTTTGTCGCA-AAAAAATATAGAGGGAAATTTTTTTGACAGTATATTT
320 -TTTTTTG--GCACAAAAAATATAGAGAAAAATCTTTATGACAATATATTT
1162817 GGTCACTATA
Statistics
Matches: 325, Mismatches: 33, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
410 16 0.05
411 5 0.02
412 42 0.13
413 26 0.08
414 127 0.39
415 27 0.08
416 82 0.25
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (414 bp):
TGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACT
TGAATTTTATTATCTAATGTAATAATTTTTTTCTATAACAATAACTATAAATTATAATTACAAAA
CTTATCAATATAAACTTTTGAAACAAAAAAGTGGAAAAAAATAGTTATAACAATATATGCTATCA
CTATAATTAAAATTTATAACTAAAAGTATAATTTGCCACAAAAACGTGAATACCATTATTTTTCG
TGACAACGTTTTTTTGTAATAATTATACACTTATAGTTACGAAAATTGTCACAATAAGATTTTTT
GGCACAAAAAATATAGAGAAAAATCTTTATGACAATATATTTTGTTACTACATAACATTTTTGAC
ACTAAAGATAGGGAGAAATGGTTC
Found at i:1163069 original size:182 final size:179
Alignment explanation
Indices: 1162640--1163082 Score: 447
Period size: 182 Copynumber: 2.5 Consensus size: 179
1162630 ATATATGCTA
* * * * *
1162640 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAACGTGAATAGT-ATTATTT
1 TCACTATAATTAAAATATATAACTACAAA-AAAATTTGTCACAAAAACGTAAAT-CTCATTATTT
* * * **
1162704 -TTGTGACAACGTTTTTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACAATATGAC
64 GTTGTGACAACTTTTTTTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACAATATGAC
* * *
1162768 TTTTTTGTCGCAAAAAAATATAGAGGGAAATTTTTTTGACAGTATATTTGG
129 TTTTTTGTCGCAAAAAAATATAGAGAGAAATATTTGTGACAGTATATTTGG
* * * * * *
1162819 TCACTATAATTAAAAGATATAACAACAAAAACTATTTTTTACTAAAAACTTAAATCTCATTATTT
1 TCACTATAATTAAAATATATAACTACAAAAA-AATTTGTCAC-AAAAACGTAAATCTCATTATTT
* *
1162884 GTTGTGACAACTTTTTTTGTAACAATAATTATA-GCTTATAGTTACAAAACATGTCACTATATGA
64 GTTGTGACAACTTTTTTTGTAACAATAATTA-ACACTTATAGTTACAAAACATGTCACAATATGA
* * * * *
1162948 TTTTGTTTTTTGTACAAAAAAT-T-G-GAGATAATCATTTGTGA-A-TATACGTTTTG
128 CTTT-TTTGTCGCA-AAAAAATATAGAGAGA-AAT-ATTTGTGACAGTATA--TTTGG
*
1163001 TCACTATAATTAAAATATATAATTACAAACAAAATTTGTCACAACAAATC-TAAATCTCATTATT
1 TCACTATAATTAAAATATATAACTACAAA-AAAATTTGTCACAA-AAA-CGTAAATCTCATTATT
1163065 TGTTGTGACAA-TTTTTTT
63 TGTTGTGACAACTTTTTTT
1163083 CTGTCATAGT
Statistics
Matches: 218, Mismatches: 32, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
178 1 0.00
179 33 0.15
180 24 0.11
181 71 0.33
182 79 0.36
183 10 0.05
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (179 bp):
TCACTATAATTAAAATATATAACTACAAAAAAATTTGTCACAAAAACGTAAATCTCATTATTTGT
TGTGACAACTTTTTTTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACAATATGACTT
TTTTGTCGCAAAAAAATATAGAGAGAAATATTTGTGACAGTATATTTGG
Found at i:1167837 original size:21 final size:19
Alignment explanation
Indices: 1167805--1167844 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
1167795 AATAATTTGT
1167805 ACGTAAAAAGTATCGATAC
1 ACGTAAAAAGTATCGATAC
*
1167824 ACGTATAACAAGTATTGATAC
1 ACGTA-AA-AAGTATCGATAC
1167845 TTATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (19 bp):
ACGTAAAAAGTATCGATAC
Found at i:1168508 original size:199 final size:197
Alignment explanation
Indices: 1167855--1168939 Score: 1256
Period size: 199 Copynumber: 5.5 Consensus size: 197
1167845 TTATAAATAT
* * * * * **
1167855 GTAATTTTACAATGAAAATGGTAAAAATCTACCAATTTAATGATAATGGGTATAAACATAAAGTA
1 GTAAATTTACAATGTAAACGGT-AAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTA
* * * *
1167920 TCGATACTC---GTATAGATATCAATACTTTTAGTCTAGTATGCTTCTTAACAATTTGCCCGCAT
65 TCGATACTCTTTGTATAG-TATCAATACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCAC
* * * *
1167982 AAAGTATCGATACATGTATAACCAA-TATCGATACTTATAATTTCAAAACCGGTTAGTTTAAAAT
129 AAAGTATCGATACATGTATAA-CAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAGT
1168046 TATAG
193 TATAG
* * *
1168051 GTAAATTTACAATGTTAACGGTAAAAGTCTACCGGTTTAATGATAATAGACGTAAACATAAAGTA
1 GTAAATTTACAATGTAAACGGTAAAA-TCTACCGATTTAATGATAATAGGCGTAAACATAAAGTA
* * * * * ** *
1168116 TCGATACTTTTTATACATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACACA
65 TCGATACTCTTTGTATA-GTATCAATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCACGCA
* * * * * * * *
1168181 GAAAGAATCTATACACGTATCACAAGTATCAATACCTATAATTTTGAAACCGATTACTTTAAAGT
128 CAAAGTATCGATACATGTATAACAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAGT
*
1168246 AATAG
193 TATAG
* * * * ** *
1168251 GTAATTTTACAATGAAAACGATGAAAATCTACCGGTTTAATGATAATAGATGTAAACATAAAATA
1 GTAAATTTACAATGTAAACGGT-AAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTA
* *
1168316 TTGATACTCTTTGTATATGTATCAATACTTTTAGTCCAGTATGCTTCTCAACAATTTGCCCGCAC
65 TCGATACTCTTTGTATA-GTATCAATACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCAC
* * * *
1168381 AAAGTATCAATACATGTATAACAAGTATCGATACTTATAATTTCGAAATCAATTACTTTAAATTT
129 AAAGTATCGATACATGTATAACAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAGTT
1168446 ATAG
194 ATAG
* * *
1168450 GTAAATTTACAATGTCAACGGTAAAAGTCTACCGATTTAATGATAATAGGCATAAACATAGAGTA
1 GTAAATTTACAATGTAAACGGTAAAA-TCTACCGATTTAATGATAATAGGCGTAAACATAAAGTA
* * * *
1168515 TCGATACTTTTTGTATAGATATCGATACTTTTAGTCCAATATTCTTCTCAACAATTTGCACGCAC
65 TCGATACTCTTTGTATAG-TATCAATACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCAC
* * ** *
1168580 AAGGTATCGATACATGTATAACAAGTATCGATACTTATAATTTCAAAATTGATTACTTTAAATTT
129 AAAGTATCGATACATGTATAACAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAGTT
*
1168645 ATTG
194 ATAG
1168649 GTAAATTTACAATGTAAACGGT-AAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTAT
1 GTAAATTTACAATGTAAACGGTAAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTAT
* * **
1168713 C-ATTACTCTTTGTATAGGTATCAATACTTTTAGTCCAGTATGTTTCTCAAAAAACATGCACGCA
66 CGA-TACTCTTTGTATA-GTATCAATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCACGCA
* * * * *
1168777 GAAAGTATCGATACACGTATCAA-AAATATCAATACTTATAATTTCGAAACCTATTAC-TT--AG
128 CAAAGTATCGATACATGTAT-AACAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAG
*
1168838 TAATAG
192 TTATAG
** *
1168844 GTAAATTTACAATGTAAACAATAAAAATCTACC-AGTTTAATGATAATAGGCGTAAACATAAAAT
1 GTAAATTTACAATGTAAACGGT-AAAATCTACCGA-TTTAATGATAATAGGCGTAAACATAAAGT
* *
1168908 ATCGATACTTTTTGTATAGGTATCGATACTTT
64 ATCGATACTCTTTGTATA-GTATCAATACTTT
1168940 CGATCTAAAA
Statistics
Matches: 759, Mismatches: 112, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
195 29 0.04
196 60 0.08
197 143 0.19
198 67 0.09
199 294 0.39
200 162 0.21
201 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (197 bp):
GTAAATTTACAATGTAAACGGTAAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTAT
CGATACTCTTTGTATAGTATCAATACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCACAA
AGTATCGATACATGTATAACAAGTATCGATACTTATAATTTCGAAACCGATTACTTTAAAGTTAT
AG
Found at i:1169473 original size:21 final size:18
Alignment explanation
Indices: 1169451--1169495 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1169441 ACCAAAACCT
1169451 TCTTCTCAACCAAGGTCA
1 TCTTCTCAACCAAGGTCA
*
1169469 TCTTCTCAACCAAGGTCT
1 TCTTCTCAACCAAGGTCA
*
1169487 TATTCTCAA
1 TCTTCTCAA
1169496 GTAAGGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (18 bp):
TCTTCTCAACCAAGGTCA
Found at i:1173300 original size:18 final size:19
Alignment explanation
Indices: 1173265--1173302 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1173255 CTGGTATTGG
*
1173265 AAGATTAAATAAGGAGTTA
1 AAGATTAAATAAGAAGTTA
*
1173284 AAGA-TAAATATGAAGTTA
1 AAGATTAAATAAGAAGTTA
1173302 A
1 A
1173303 GTTTAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.26
Consensus pattern (19 bp):
AAGATTAAATAAGAAGTTA
Found at i:1176520 original size:15 final size:15
Alignment explanation
Indices: 1176500--1176529 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1176490 ACGACACCAA
*
1176500 CCGATGGAAGACGCT
1 CCGATGGAAAACGCT
1176515 CCGATGGAAAACGCT
1 CCGATGGAAAACGCT
1176530 AAGGCTGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.13
Consensus pattern (15 bp):
CCGATGGAAAACGCT
Found at i:1178180 original size:6 final size:6
Alignment explanation
Indices: 1178169--1178199 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1178159 TGCAATTTTC
*
1178169 AATTTG AATTTG AATTTG AATTTC AATTTG A
1 AATTTG AATTTG AATTTG AATTTG AATTTG A
1178200 GCTCCACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (6 bp):
AATTTG
Found at i:1178186 original size:12 final size:12
Alignment explanation
Indices: 1178165--1178199 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1178155 ATTATGCAAT
1178165 TTTCAATTTGAA
1 TTTCAATTTGAA
*
1178177 TTTGAATTTGAA
1 TTTCAATTTGAA
1178189 TTTCAATTTGA
1 TTTCAATTTGA
1178200 GCTCCACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (12 bp):
TTTCAATTTGAA
Found at i:1180211 original size:200 final size:199
Alignment explanation
Indices: 1179860--1180601 Score: 893
Period size: 200 Copynumber: 3.7 Consensus size: 199
1179850 TAACGTATTG
* * * *
1179860 ATACTTATTATTCCAATATGCATCTCAAACAATTTGTACGCAAAAAGTATCG--GTACATGCATA
1 ATACTT-TTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATATACATGTATA
* ** * * * * *
1179923 ACACGTATTGATACTTATAATTTTGAAACCTATT-TCTTTAAAGTAATAGGTAAATTTACAATGA
65 A-A-GTATCGATACGCAGAATTTCGAAACCAATTAT-TTTAAAGTTATAGGTAAATTTACAATGT
* * * * * *
1179987 AAACGGTAAAAATCTACCAGTTTAATGATAAAAGGCGTAAATATAAAGTATCGATA-ATTATTAT
127 AAACAGTAAAAGTCTACCAGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACATT-TTGT
*
1180051 ATAGTATCG
191 ATAGTATCA
* * ** * * * *
1180060 ATACTTTTATTCCAGTATATATCTCAAATAATATGTATGCAAAAAAGTATCGATATACATGTATA
1 ATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGC-AAAAAGTATCGATATACATGTATA
* *
1180125 AAGTATCGATACGCGGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAACTTTACAATGTAAA
65 AAGTATCGATACGCAGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAAATTTACAATGTAAA
* * *
1180190 CAATAAAAGTCTACTAGTTTAATGATAATAGGCGTAAACATCAAGTATTGATACATTTTGTATAA
130 CAGTAAAAGTCTACCAGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACATTTTGTAT-A
1180255 GTATCA
194 GTATCA
* ** * *
1180261 ATATTTTTAGTCCAATATGCATCTCAAACAATTTGCACTAAAAAAATATCGATATACATGTACAA
1 ATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATATACATGTATAA
* * * *
1180326 AGTATCAATACGCGGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAACTTTACAATATAAAC
66 AGTATCGATACGCAGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAAATTTACAATGTAAAC
* * * *
1180391 AGTGAAAGTCTACCAATTTAGTGATAATA-GCGTAAACATCAAGTATCAATACATTTTGTATAGG
131 AGTAAAAGTCTACCAGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACATTTTGTATA-G
1180455 TATCA
195 TATCA
* * * *
1180460 ATACTTTTAGTCCAATATGCTTCTC-AACAATTTACACGCACAAAGTATCGATACACATGTATAA
1 ATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATATACATGTATAA
* * *
1180524 AGTATCGATATGCAGAATTTCGAAACCTATTACTTTAAAGTTATAGGTAAATTTACAATGTAAAC
66 AGTATCGATACGCAGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAAATTTACAATGTAAAC
*
1180589 GGTAAAAGTCTAC
131 AGTAAAAGTCTAC
1180602 TGATATATTG
Statistics
Matches: 467, Mismatches: 68, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
198 102 0.22
199 87 0.19
200 228 0.49
201 40 0.09
202 10 0.02
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (199 bp):
ATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATATACATGTATAA
AGTATCGATACGCAGAATTTCGAAACCAATTATTTTAAAGTTATAGGTAAATTTACAATGTAAAC
AGTAAAAGTCTACCAGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACATTTTGTATAGT
ATCA
Found at i:1180724 original size:20 final size:20
Alignment explanation
Indices: 1180678--1180742 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
1180668 ACATTTAACG
1180678 AATTTGACAAAACC-GATTGGA
1 AATTTGACAAAACCAG-TT-GA
*
1180699 AA-TTGACAAAACCAGTTAA
1 AATTTGACAAAACCAGTTGA
*
1180718 AATTTGACAAAATCAGTTGA
1 AATTTGACAAAACCAGTTGA
1180738 AATTT
1 AATTT
1180743 CAGAAAATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
AATTTGACAAAACCAGTTGA
Found at i:1180749 original size:20 final size:20
Alignment explanation
Indices: 1180704--1180751 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1180694 TTGGAAATTG
* *
1180704 ACAAAACCAGTTAAAATTTG
1 ACAAAATCAGTTAAAATTTC
*
1180724 ACAAAATCAGTTGAAATTTC
1 ACAAAATCAGTTAAAATTTC
*
1180744 AGAAAATC
1 ACAAAATC
1180752 GGCAAAGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
ACAAAATCAGTTAAAATTTC
Found at i:1181075 original size:20 final size:20
Alignment explanation
Indices: 1181050--1181096 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1181040 TGTTGAAATT
*
1181050 TGACAAAACCAGTTTTAATA
1 TGACAAAACCAGTTTCAATA
*
1181070 TGACAAACCCAGTTTCAATA
1 TGACAAAACCAGTTTCAATA
1181090 TGA-AAAA
1 TGACAAAA
1181097 ATCGGTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (20 bp):
TGACAAAACCAGTTTCAATA
Found at i:1183417 original size:20 final size:20
Alignment explanation
Indices: 1183392--1183430 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1183382 AGGCGTAAAT
1183392 GTACAAGTATTGATACTGTC
1 GTACAAGTATTGATACTGTC
1183412 GTACAAGTATTGATACTGT
1 GTACAAGTATTGATACTGT
1183431 ATATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
GTACAAGTATTGATACTGTC
Found at i:1183785 original size:198 final size:198
Alignment explanation
Indices: 1183416--1183975 Score: 654
Period size: 200 Copynumber: 2.8 Consensus size: 198
1183406 ACTGTCGTAC
* * * * *
1183416 AAGTATTGATACTGTATATAAGTATCGATTCTTATAATTTTGAAA--ATGTTACTTTAAAG-TAT
1 AAGTATCGATAATGTATACAAGTATCGATACTTATAATTTTGAAACCA-ATTACTTTAAAGTTAT
* * * * * *
1183478 AGGTAAATTAACAATGTACACGGTAATATAT-TGAACCTCGA--TACCTAATAATAGGCGTAAAC
65 AGGTAAATTTATAATGTAAACGGTAA-AAATCT--A--TCGATTTA-ATGATAATAGGCGTAAAC
* * * *
1183540 ATGAAGTATCAATACTCTTTGTATATG-TATCGATATTTTTGGTCCAGTACGCTTCTC-AACAAT
124 ATAAAGTATCAATACTCTTTGTATA-GATATCGATACTTTTAGTCCAGTACGCTTCTCAAACAAC
*
1183603 TTGCACGCACA
188 ATGCACGCACA
1183614 AAGTATCGATAATGTATAACAAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTTAT
1 AAGTATCGATAATGTAT-ACAAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTTAT
*
1183679 AGGTAAATTTATAATGTAAACGGTAAAAATCTATCGATTTAATGATAATACGCGTAAACATAAAG
65 AGGTAAATTTATAATGTAAACGGTAAAAATCTATCGATTTAATGATAATAGGCGTAAACATAAAG
* * **
1183744 TATCGATACTCTTTGTATAGATATCGATACTTTTAGTCCAGTATGCTTCTCAAACAACATGTGCG
130 TATCAATACTCTTTGTATAGATATCGATACTTTTAGTCCAGTACGCTTCTCAAACAACATGCACG
*
1183809 CAGA
195 CACA
** * * *
1183813 AAGTATCGATACACATATCACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAA
1 AAGTATCGATA-ATGTAT-ACAAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTTA
* * *
1183878 TAGGTAAATTTATAATATAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAA
64 TAGGTAAATTTATAATGTAAACGGTAAAAATCTATCGATTTAATGATAATAGGCGTAAACATAAA
* *
1183943 GTATCAATATTTTTTGTATA-AGTATCG-TACTTT
129 GTATCAATACTCTTTGTATAGA-TATCGATACTTT
1183976 CGATCTAAAC
Statistics
Matches: 316, Mismatches: 35, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
197 5 0.02
198 80 0.25
199 59 0.19
200 144 0.46
201 28 0.09
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (198 bp):
AAGTATCGATAATGTATACAAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTTATA
GGTAAATTTATAATGTAAACGGTAAAAATCTATCGATTTAATGATAATAGGCGTAAACATAAAGT
ATCAATACTCTTTGTATAGATATCGATACTTTTAGTCCAGTACGCTTCTCAAACAACATGCACGC
ACA
Found at i:1184294 original size:109 final size:109
Alignment explanation
Indices: 1184133--1184541 Score: 330
Period size: 109 Copynumber: 3.7 Consensus size: 109
1184123 AATATGTGTT
* * * *
1184133 GATAATACTGATAGCAAATCAAGTAATTAACCTATTTTGTTATCACCGGATTTCTAAGA-TTCCA
1 GATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGACCT-CA
1184197 TCAACTTTAAACTTTGGTAACATTTTAGACACTACCTAATATGTA
65 TCAACTTTAAACTTTGGTAACATTTTAGACACTACCTAATATGTA
* * *
1184242 GATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCTCAT
1 GATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGACCTCAT
* * * * * * * * *
1184307 CAGCTTTAAAC-ATGCGTTACCTATTACATTAAATAAGCGCTACT-TGTTAA
66 CAACTTTAAACTTTG-GTAACATTTTAGA--CACT-A-C-CTAATATG-T-A
* ** *** * * * * *
1184357 GTTATTATGGTTGATAA-TGTTTCTAGTAATTAACCTATTGTGTTATCGTCGGTTTTCTAAG-GC
1 G--ATAAT-ACTGATAACAAATT-AAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGACC
* * *
1184420 TCCATCAAC-TTAAACTTTGGTAACATTTTAGGCGCTACCTAATATGTT
62 T-CATCAACTTTAAACTTTGGTAACATTTTAGACACTACCTAATATGTA
* * * *
1184468 GAT--TACTGATAACAAATTAAGTAATTAACATATTTTATTATCATCGAATTTTTAAGACCTCAT
1 GATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGACCTCAT
1184531 CAACTTTAAAC
66 CAACTTTAAAC
1184542 AGGTACTACC
Statistics
Matches: 228, Mismatches: 53, Indels: 40
0.71 0.17 0.12
Matches are distributed among these distances:
106 43 0.19
107 11 0.05
108 2 0.01
109 77 0.34
110 1 0.00
111 3 0.01
112 6 0.03
113 6 0.03
114 6 0.03
115 3 0.01
117 22 0.10
118 48 0.21
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (109 bp):
GATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGACCTCAT
CAACTTTAAACTTTGGTAACATTTTAGACACTACCTAATATGTA
Found at i:1184554 original size:224 final size:226
Alignment explanation
Indices: 1184154--1184566 Score: 618
Period size: 224 Copynumber: 1.8 Consensus size: 226
1184144 TAGCAAATCA
* *
1184154 AGTAATTAACCTATTTTGTTATCACCGGATTTCTAAGATTCCATCAACTTTAAACTTTGGTAACA
1 AGTAATTAACCTATTGTGTTATCACCGGATTTCTAAGACTCCATCAACTTTAAACTTTGGTAACA
* *
1184219 TTTTAGACACTACCTAATATGTAGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTA
66 TTTTAGACACTACCTAATATGTAGAT-ATACTAATAACAAATTAAGTAATTAACATATTTTATTA
* * * *
1184284 TCGTCGGATTTCTAAGGCCTCATCAGCTTTAAACATGCGTTACCTATTACATTAAATAAGCGCTA
130 TCATCGAATTTCTAAGACCTCATCAACTTTAAACATGCGTTACCTATTACATTAAATAAGCGCTA
1184349 CTTGTTAAGTTATTATGGTTGATAATGTTTCT
195 CTTGTTAAGTTATTATGGTTGATAATGTTTCT
** * *
1184381 AGTAATTAACCTATTGTGTTATCGTCGGTTTTCTAAGGCTCCATCAAC-TTAAACTTTGGTAACA
1 AGTAATTAACCTATTGTGTTATCACCGGATTTCTAAGACTCCATCAACTTTAAACTTTGGTAACA
* * * *
1184445 TTTTAGGCGCTACCTAATATGTTGAT-TACTGATAACAAATTAAGTAATTAACATATTTTATTAT
66 TTTTAGACACTACCTAATATGTAGATATACTAATAACAAATTAAGTAATTAACATATTTTATTAT
*
1184509 CATCGAATTTTTAAGACCTCATCAACTTTAAACA-G-GTACTACCTATTACATTAAATAA
131 CATCGAATTTCTAAGACCTCATCAACTTTAAACATGCGT--TACCTATTACATTAAATAA
1184567 TTGCTACTGG
Statistics
Matches: 167, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
222 2 0.01
223 1 0.01
224 83 0.50
226 39 0.23
227 42 0.25
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (226 bp):
AGTAATTAACCTATTGTGTTATCACCGGATTTCTAAGACTCCATCAACTTTAAACTTTGGTAACA
TTTTAGACACTACCTAATATGTAGATATACTAATAACAAATTAAGTAATTAACATATTTTATTAT
CATCGAATTTCTAAGACCTCATCAACTTTAAACATGCGTTACCTATTACATTAAATAAGCGCTAC
TTGTTAAGTTATTATGGTTGATAATGTTTCT
Found at i:1184739 original size:21 final size:21
Alignment explanation
Indices: 1184713--1184752 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1184703 AATCGGCGCG
*
1184713 CCAGTCACCATCGTCGCACCA
1 CCAGTCACCACCGTCGCACCA
1184734 CCAGTCACCACCGTCGCAC
1 CCAGTCACCACCGTCGCAC
1184753 AGTCACTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.50, G:0.15, T:0.12
Consensus pattern (21 bp):
CCAGTCACCACCGTCGCACCA
Found at i:1187431 original size:151 final size:151
Alignment explanation
Indices: 1187161--1187463 Score: 590
Period size: 151 Copynumber: 2.0 Consensus size: 151
1187151 CTGGTACTTC
1187161 CCATTTCATGAGATCAAATTTGATATTTAAAATTGTCAAAAAGTGGATTTTGTTTTTGTTTTCTT
1 CCATTTCATGAGATCAAATTTGATATTTAAAATTGTCAAAAAGTGGATTTTGTTTTTGTTTTCTT
1187226 TGCATTGTCCTAACCGAAAATGCTCTTCGTTACTTATATTTGAAATTTAGTTGT-AAAGGGAGTC
66 TGCATTGTCCTAACCGAAAATGCTCTTCGTTACTTATATTTGAAATTTAGTTGTAAAAGGGAGTC
1187290 TAGAAAATTTCAATTCTTCTT
131 TAGAAAATTTCAATTCTTCTT
1187311 CCATTTCATGAGATCAAATTTTGATATTTAAAATTGTCAAAAAGTGGATTTTGTTTTTGTTTTCT
1 CCATTTCATGAGATCAAA-TTTGATATTTAAAATTGTCAAAAAGTGGATTTTGTTTTTGTTTTCT
1187376 TTGCATTGTCCTAACCGAAAATGCTCTTCGTTACTTATATTTGAAATTTAGTTGTAAAAGGGAGT
65 TTGCATTGTCCTAACCGAAAATGCTCTTCGTTACTTATATTTGAAATTTAGTTGTAAAAGGGAGT
1187441 CTAGAAAATTTCAATTCTTCTT
130 CTAGAAAATTTCAATTCTTCTT
1187463 C
1 C
1187464 GGGTTGGAAA
Statistics
Matches: 151, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
150 18 0.12
151 101 0.67
152 32 0.21
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (151 bp):
CCATTTCATGAGATCAAATTTGATATTTAAAATTGTCAAAAAGTGGATTTTGTTTTTGTTTTCTT
TGCATTGTCCTAACCGAAAATGCTCTTCGTTACTTATATTTGAAATTTAGTTGTAAAAGGGAGTC
TAGAAAATTTCAATTCTTCTT
Found at i:1187759 original size:46 final size:46
Alignment explanation
Indices: 1187692--1187783 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
1187682 AGAGATAGAG
1187692 AACGAGATCCGGTCAAAGGAAGAGAAGGGGAAGGGAGAAGCTGGGA
1 AACGAGATCCGGTCAAAGGAAGAGAAGGGGAAGGGAGAAGCTGGGA
1187738 AACGAGATCCGGTCAAAGGAAGAGAAGGGGAAGGGAGAAGCTGGGA
1 AACGAGATCCGGTCAAAGGAAGAGAAGGGGAAGGGAGAAGCTGGGA
1187784 GTGCCTTCCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.11, G:0.43, T:0.07
Consensus pattern (46 bp):
AACGAGATCCGGTCAAAGGAAGAGAAGGGGAAGGGAGAAGCTGGGA
Found at i:1188455 original size:18 final size:18
Alignment explanation
Indices: 1188432--1188466 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1188422 AGTAGTGTCT
*
1188432 ATTAAAATTATTATTGAG
1 ATTAAAAGTATTATTGAG
*
1188450 ATTAAAAGTATTCTTGA
1 ATTAAAAGTATTATTGA
1188467 AATTTGGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTAAAAGTATTATTGAG
Found at i:1189472 original size:43 final size:43
Alignment explanation
Indices: 1189383--1189508 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
1189373 GCAGGCTTGT
* * * *
1189383 AGCGTTTATGTAAAAAA-GCCGTTATATG-CT-TGACTTGTTGC
1 AGCGTTTGTGTAAAAAACGCCGCTATA-GAATATGACTTATTGC
1189424 AGCGTTTGTGTAAAAAACGCCGCTATAGAATATGACTTATTGC
1 AGCGTTTGTGTAAAAAACGCCGCTATAGAATATGACTTATTGC
* * * * *
1189467 GGCGTTTGTATAAAAAACGCCGCTATAAAACATGACCTATTG
1 AGCGTTTGTGTAAAAAACGCCGCTATAGAATATGACTTATTG
1189509 GCATTAGTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 17 0.23
42 9 0.12
43 47 0.64
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (43 bp):
AGCGTTTGTGTAAAAAACGCCGCTATAGAATATGACTTATTGC
Found at i:1193077 original size:3 final size:3
Alignment explanation
Indices: 1193069--1193121 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
1193059 TGAAACTCCA
*
1193069 AAG AAG AAGG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAC AAG
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
1193114 AAA AAG AA
1 AAG AAG AA
1193122 AGAGGTGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1193630 original size:20 final size:20
Alignment explanation
Indices: 1193598--1193646 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1193588 AAAATGATTT
* * *
1193598 TTTTG-AAAGCAAAATTAGA
1 TTTTGAAAAACAAAATGAAA
1193617 TTTTGAAAAACAAAATGAAA
1 TTTTGAAAAACAAAATGAAA
1193637 TTTTGAAAAA
1 TTTTGAAAAA
1193647 TGATTTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAACAAAATGAAA
Found at i:1200199 original size:39 final size:40
Alignment explanation
Indices: 1200145--1200262 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
1200135 TATCGATTAA
* **
1200145 GCACTTTGGTGCATATGGTCAGTATGACC-TATGTGTAAT
1 GCACTTCGGTGCATATGGTCAGTACAACCTTATGTGTAAT
* **
1200184 GCACTTCGGTGCATATAGTGGGTACAACCTTATGTGTAAT
1 GCACTTCGGTGCATATGGTCAGTACAACCTTATGTGTAAT
** *
1200224 GCACTTCGGTGCATATGGTGGGCACAACCTTATGTGTAA
1 GCACTTCGGTGCATATGGTCAGTACAACCTTATGTGTAA
1200263 GAACTACGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 23 0.33
40 47 0.67
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
GCACTTCGGTGCATATGGTCAGTACAACCTTATGTGTAAT
Found at i:1200228 original size:40 final size:40
Alignment explanation
Indices: 1200174--1200279 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 40
1200164 CAGTATGACC
*
1200174 TATGTGTAATGCACTTCGGTGCATATAGTGGGTACAACCT
1 TATGTGTAATGCACTTCGGTGCATATAGTGGGCACAACCT
*
1200214 TATGTGTAATGCACTTCGGTGCATATGGTGGGCACAACCT
1 TATGTGTAATGCACTTCGGTGCATATAGTGGGCACAACCT
* * *
1200254 TATGTGTAA-GAACTACGATGCATATA
1 TATGTGTAATGCACTTCGGTGCATATA
1200280 TTTAACTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.22
40 47 0.78
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (40 bp):
TATGTGTAATGCACTTCGGTGCATATAGTGGGCACAACCT
Found at i:1202762 original size:16 final size:16
Alignment explanation
Indices: 1202741--1202772 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1202731 GCTAGGATTT
1202741 CACTCGACTAAAAGGA
1 CACTCGACTAAAAGGA
1202757 CACTCGACTAAAAGGA
1 CACTCGACTAAAAGGA
1202773 GTAGTGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (16 bp):
CACTCGACTAAAAGGA
Found at i:1207382 original size:20 final size:21
Alignment explanation
Indices: 1207357--1207398 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1207347 CGATCCATCA
*
1207357 TAAAAAAG-GATTGATCCTTT
1 TAAAAAAGAGATCGATCCTTT
*
1207377 TAAAAAAGAGATCGATTCTTT
1 TAAAAAAGAGATCGATCCTTT
1207398 T
1 T
1207399 TTTGTGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAAAAAAGAGATCGATCCTTT
Found at i:1207713 original size:19 final size:20
Alignment explanation
Indices: 1207677--1207719 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1207667 TTGCTACATT
**
1207677 TAAACATCATATTCTCAAAA
1 TAAACATCATATAATCAAAA
*
1207697 TAAACAT-ATATAATCAATA
1 TAAACATCATATAATCAAAA
1207716 TAAA
1 TAAA
1207720 GCATGGATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAACATCATATAATCAAAA
Found at i:1208384 original size:114 final size:114
Alignment explanation
Indices: 1208184--1208411 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
1208174 AAATATTAGA
1208184 ATTATGACCATGATAATGAAAGTATGAAAAATTTTCCATTATTTACTTTGATGAATTATTAGAAA
1 ATTATGACCATGATAATGAAAGTATGAAAAATTTTCCATTATTTACTTTGATGAATTATTAGAAA
1208249 TAATTTATTTTTCTTTTATTAAGCTTAATTTTTAAATAAAGAATTTTTT
66 TAATTTATTTTTCTTTTATTAAGCTTAATTTTTAAATAAAGAATTTTTT
1208298 ATTATGACCATGATAATGAAAGTATGAAAAATTTTCCATTATTTACTTTGATGAATTATTAGAAA
1 ATTATGACCATGATAATGAAAGTATGAAAAATTTTCCATTATTTACTTTGATGAATTATTAGAAA
1208363 TAATTTATTTTTCTTTTATTAAGCTTAATTTTTAAATAAAGAATTTTTT
66 TAATTTATTTTTCTTTTATTAAGCTTAATTTTTAAATAAAGAATTTTTT
1208412 TCTTCAAAAT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (114 bp):
ATTATGACCATGATAATGAAAGTATGAAAAATTTTCCATTATTTACTTTGATGAATTATTAGAAA
TAATTTATTTTTCTTTTATTAAGCTTAATTTTTAAATAAAGAATTTTTT
Found at i:1212577 original size:30 final size:31
Alignment explanation
Indices: 1212504--1212575 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
1212494 TACACAATAA
* **
1212504 TCCA-CAACTTTTCCAAAATTATCAATTTGG
1 TCCACCAACTTTTCAAAAATTATCAAAATGG
1212534 TCCACCAACTTTTCAAAAATTAT-AAAATGG
1 TCCACCAACTTTTCAAAAATTATCAAAATGG
*
1212564 TCC-CCAAATTTT
1 TCCACCAACTTTT
1212576 TCTAAGGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.22
30 12 0.32
31 17 0.46
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (31 bp):
TCCACCAACTTTTCAAAAATTATCAAAATGG
Found at i:1221475 original size:15 final size:15
Alignment explanation
Indices: 1221449--1221483 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1221439 TAATTTAAAA
1221449 TTAAATTTTAATT-T
1 TTAAATTTTAATTAT
1221463 TTAAATATTTAATTAT
1 TTAAAT-TTTAATTAT
1221479 TTAAA
1 TTAAA
1221484 ATACCAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAATTTTAATTAT
Found at i:1221606 original size:17 final size:17
Alignment explanation
Indices: 1221586--1221619 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1221576 TTTATGTGAC
1221586 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
1221603 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
1221620 CAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:1221641 original size:16 final size:16
Alignment explanation
Indices: 1221622--1221657 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1221612 AGTAATAACA
1221622 AAATAATA-TTATAAAT
1 AAATAATATTTA-AAAT
1221638 AAATAATATTTAAAAT
1 AAATAATATTTAAAAT
1221654 AAAT
1 AAAT
1221658 TTAAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATATTTAAAAT
Found at i:1221735 original size:22 final size:22
Alignment explanation
Indices: 1221710--1221752 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
1221700 CAGGATCAAA
1221710 GTGA-AAAGAAACTAAAATATTG
1 GTGACAAA-AAACTAAAATATTG
*
1221732 GTGACTAAAAAAGTAAAATAT
1 GTGAC-AAAAAACTAAAATAT
1221753 CAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 11 0.61
24 3 0.17
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (22 bp):
GTGACAAAAAACTAAAATATTG
Found at i:1222886 original size:3 final size:3
Alignment explanation
Indices: 1222880--1222932 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
1222870 ATTATTTATT
* *
1222880 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1222924 TAA TAA TAA
1 TAA TAA TAA
1222933 CTAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1222902 original size:19 final size:19
Alignment explanation
Indices: 1222880--1222932 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
1222870 ATTATTTATT
* *
1222880 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
1222899 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
*
1222918 AAATAATAATAATAA
1 TAATAATAATAATAA
1222933 CTAAAACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Done.